<?xml version="1.0" encoding="ISO-8859-1"?>
<GTH_output xmlns="http://www.genomethreader.org/GTH_output/" GTH_XML_version="1.1">
  <header xmlns="http://www.genomethreader.org/GTH_output/header/">
    <source program="GenomeThreader" version="0.9.54" build_date="2006-07-28 11:55:15" run_date="2009-12-01 13:15:12"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" type="ESTcDNA"/>
    </reference_files>
    <splice_site_parameters parameter_type="Bayesian" species="arabidopsis"/>
    <parameters>
      <parameter name="bssmfile" value="arabidopsis"/>
      <parameter name="scorematrixfile" value="BLOSUM62"/>
      <parameter name="searchmode" value="forward=True,reverse=True)"/>
      <parameter name="translationtable" value="1"/>
      <parameter name="frompos" value="0"/>
      <parameter name="topos" value="0"/>
      <parameter name="width" value="0"/>
      <parameter name="verbose" value="False"/>
      <parameter name="skipalignmentout" value="False"/>
      <parameter name="showintronmaxlen" value="120"/>
      <parameter name="minorflen" value="64"/>
      <parameter name="showseqnums" value="False"/>
      <parameter name="gs2out" value="False"/>
      <parameter name="maskpolyatails" value="False"/>
      <parameter name="noautoindex" value="False"/>
      <parameter name="minmatchlen" value="20"/>
      <parameter name="seedlength" value="16"/>
      <parameter name="exdrop" value="2"/>
      <parameter name="online" value="False"/>
      <parameter name="inverse" value="False"/>
      <parameter name="exact" value="False"/>
      <parameter name="chainwf" value="0.500000"/>
      <parameter name="gcmaxgapwidth" value="1000000"/>
      <parameter name="gcmincoverage" value="50"/>
      <parameter name="introncutout" value="False"/>
      <parameter name="autointroncutout" value="0"/>
      <parameter name="icinitialdelta" value="50"/>
      <parameter name="iciterations" value="2"/>
      <parameter name="icdeltaincrease" value="50"/>
      <parameter name="icminremintronlen" value="10"/>
      <parameter name="nou12intronmodel" value="False"/>
      <parameter name="u12donorprob" value="0.990000"/>
      <parameter name="u12donorprob1mism" value="0.900000"/>
      <parameter name="probies" value="0.500000"/>
      <parameter name="probdelgen" value="0.030000"/>
      <parameter name="identityweight" value="2.000000"/>
      <parameter name="mismatchweight" value="-2.000000"/>
      <parameter name="undetcharweight" value="0.000000"/>
      <parameter name="deletionweight" value="-4.000000"/>
      <parameter name="dpminexonlen" value="5"/>
      <parameter name="dpminintronlen" value="50"/>
      <parameter name="shortexonpenal" value="100"/>
      <parameter name="shortintronpenal" value="100"/>
      <parameter name="wzerotransition" value="80"/>
      <parameter name="wdecreasedoutput" value="80"/>
      <parameter name="leadcutoffsmode" value="RELAXED"/>
      <parameter name="termcutoffsmode" value="STRICT"/>
      <parameter name="cutoffsminexonlen" value="5"/>
      <parameter name="scoreminexonlen" value="50"/>
      <parameter name="minaveragessp" value="0.500000"/>
      <parameter name="minalignmentscore" value="0.900000"/>
      <parameter name="maxalignmentscore" value="1.000000"/>
      <parameter name="mincoverage" value="0.900000"/>
      <parameter name="maxcoverage" value="100.000000"/>
      <parameter name="intermediate" value="False"/>
      <parameter name="sortags" value="False"/>
      <parameter name="sortagswf" value="1.000000"/>
      <parameter name="first" value="0"/>
      <parameter name="exondistri" value="False"/>
      <parameter name="introndistri" value="False"/>
      <parameter name="refseqcovdistri" value="False"/>
    </parameters>
    <overall_reference_type>ESTcDNA</overall_reference_type>
  </header>
  <alignment_module>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E270240" ref_strand="+" ref_description="SGN-E270240 [cLEM-1-F14]">
      <seq>tatcatatccgtgggcaatcaacaccaagtattataatgctgatgtttctgtttggatggcccatcttcatgaggacttctccattggagccctgccagcatatgatcagcttgttgcattggtgatggtctttgacgttactgatctctcatcttttgttgcgcttaaagattttgtctcccgcactgacatcctcaagtttgagattttgttatgcattggcaacaaagtggaccttcttcctggtcattcggctcatgttgaatacaggcagctcctgttgaaaagtgcagactcctctggtagcccttattcagaaatggattctggaatttctgaaacagaaggaagcagtctactaggagatgatgactcatcatttgatgctaaaaggtcctacttggaatggtgcctcgaacacagcatagaatatgtagaagcctgtgcatcaaatgctgaatttgacaaatgtctttctatggat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="1420" stop="2614"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="1595" g_stop="1604" g_length="10"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="10" r_length="10" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="1605" i_stop="1719" i_length="115">
            <donor d_prob="0.999" d_score="0.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="1720" g_stop="1855" g_length="136"/>
          <reference_exon_boundary r_type="cDNA" r_start="11" r_stop="146" r_length="136" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1856" i_stop="1976" i_length="121">
            <donor d_prob="0.987" d_score="1.00"/>
            <acceptor a_prob="0.905" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1977" g_stop="2301" g_length="325"/>
          <reference_exon_boundary r_type="cDNA" r_start="147" r_stop="471" r_length="325" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E270240" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>471</cumulative_length_of_scored_exons>
        <coverage percentage="0.971" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E270240" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="1595" e_stop="1604"/>
          <exon e_start="1720" e_stop="1855"/>
          <exon e_start="1977" e_stop="2301"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATCATATCCGTAAGTTGACAAAGTATATCCCCTCCCCTTTAATTAGTTATATTGTTGCAAAAAATTCTCTTATATCTAGAACTTCCTTTCTATGTTATCATTATGCATCATCGTTGTTGATCAGGTGGGCAATCAACACCAAGTATTATAATGCTGATGTTTCTGTTTGGATGGCCCATCTTCATGAGGACTTCTCCATTGGAGCCCTGCCAGCATATGATCAGCTTGTTGCATTGGTGATGGTCTTTGACGTTACTGATGTAAGCCAGACCCTTTTTCCCTATTTGTTTCATTTCCTACTCTACAAAAGCTTCTGTTATCTACGAGACTATAGACTGTACTTCAGAAATCTGATGACTTCTCTTCTGCTACCATCTGCAGCTCTCATCTTTTGTTGCGCTTAAAGATTTTGTCTCCCGCACTGACATCCTCAAGTTTGAGATTTTGTTATGCATTGGCAACAAAGTGGACCTTCTTCCTGGTCATTCGGCTCATGTTGAATACAGGCAGCTCCTGTTGAAAAGTGCAGACTCCTCTGGTAGCCCTTATTCAGAAATGGATTCTGGAATTTCTGAAACAGAAGGAAGCAGTCTACTAGGAGATGATGACTCATCATTTGATGCTAAAAGGTCCTACTTGGAATGGTGCCTCGAACACAGCATAGAATATGTAGAAGCCTGTGCATCAAATGCTGAATTTGACAAAT</genome_strand>
        <mrna_strand>TATCATATCC...................................................................................................................GTGGGCAATCAACACCAAGTATTATAATGCTGATGTTTCTGTTTGGATGGCCCATCTTCATGAGGACTTCTCCATTGGAGCCCTGCCAGCATATGATCAGCTTGTTGCATTGGTGATGGTCTTTGACGTTACTGAT.........................................................................................................................CTCTCATCTTTTGTTGCGCTTAAAGATTTTGTCTCCCGCACTGACATCCTCAAGTTTGAGATTTTGTTATGCATTGGCAACAAAGTGGACCTTCTTCCTGGTCATTCGGCTCATGTTGAATACAGGCAGCTCCTGTTGAAAAGTGCAGACTCCTCTGGTAGCCCTTATTCAGAAATGGATTCTGGAATTTCTGAAACAGAAGGAAGCAGTCTACTAGGAGATGATGACTCATCATTTGATGCTAAAAGGTCCTACTTGGAATGGTGCCTCGAACACAGCATAGAATATGTAGAAGCCTGTGCATCAAATGCTGAATTTGACAAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E290400" ref_strand="-" ref_description="SGN-E290400 [cLES-20-B15]">
      <seq>tttaaagtcgatgatcaggaatgcctcagtttcacttcttgtagagctgatcatagactaaaggaatctcataagcacattgtgcattcatgtcaagtgatatcgacaagatattttatcaaagatatctgctttaaaatttacggatctaattgtgtttatgatgcaaacgcagcagtatttacaagtcctaacaggtgattggtgatgatataaatgattttagcttgttcaggcttcaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="3480" stop="4326"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="3780" g_stop="4026" g_length="247"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="247" r_length="247" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="248" polyA_stop="260"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E290400" ref_strand="-">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>247</cumulative_length_of_scored_exons>
        <coverage percentage="0.950" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E290400" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="3780" e_stop="4026"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTAAAGTCGATGATCACGAATGCCTCAGTTTCACTTCTTGTAGAGCTGATCATAGACTAAAGGAATCTCATAAGCACATTGTGCATTCATGTCAAGTGATATCGACAAGATATTTTATCAAAGATATCTGCTTTAAAATTTACGGATCTAATTGTGTTTATGATGCAAACGCAGCAGTATTTACAAGTCCTAACAGGTGATTGGTGATGATATAAATGATTTTAGCTTGTTCAGGCTTCTACAGAA</genome_strand>
        <mrna_strand>TTTAAAGTCGATGATCAGGAATGCCTCAGTTTCACTTCTTGTAGAGCTGATCATAGACTAAAGGAATCTCATAAGCACATTGTGCATTCATGTCAAGTGATATCGACAAGATATTTTATCAAAGATATCTGCTTTAAAATTTACGGATCTAATTGTGTTTATGATGCAAACGCAGCAGTATTTACAAGTCCTAACAGGTGATTGGTGATGATATAAATGATTTTAGCTTGTTCAGGCTTCAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E328731" ref_strand="+" ref_description="SGN-E328731 [cTOC-23-D11]">
      <seq>tcaattattactatctctttctaaactatgactcgccggtttagatttctgctaacttcgaacgcctcctccacttcgccggcggcggaagaagcggagccaccgtcagccacggcagcggagtccgacttcattgttatacttgctgctttactctgtgcagtaatctgtgtttctggactcatcgtagtagctcgttgtacttggctccggagggacccgccggaaaatccaccgccggtgaagaataaaggattgaagaagaaagttctcaagtatttgccgaaattcaagtatgatccgtcgagcggtgagctgccgtttgcggcggagtgcgcgatttgtctggtggagtatgtagagggagatgaaattcgagtgttgccgaattgtggccatcggtttcacctccagtgtgtggacacgtggcttttgacgaactcgtcgtgcccttcctgccggcagattctcgtagttgctcgtgctcggtgccggaagtgcggggaagttcctgcaatttccggcgaagcctccgacggaggtcaaattttaacggcggtttagtctacaacttacggtaaacgaggttaatatgaaaaagtggccggccggagcatcgtggtaagtgtaaattggtaacggtgttgttattttccggtgatggaaatgggccccgcatgaggtcgagggataaggcatactttccttgtgattatgatggga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="7129" stop="5807"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="6829" g_stop="6107" g_length="723"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="723" r_length="723" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E328731" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>723</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E328731" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6829" e_stop="6107"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAATTATTACTATCTCTTTCTAAACTATGACTCGCCGGTTTAGATTTCTGCTAACTTCGAACGCCTCCTCCACTTCGCCGGCGGCGGAAGAAGCGGAGCCACCGTCAGCCACGGCAGCGGAGTCCGACTTCATTGTTATACTTGCTGCTTTACTCTGTGCAGTAATCTGTGTTTCTGGACTCATCGTAGTAGCTCGTTGTACTTGGCTCCGGAGGGACCCGCCGGAAAATCCACCGCCGGTGAAGAATAAAGGATTGAAGAAGAAAGTTCTCAAGTATTTGCCGAAATTCAAGTATGATCCGTCGAGCGGTGAGCTGCCGTTTGCGGCGGAGTGCGCGATTTGTCTGGTGGAGTATGTAGAGGGAGATGAAATTCGAGTGTTGCCGAATTGTGGCCATCGGTTTCACCTCCAGTGTGTGGACACGTGGCTTTTGACGAACTCGTCGTGCCCTTCCTGCCGGCAGATTCTCGTAGTTGCTCGTGCTCGGTGCCGGAAGTGCGGGGAAGTTCCTGCAATTTCCGGCGAAGCCTCCGACGGAGGTCAAATTTTAACGGCGGTTTAGTCTACAACTTACGGTAAACGAGGTTAATATGAAAAAGTGGCCGGCCGGAGCATCGTGGTAAGTGTAAATTGGTAACGGTGTTGTTATTTTCCGGTGATGGAAATGGGCCCCGCATGAGGTCGAGGGATAAGGCATACTTTCCTTGTGATTATGATGGGA</genome_strand>
        <mrna_strand>TCAATTATTACTATCTCTTTCTAAACTATGACTCGCCGGTTTAGATTTCTGCTAACTTCGAACGCCTCCTCCACTTCGCCGGCGGCGGAAGAAGCGGAGCCACCGTCAGCCACGGCAGCGGAGTCCGACTTCATTGTTATACTTGCTGCTTTACTCTGTGCAGTAATCTGTGTTTCTGGACTCATCGTAGTAGCTCGTTGTACTTGGCTCCGGAGGGACCCGCCGGAAAATCCACCGCCGGTGAAGAATAAAGGATTGAAGAAGAAAGTTCTCAAGTATTTGCCGAAATTCAAGTATGATCCGTCGAGCGGTGAGCTGCCGTTTGCGGCGGAGTGCGCGATTTGTCTGGTGGAGTATGTAGAGGGAGATGAAATTCGAGTGTTGCCGAATTGTGGCCATCGGTTTCACCTCCAGTGTGTGGACACGTGGCTTTTGACGAACTCGTCGTGCCCTTCCTGCCGGCAGATTCTCGTAGTTGCTCGTGCTCGGTGCCGGAAGTGCGGGGAAGTTCCTGCAATTTCCGGCGAAGCCTCCGACGGAGGTCAAATTTTAACGGCGGTTTAGTCTACAACTTACGGTAAACGAGGTTAATATGAAAAAGTGGCCGGCCGGAGCATCGTGGTAAGTGTAAATTGGTAACGGTGTTGTTATTTTCCGGTGATGGAAATGGGCCCCGCATGAGGTCGAGGGATAAGGCATACTTTCCTTGTGATTATGATGGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E328573" ref_strand="+" ref_description="SGN-E328573 [cTOC-23-D9]">
      <seq>tcaattattactatctctttctaaactatgactcgccggtttagatttctgctaacttcgaacgcctcctccacttcgccggcggcggaagaagcggagccaccgtcagccacggcagcggagtccgacttcattgttatacttgctgctttactctgtgcagtaatctgtgtttctggactcatcgtagtagctcgttgtacttggctccggagggacccgccggaaaatccaccgccggtgaagaataaaggattgaagaagaaagttctcaagtatttgccgaaattcaagtatgatccgtcgagcggtgagctgccgtttgcggcggagtgcgcgatttgtctggtggagtatgtagagggagatgaaattcgagtgttgccgaattgtggccatcggtttcacctccagtgtgtggacacgtggcttttgacgaactcgtcgtgcccttcctgccggcagattctcgtagttgctcgtgctcggtgccggaagtgcggggaagttcctgcaatttccggcgaagcctccgacggaggtcaaattttaacggcggtttagtctacaacttacggtaaacgaggttaatatgaaaaagtggccggccggagcatcgtggtaagtgtaaattggtaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="7129" stop="5890"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="6829" g_stop="6190" g_length="640"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="640" r_length="640" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E328573" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>640</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E328573" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6829" e_stop="6190"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAATTATTACTATCTCTTTCTAAACTATGACTCGCCGGTTTAGATTTCTGCTAACTTCGAACGCCTCCTCCACTTCGCCGGCGGCGGAAGAAGCGGAGCCACCGTCAGCCACGGCAGCGGAGTCCGACTTCATTGTTATACTTGCTGCTTTACTCTGTGCAGTAATCTGTGTTTCTGGACTCATCGTAGTAGCTCGTTGTACTTGGCTCCGGAGGGACCCGCCGGAAAATCCACCGCCGGTGAAGAATAAAGGATTGAAGAAGAAAGTTCTCAAGTATTTGCCGAAATTCAAGTATGATCCGTCGAGCGGTGAGCTGCCGTTTGCGGCGGAGTGCGCGATTTGTCTGGTGGAGTATGTAGAGGGAGATGAAATTCGAGTGTTGCCGAATTGTGGCCATCGGTTTCACCTCCAGTGTGTGGACACGTGGCTTTTGACGAACTCGTCGTGCCCTTCCTGCCGGCAGATTCTCGTAGTTGCTCGTGCTCGGTGCCGGAAGTGCGGGGAAGTTCCTGCAATTTCCGGCGAAGCCTCCGACGGAGGTCAAATTTTAACGGCGGTTTAGTCTACAACTTACGGTAAACGAGGTTAATATGAAAAAGTGGCCGGCCGGAGCATCGTGGTAAGTGTAAATTGGTAAC</genome_strand>
        <mrna_strand>TCAATTATTACTATCTCTTTCTAAACTATGACTCGCCGGTTTAGATTTCTGCTAACTTCGAACGCCTCCTCCACTTCGCCGGCGGCGGAAGAAGCGGAGCCACCGTCAGCCACGGCAGCGGAGTCCGACTTCATTGTTATACTTGCTGCTTTACTCTGTGCAGTAATCTGTGTTTCTGGACTCATCGTAGTAGCTCGTTGTACTTGGCTCCGGAGGGACCCGCCGGAAAATCCACCGCCGGTGAAGAATAAAGGATTGAAGAAGAAAGTTCTCAAGTATTTGCCGAAATTCAAGTATGATCCGTCGAGCGGTGAGCTGCCGTTTGCGGCGGAGTGCGCGATTTGTCTGGTGGAGTATGTAGAGGGAGATGAAATTCGAGTGTTGCCGAATTGTGGCCATCGGTTTCACCTCCAGTGTGTGGACACGTGGCTTTTGACGAACTCGTCGTGCCCTTCCTGCCGGCAGATTCTCGTAGTTGCTCGTGCTCGGTGCCGGAAGTGCGGGGAAGTTCCTGCAATTTCCGGCGAAGCCTCCGACGGAGGTCAAATTTTAACGGCGGTTTAGTCTACAACTTACGGTAAACGAGGTTAATATGAAAAAGTGGCCGGCCGGAGCATCGTGGTAAGTGTAAATTGGTAAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E328615" ref_strand="+" ref_description="SGN-E328615 [cTOC-23-D10]">
      <seq>tcaattattactatctctttctaaactatgactcgccggtttagatttctgctaacttcgaacgcctcctccacttcgccggcggcggaagaagcggagccaccgtcagccacggcagcggagtccgacttcattgttatacttgctgctttactctgtgcagtaatctgtgtttctggactcatcgtagtagctcgttgtacttggctccggagggacccgccggaaaatccaccgccggtgaagaataaaggattgaagaagaaagttctcaagtatttgccgaaattcaagtatgatccgtcgagcggtgagctgccgtttgcggcggagtgcgcgatttgtctggtggagtatgtagagggagatgaaattcgagtgttgccgaattgtggccatcggtttcacctccagtgtgtggacacgtggcttttgacgaactcgtcgtgcccttcctgccggcagattctcgtagttgctcgtgctcggtgccggaagtgcggggaagttcctgcaatttccggcgaagcctccgacggaggtcaaattttaacggcggtttagtctacaacttacggtaaacgaggttaatat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="7129" stop="5936"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="6829" g_stop="6236" g_length="594"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="594" r_length="594" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E328615" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>594</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E328615" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6829" e_stop="6236"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAATTATTACTATCTCTTTCTAAACTATGACTCGCCGGTTTAGATTTCTGCTAACTTCGAACGCCTCCTCCACTTCGCCGGCGGCGGAAGAAGCGGAGCCACCGTCAGCCACGGCAGCGGAGTCCGACTTCATTGTTATACTTGCTGCTTTACTCTGTGCAGTAATCTGTGTTTCTGGACTCATCGTAGTAGCTCGTTGTACTTGGCTCCGGAGGGACCCGCCGGAAAATCCACCGCCGGTGAAGAATAAAGGATTGAAGAAGAAAGTTCTCAAGTATTTGCCGAAATTCAAGTATGATCCGTCGAGCGGTGAGCTGCCGTTTGCGGCGGAGTGCGCGATTTGTCTGGTGGAGTATGTAGAGGGAGATGAAATTCGAGTGTTGCCGAATTGTGGCCATCGGTTTCACCTCCAGTGTGTGGACACGTGGCTTTTGACGAACTCGTCGTGCCCTTCCTGCCGGCAGATTCTCGTAGTTGCTCGTGCTCGGTGCCGGAAGTGCGGGGAAGTTCCTGCAATTTCCGGCGAAGCCTCCGACGGAGGTCAAATTTTAACGGCGGTTTAGTCTACAACTTACGGTAAACGAGGTTAATAT</genome_strand>
        <mrna_strand>TCAATTATTACTATCTCTTTCTAAACTATGACTCGCCGGTTTAGATTTCTGCTAACTTCGAACGCCTCCTCCACTTCGCCGGCGGCGGAAGAAGCGGAGCCACCGTCAGCCACGGCAGCGGAGTCCGACTTCATTGTTATACTTGCTGCTTTACTCTGTGCAGTAATCTGTGTTTCTGGACTCATCGTAGTAGCTCGTTGTACTTGGCTCCGGAGGGACCCGCCGGAAAATCCACCGCCGGTGAAGAATAAAGGATTGAAGAAGAAAGTTCTCAAGTATTTGCCGAAATTCAAGTATGATCCGTCGAGCGGTGAGCTGCCGTTTGCGGCGGAGTGCGCGATTTGTCTGGTGGAGTATGTAGAGGGAGATGAAATTCGAGTGTTGCCGAATTGTGGCCATCGGTTTCACCTCCAGTGTGTGGACACGTGGCTTTTGACGAACTCGTCGTGCCCTTCCTGCCGGCAGATTCTCGTAGTTGCTCGTGCTCGGTGCCGGAAGTGCGGGGAAGTTCCTGCAATTTCCGGCGAAGCCTCCGACGGAGGTCAAATTTTAACGGCGGTTTAGTCTACAACTTACGGTAAACGAGGTTAATAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E252360" ref_strand="+" ref_description="SGN-E252360 [cLEG-12-I1]">
      <seq>ctctttctaaactatgactcgccggtttagatttctgctaacttcgaacgcctcctccacttcgccggcggcggaagaagcggagccaccgtcagccacggcagcggagtccgacttcattgttatacttgctgctttactctgtgcagtaatctgtgtttctggactcatcgtagtagctcgttgtacttggctccggagggacccgccggaaaatccaccgccggtgaagaataaaggattgaagaagaaagttctcaagtatttgccgaaattcaagtatgatccgtcgagcggtgagctgccgtttgcggcggagtgcgcgatttgtctggtggagtatgtagagggagatgaaattcgagtgttgccgaattgtggccatcggtttcacctccagtgtgtggacacgtggcttttgacgaactcgtcgtgcccttcctgccggcagattctcgtagttgctcgtgctcggtgccggaagtgcggagaagttcctgcaatttccggcgaagcctccgacggaggtcaaattttaacggcggtttagtctacaactta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="7115" stop="5955"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="6815" g_stop="6255" g_length="561"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="561" r_length="561" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E252360" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>561</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E252360" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6815" e_stop="6255"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTTTCTAAACTATGACTCGCCGGTTTAGATTTCTGCTAACTTCGAACGCCTCCTCCACTTCGCCGGCGGCGGAAGAAGCGGAGCCACCGTCAGCCACGGCAGCGGAGTCCGACTTCATTGTTATACTTGCTGCTTTACTCTGTGCAGTAATCTGTGTTTCTGGACTCATCGTAGTAGCTCGTTGTACTTGGCTCCGGAGGGACCCGCCGGAAAATCCACCGCCGGTGAAGAATAAAGGATTGAAGAAGAAAGTTCTCAAGTATTTGCCGAAATTCAAGTATGATCCGTCGAGCGGTGAGCTGCCGTTTGCGGCGGAGTGCGCGATTTGTCTGGTGGAGTATGTAGAGGGAGATGAAATTCGAGTGTTGCCGAATTGTGGCCATCGGTTTCACCTCCAGTGTGTGGACACGTGGCTTTTGACGAACTCGTCGTGCCCTTCCTGCCGGCAGATTCTCGTAGTTGCTCGTGCTCGGTGCCGGAAGTGCGGGGAAGTTCCTGCAATTTCCGGCGAAGCCTCCGACGGAGGTCAAATTTTAACGGCGGTTTAGTCTACAACTTA</genome_strand>
        <mrna_strand>CTCTTTCTAAACTATGACTCGCCGGTTTAGATTTCTGCTAACTTCGAACGCCTCCTCCACTTCGCCGGCGGCGGAAGAAGCGGAGCCACCGTCAGCCACGGCAGCGGAGTCCGACTTCATTGTTATACTTGCTGCTTTACTCTGTGCAGTAATCTGTGTTTCTGGACTCATCGTAGTAGCTCGTTGTACTTGGCTCCGGAGGGACCCGCCGGAAAATCCACCGCCGGTGAAGAATAAAGGATTGAAGAAGAAAGTTCTCAAGTATTTGCCGAAATTCAAGTATGATCCGTCGAGCGGTGAGCTGCCGTTTGCGGCGGAGTGCGCGATTTGTCTGGTGGAGTATGTAGAGGGAGATGAAATTCGAGTGTTGCCGAATTGTGGCCATCGGTTTCACCTCCAGTGTGTGGACACGTGGCTTTTGACGAACTCGTCGTGCCCTTCCTGCCGGCAGATTCTCGTAGTTGCTCGTGCTCGGTGCCGGAAGTGCGGAGAAGTTCCTGCAATTTCCGGCGAAGCCTCCGACGGAGGTCAAATTTTAACGGCGGTTTAGTCTACAACTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E549815" ref_strand="+" ref_description="SGN-E549815 [TUS-6-H11]">
      <seq>gaagggaaggcagagattgtgcccggtgtcctcttcattgacgaagtacatatgcttgacattgagtgtttctctttcctaaaccgagctctggagaatgacatggcacctatattggttgttgctacaaatagaggcattactacaatccggggaacaaactacagatccccacacgggattccaattgactttcttgatcgcctgctcatcatctctacacaaccttacaaagaggaagaaattcgcaaaatcctggacatcagatgccaagaggaggatgtagaaatgtctgaggatgcaaaagttttattgaccaagatcggggttaatacttctttgagatacgccatccatcttatcacttctgcagcattggcctgccaaaagcgcaaagggaaggctgttgaagtggaagatattactcgagtctataatctgttttatgatgtgaagagatccacacagtacttgatggagtatcagagccagtatatgtttaacgaagtgccagccggagaggccgaagaagatgaaactgctgcaatggtgtcctanaaccttctcgacatgggattcaggagattgcaacttagctttggccaagtatttagttacctggttcttgtttgatgatttcttctctttcatttatgttttctgacctttgtgttacttgaatatagttcccctccccggtttcttttttctcgttta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="19405" stop="18089"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="19105" g_stop="18389" g_length="717"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="717" r_length="717" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E549815" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>717</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E549815" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="19105" e_stop="18389"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGGGAAGGCAGAGATTGTGCCCGGTGTCCTCTTCATTGACGAAGTACATATGCTTGACATTGAGTGTTTCTCTTTCCTAAACCGAGCTCTGGAGAATGACATGGCACCTATATTGGTTGTTGCTACAAATAGAGGCATTACTACAATCCGGGGAACAAACTACAGATCCCCACACGGGATTCCAATTGACTTTCTTGATCGCCTGCTCATCATCTCTACACAACCTTACAAAGAGGAAGAAATTCGCAAAATCCTGGACATCAGATGCCAAGAGGAGGATGTAGAAATGTCTGAGGATGCAAAAGTTTTATTGACCAAGATCGGGGTTAATACTTCTTTGAGATACGCCATCCATCTTATCACTTCTGCAGCATTGGCCTGCCAAAAGCGCAAAGGGAAGGCTGTTGAAGTGGAAGATATTACTCGAGTCTATAATCTGTTTTATGATGTGAAGAGATCCACACAGTACTTGATGGAGTATCAGAGCCAGTATATGTTTAACGAAGTGCCAGCCGGAGAGGCCGAAGAAGATGAAACTGCTGCAATGGTGTCCTAAAACCTTCTCGACATGGGATTCAGGAGATTGCAACTTAGCTTTGGCCAAGTATTTAGTTACCTGGTTCTTGTTTGATGATTTCTTCTCTTTCATTTATGTTTTCTGACCTTTGTGTTACTTGAATATAGTTCCCTCCCCCGGTTTCTTTTTTCTCGTTTA</genome_strand>
        <mrna_strand>GAAGGGAAGGCAGAGATTGTGCCCGGTGTCCTCTTCATTGACGAAGTACATATGCTTGACATTGAGTGTTTCTCTTTCCTAAACCGAGCTCTGGAGAATGACATGGCACCTATATTGGTTGTTGCTACAAATAGAGGCATTACTACAATCCGGGGAACAAACTACAGATCCCCACACGGGATTCCAATTGACTTTCTTGATCGCCTGCTCATCATCTCTACACAACCTTACAAAGAGGAAGAAATTCGCAAAATCCTGGACATCAGATGCCAAGAGGAGGATGTAGAAATGTCTGAGGATGCAAAAGTTTTATTGACCAAGATCGGGGTTAATACTTCTTTGAGATACGCCATCCATCTTATCACTTCTGCAGCATTGGCCTGCCAAAAGCGCAAAGGGAAGGCTGTTGAAGTGGAAGATATTACTCGAGTCTATAATCTGTTTTATGATGTGAAGAGATCCACACAGTACTTGATGGAGTATCAGAGCCAGTATATGTTTAACGAAGTGCCAGCCGGAGAGGCCGAAGAAGATGAAACTGCTGCAATGGTGTCCTANAACCTTCTCGACATGGGATTCAGGAGATTGCAACTTAGCTTTGGCCAAGTATTTAGTTACCTGGTTCTTGTTTGATGATTTCTTCTCTTTCATTTATGTTTTCTGACCTTTGTGTTACTTGAATATAGTTCCCCTCCCCGGTTTCTTTTTTCTCGTTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E705938" ref_strand="+" ref_description="SGN-E705938 [FA28CC04]">
      <seq>agagagattatgatgctatgggacctcagactaagtttgtacaatgtcctgaaggggagctgcagaagcgcaaggagattgttcattgcgttacccttcacgaaatcgatgtcataaatagcagaacacagggatttttagcactatttacgggtgatactggtgagattcgtgctgaagtgagagaacaaatagataccaaggttgctgagtggagggaggaagggaaggcagagattgtgcccggtgtcctcttcattgacgaagtacatatgcttgacattgagtgtttctctttcctaaaccgagctctggagaatgacatggcacctatattggttgttgctacaaatagaggcattactacaatccggggaacaaactacagatccccacacgggattccaattgactttcttgatcgcctgctcatcatctctacacaaccttacaaagaggaagaaattcgcaaaatcctggacatcagatgccaagaggaggatgtagaaatgtctgaggatgcaaaagttttattgaccaagatcggggttaatacttctttgagatacgccatccatcttatcacttctgcagcattggcctgccaaaagcgcaaagggaaggctgttgaagtggaagatattactcgagtctataatctgttttatgatgtgaagagatccacacagtacttgatggagtatcagagccagtatatgtttaacgaagtgccagccggagaggccgaagaagatgaaactgctgcaatggtgtcctaaaaccttctcgacatgggat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="20866" stop="18229"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="20567" g_stop="20444" g_length="124"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="124" r_length="124" r_score="0.984"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="20443" i_stop="19203" i_length="1241">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.893" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="19202" g_stop="18529" g_length="674"/>
          <reference_exon_boundary r_type="cDNA" r_start="125" r_stop="798" r_length="674" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E705938" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>798</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E705938" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="20567" e_stop="20444"/>
          <exon e_start="19202" e_stop="18529"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGAGGGATTATGATGCTATGGGACCTCAGACTAAGTTTGTACAATGTCCTGAAGGGGAGCTGCAGAAGCGCAAGGAGATTGTTCATTGCGTTACCCTTCACGAAATCGATGTCATAAATAGCAGGTATTAATTTGCTGCTAATGTTATGTGTTTATGGAAAGAAATGATTTTTTTGATTCCTTGTAGCTCGATTATCATATTGTTTTGTTGCAGCTTCTGTTTGTTGTTTTGTTATTATCTGTTGATACTTGTTCTCCCCTTACTTCTTTTTCTGGACTGCTTTGGACTGTTTTTCCTTGAGCTGACAGGACTACACTTGTTGTGTTGTTGGAAAGGAATGATTTTGATTTATCTATGATTGCTTACTTAATTGTTCCTTTCTGCATTACCCTAGGTAATTGTTCTTTAATAGGAATAAGAGTAAGTGTCAACGGCTACTCTGTGCTGTTTTGTTATTATCGGTTGATTCTTGTAATTCTGTTGCTTTTATTTCTGAACTGCTTTGGAGTGCTTTTCCTTGAGGCGATTGTCTATGGAAACAACCTCCTTACCTTTGAGGTAGGTGTGAGGTCTATGTACACTTTACCTCCCCAAACCCCACATTGTGGGAGTACACTAGGTATGTTGTCGTTGGAATAGTAAGTGTTCTGTCAAAAGGTTTTAGAAGTCAAGCGCAGTACTATATCCCATATAGTCTTACTTCATTCATCTCCTATAAGATACTTTTGCTAAGTTAGCTTTTATATTATCATAAATATTTTGCTAGTAATGCACGGGGATACAATGAATATTCATTTAGTAGCTTTTCTTGGTGATCATTTGACAGGTTTGGCTTCAAAAACAGCATTCATGTATGTAGTAAAATGTTGCCAAAAGAATGAATGAGGTGTGTTTTGACTAGGAACTGACATGACAACTTCTTTCTTGCTAATCCCTTCACTCTTGGTGAACTGTATTTTAACCTCTCTTTTCTGCATTATGTTTGGTTGGTTTTTGCATTTTATGGTAGTTTTTTTTTGGCCTCATAGGGGGGATGGACTATAACATTTGAATGGGAGACTGATCTTCCTAAGTGCTGAGATTGATAGACTACTTTTAACAAATATTTATGTTTGTTACTAGTCTTAGATTTTGTATCTTCCTCTTTCCTTGGCCTTTTCTCCGCTTCAATTCAGATTACTAATTAGTGATGCTACTTGCCATCCGCAGTTTCATGTCTTTCCTATTTAGTGTATTTGCAGAACTTTTAAGTTTCATGCTTTGAGTTTTGGAGTTGCCTCTGAAAACATCTGACATCTTAAAAGTATCTCCTTGTTTCCTACTTCACTAGATTAAATATGTTAATCAGCTCATCTCAATTTCAGAACACAGGGATTTTTAGCACTATTTACGGGTGATACTGGTGAGATTCGTGCTGAAGTGAGAGAACAAATAGATACCAAGGTTGCTGAGTGGAGGGAGGAAGGGAAGGCAGAGATTGTGCCCGGTGTCCTCTTCATTGACGAAGTACATATGCTTGACATTGAGTGTTTCTCTTTCCTAAACCGAGCTCTGGAGAATGACATGGCACCTATATTGGTTGTTGCTACAAATAGAGGCATTACTACAATCCGGGGAACAAACTACAGATCCCCACACGGGATTCCAATTGACTTTCTTGATCGCCTGCTCATCATCTCTACACAACCTTACAAAGAGGAAGAAATTCGCAAAATCCTGGACATCAGATGCCAAGAGGAGGATGTAGAAATGTCTGAGGATGCAAAAGTTTTATTGACCAAGATCGGGGTTAATACTTCTTTGAGATACGCCATCCATCTTATCACTTCTGCAGCATTGGCCTGCCAAAAGCGCAAAGGGAAGGCTGTTGAAGTGGAAGATATTACTCGAGTCTATAATCTGTTTTATGATGTGAAGAGATCCACACAGTACTTGATGGAGTATCAGAGCCAGTATATGTTTAACGAAGTGCCAGCCGGAGAGGCCGAAGAAGATGAAACTGCTGCAATGGTGTCCTAAAACCTTCTCGACATGGGAT</genome_strand>
        <mrna_strand>AGAGAGATTATGATGCTATGGGACCTCAGACTAAGTTTGTACAATGTCCTGAAGGGGAGCTGCAGAAGCGCAAGGAGATTGTTCATTGCGTTACCCTTCACGAAATCGATGTCATAAATAGCAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACACAGGGATTTTTAGCACTATTTACGGGTGATACTGGTGAGATTCGTGCTGAAGTGAGAGAACAAATAGATACCAAGGTTGCTGAGTGGAGGGAGGAAGGGAAGGCAGAGATTGTGCCCGGTGTCCTCTTCATTGACGAAGTACATATGCTTGACATTGAGTGTTTCTCTTTCCTAAACCGAGCTCTGGAGAATGACATGGCACCTATATTGGTTGTTGCTACAAATAGAGGCATTACTACAATCCGGGGAACAAACTACAGATCCCCACACGGGATTCCAATTGACTTTCTTGATCGCCTGCTCATCATCTCTACACAACCTTACAAAGAGGAAGAAATTCGCAAAATCCTGGACATCAGATGCCAAGAGGAGGATGTAGAAATGTCTGAGGATGCAAAAGTTTTATTGACCAAGATCGGGGTTAATACTTCTTTGAGATACGCCATCCATCTTATCACTTCTGCAGCATTGGCCTGCCAAAAGCGCAAAGGGAAGGCTGTTGAAGTGGAAGATATTACTCGAGTCTATAATCTGTTTTATGATGTGAAGAGATCCACACAGTACTTGATGGAGTATCAGAGCCAGTATATGTTTAACGAAGTGCCAGCCGGAGAGGCCGAAGAAGATGAAACTGCTGCAATGGTGTCCTAAAACCTTCTCGACATGGGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E244255" ref_strand="+" ref_description="SGN-E244255 [cLEF-37-O13]">
      <seq>aagggaaggctaagattgtgcccggcgtactcttcattgacgacttacatatgcttgacattgagtgttcactctttcctaaaccgagctctggagaatgacatggcacctatattggttgttgctacaaatagaggcattactacaatacggggaacaaactacacatccccacacgggattccaattgactttcttgatcgcctgctgatcatctgtacacaaccttacaaagaggaagaaattcgcaaaatcctggacatcatatgccaagaggaggatgtagaaatgtctgaggatgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="19404" stop="18504"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="19104" g_stop="18804" g_length="301"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="302" r_length="302" r_score="0.953"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E244255" ref_strand="+">
        <total_alignment_score>0.953</total_alignment_score>
        <cumulative_length_of_scored_exons>301</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E244255" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="19104" e_stop="18804"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGGGAAGGCAGAGATTGTGCCCGGTGTCCTCTTCATTGACGAAGTACATATGCTTGACATTGAGTGTT-TCTCTTTCCTAAACCGAGCTCTGGAGAATGACATGGCACCTATATTGGTTGTTGCTACAAATAGAGGCATTACTACAATCCGGGGAACAAACTACAGATCCCCACACGGGATTCCAATTGACTTTCTTGATCGCCTGCTCATCATCTCTACACAACCTTACAAAGAGGAAGAAATTCGCAAAATCCTGGACATCAGATGCCAAGAGGAGGATGTAGAAATGTCTGAGGATGC</genome_strand>
        <mrna_strand>AAGGGAAGGCTAAGATTGTGCCCGGCGTACTCTTCATTGACGACTTACATATGCTTGACATTGAGTGTTCACTCTTTCCTAAACCGAGCTCTGGAGAATGACATGGCACCTATATTGGTTGTTGCTACAAATAGAGGCATTACTACAATACGGGGAACAAACTACACATCCCCACACGGGATTCCAATTGACTTTCTTGATCGCCTGCTGATCATCTGTACACAACCTTACAAAGAGGAAGAAATTCGCAAAATCCTGGACATCATATGCCAAGAGGAGGATGTAGAAATGTCTGAGGATGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E203571" ref_strand="+" ref_description="SGN-E203571 [cLEC-15-N16]">
      <seq>gaaggtatggtaggtcaaattccagctcgaaaagctgccggaatcattgttaaaatggttcaacaaggtaaaattgcgggtcgtgcactgctccttgcgggtcaacccggaactgggaagacagctatagctatgggtatggctaaatcgttagggcaagaaaccccttttgctatgcttgctggtagcgaactttattcacttgatatgtcgaaaactgaagcgttaatgcaggcttttcgtaaagcaattggtgtgagaattaaagaagaagctgaagttattgaaggtgaagttgtggaagtacatattgataggccggcggtagctggagctgcgtcaaaaacaggaaaactgacgttgaagactactgatatggagacggtttatgatttgggggcgaagatgattgagggtttggggaaggagaaagtacagagtggggat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="21375" stop="20329"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="21075" g_stop="20629" g_length="447"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="447" r_length="447" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E203571" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>447</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E203571" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="21075" e_stop="20629"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGGTATGGTAGGTCAAATTCCAGCTCGAAAAGCTGCCGGAATCATTGTTAAAATGGTTCAACAAGGTAAAATTGCGGGTCGTGCACTGCTCCTTGCGGGTCAACCCGGAACTGGGAAGACAGCTATAGCTATGGGTATGGCTAAATCGTTAGGGCAAGAAACCCCTTTTGCTATGCTTGCTGGTAGCGAACTTTATTCACTTGATATGTCGAAAACTGAAGCGTTAATGCAGGCTTTTCGTAAAGCAATTGGTGTGAGAATTAAAGAAGAAGCTGAAGTTATTGAAGGTGAAGTTGTGGAAGTACATATTGATAGGCCGGCGGTAGCTGGAGCTGCGTCAAAAACAGGAAAACTGACGTTGAAGACTACTGATATGGAGACGGTTTATGATTTGGGGGCGAAGATGATTGAGGCTTTGGGGAAGGAGAAAGTACAGAGTGGGGAT</genome_strand>
        <mrna_strand>GAAGGTATGGTAGGTCAAATTCCAGCTCGAAAAGCTGCCGGAATCATTGTTAAAATGGTTCAACAAGGTAAAATTGCGGGTCGTGCACTGCTCCTTGCGGGTCAACCCGGAACTGGGAAGACAGCTATAGCTATGGGTATGGCTAAATCGTTAGGGCAAGAAACCCCTTTTGCTATGCTTGCTGGTAGCGAACTTTATTCACTTGATATGTCGAAAACTGAAGCGTTAATGCAGGCTTTTCGTAAAGCAATTGGTGTGAGAATTAAAGAAGAAGCTGAAGTTATTGAAGGTGAAGTTGTGGAAGTACATATTGATAGGCCGGCGGTAGCTGGAGCTGCGTCAAAAACAGGAAAACTGACGTTGAAGACTACTGATATGGAGACGGTTTATGATTTGGGGGCGAAGATGATTGAGGGTTTGGGGAAGGAGAAAGTACAGAGTGGGGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E242274" ref_strand="+" ref_description="SGN-E242274 [cLEE-3-A13]">
      <seq>tgagtcgacggatcccacgacggaccgtcatgagcacgacggaccgtggagggtgtctcgttccaaaacacttagaattctgaaatttgggtactgagatcgactctctgaacttcgcgacgaaatggcacgacggaccgtcacaggcatgacgggctgtcacaaacccttagtgaaatttaatctctgaactttgtgacggaagcagcaggacggaccgtcgcaggcacgactggtcgtcacagactgcgtaaccctgactgggtcggatttttgttaaatgttttaaggggcgttttggactattcctgcttataattatgaaattagtggtttaatgttaataattcaattacttggggggttgaaggagataaccttgaattaatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="26469" stop="25480"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="26169" g_stop="25780" g_length="390"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="390" r_length="390" r_score="0.908"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E242274" ref_strand="+">
        <total_alignment_score>0.908</total_alignment_score>
        <cumulative_length_of_scored_exons>390</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E242274" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="26169" e_stop="25780"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAGACGACGGATCCCACGACGGACCGTTATGGGCACGACGGACCGTCAAGGGGGTCTCGTTCCAAAACACTTAGAATTCTGAAATTTGGGTACTGAAATCGATTCTCTGAACTTCGTGACGGAATGGCAGGACGGACCGTCACAGTCGTGACGGGCCGTCACAGATCCTTTAGTGAAATTTAGTCTCTGAACTTTGTGACGGAAGCAGCAGGACGGACCGTCGCAGGCACAACTGGCCGTCACAGACTGCGTAATCCCAGGCTGGGTCGGATTTCTGTTAAATGTTTTAAGGGGCATTTTGGACTATCCCTGC-TATAATAATAAATTTAGTGGGTTAATGTTAATAATTTAATTACTT-GGGGGTTAAAGGAGATAACCTTGAATTAATT</genome_strand>
        <mrna_strand>TGAGTCGACGGATCCCACGACGGACCGTCATGAGCACGACGGACCGTGGAGGGTGTCTCGTTCCAAAACACTTAGAATTCTGAAATTTGGGTACTGAGATCGACTCTCTGAACTTCGCGACGAAATGGCACGACGGACCGTCACAGGCATGACGGGCTGTCACA-AACCCTTAGTGAAATTTAATCTCTGAACTTTGTGACGGAAGCAGCAGGACGGACCGTCGCAGGCACGACTGGTCGTCACAGACTGCGTAA-CCCTGACTGGGTCGGATTTTTGTTAAATGTTTTAAGGGGCGTTTTGGACTATTCCTGCTTATAATTATGAAATTAGTGGTTTAATGTTAATAATTCAATTACTTGGGGGGTTGAAGGAGATAACCTTGAATTAATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E371935" ref_strand="+" ref_description="SGN-E371935 [TUS-30-M24]">
      <seq>tttttcaatggctttgatatctctattgtatggtgcttttggtgtattgggatattttgcttttggtgaagatacaaaggatataattacgacgaatcttggacaaggattacttagcagcctagttcaaattggtctttgcataaacttgttctttactttccctctgatgatgaatccagtttacgaagtagtggaaaggaggttttgtgaagggagttactgtgtttggataagatggattatggttttggtagtgacgtttgtggcattgtttgtgccaaattttgctgatttcttgtcattggttgggagtagtgtgtgcataattcttggctttgtgttgcctgccttgtttcatctgattgtgttcaaagatgagctaagatggcatggtttggcttgtgatggtgcaattattgtagtggctgctgttttttcagtctatggaacctactcttcattgctggagatactttttggagccaaggaataaattgtttgtcttcctttttaatgtacaagttcaagagatgtttatcttgtatatccatcagacctccaaagttaagcgtgtttgggcgagagtatactacgatggctgatcctcggatgtcctgttgcatccctcattcgaaaacagtcttacttttcctacgtagggata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="42006" stop="43272"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42306" g_stop="42972" g_length="667"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="667" r_length="667" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E371935" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>667</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E371935" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42306" e_stop="42972"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTCAATGGCTTTGATATCTCTATTGTATGGTGCTTTTGGTGTATTGGGATATTTTGCTTTTGGTGAAGATACAAAGGATATAATTACGACGAATCTTGGACAAGGATTACTTAGCAGCCTAGTTCAAATTGGTCTTTGCATAAACTTGTTCTTTACTTTCCCTCTGATGATGAATCCAGTTTACGAAGTAGTGGAAAGGAGGTTTTGTGAAGGGAGTTACTGTGTTTGGATAAGATGGATTATGGTTTTGGTAGTGACGTTTGTGGCATTGTTTGTGCCAAATTTTGCTGATTTCTTGTCATTGGTTGGGAGTAGTGTGTGCATAATTCTTGGCTTTGTGTTGCCTGCCTTGTTTCATCTGATTGTGTTCAAAGATGAGCTAAGATGGCATGGTTTGGCTTGTGATGGTGCAATTATTGTAGTGGCTGCTGTTTTTTCAGTCTATGGAACCTACTCTTCATTGCTGGAGATACTTTTTGGAGCCAAGGAATAAATTGTTTGTCTTCCTTTTTAATGTACAAGTTCAAGAGATGTTTATCTTGTATATCCATCAGACCTCCAAAGTTAAGCGTGTTTGGGCGAGAGTATACTAGGATGGCTGATCCTCGGATGTCCTGTTGCATCCCTCATTCGAAAACAGTCTTACTTTCACTAGGTAGGGATA</genome_strand>
        <mrna_strand>TTTTTCAATGGCTTTGATATCTCTATTGTATGGTGCTTTTGGTGTATTGGGATATTTTGCTTTTGGTGAAGATACAAAGGATATAATTACGACGAATCTTGGACAAGGATTACTTAGCAGCCTAGTTCAAATTGGTCTTTGCATAAACTTGTTCTTTACTTTCCCTCTGATGATGAATCCAGTTTACGAAGTAGTGGAAAGGAGGTTTTGTGAAGGGAGTTACTGTGTTTGGATAAGATGGATTATGGTTTTGGTAGTGACGTTTGTGGCATTGTTTGTGCCAAATTTTGCTGATTTCTTGTCATTGGTTGGGAGTAGTGTGTGCATAATTCTTGGCTTTGTGTTGCCTGCCTTGTTTCATCTGATTGTGTTCAAAGATGAGCTAAGATGGCATGGTTTGGCTTGTGATGGTGCAATTATTGTAGTGGCTGCTGTTTTTTCAGTCTATGGAACCTACTCTTCATTGCTGGAGATACTTTTTGGAGCCAAGGAATAAATTGTTTGTCTTCCTTTTTAATGTACAAGTTCAAGAGATGTTTATCTTGTATATCCATCAGACCTCCAAAGTTAAGCGTGTTTGGGCGAGAGTATACTACGATGGCTGATCCTCGGATGTCCTGTTGCATCCCTCATTCGAAAACAGTCTTACTTTTCCTACGTAGGGATA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E286936" ref_strand="+" ref_description="SGN-E286936 [cLES-6-I3]">
      <seq>gttttcaatggcttcgatatctctattgtatggtgcttctggtgcattgggatattttgcttttggtgaagatacaaaggatataattacgacgaatcttggacaaggattacttagcagcctagttcaaattggtctttgcataaacttgtactttactttccctctgatgatgaatccagtttacgaagtagtggaaaggaggttttgtgaagggagttactgtgtttggataagatggattatggttttggtagagacgtttgtggcattgtttgtgccagattttgctgatttcttgtcattggttgggagtagtgtgtgcataattataggctttgtgttgcctgccttgatccatctgagtgtgttcaaagatgagctaagatggcatggtgtggcttgtgatggtgcaattattgtagtggctgctgaaatttcagactagggaacctactgttcattgctggagatactttttggagccaaggaataa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="42007" stop="43101"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42306" g_stop="42801" g_length="496"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="496" r_length="496" r_score="0.962"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E286936" ref_strand="+">
        <total_alignment_score>0.962</total_alignment_score>
        <cumulative_length_of_scored_exons>496</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E286936" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42306" e_stop="42801"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTCAATGGCTTTGATATCTCTATTGTATGGTGCTTTTGGTGTATTGGGATATTTTGCTTTTGGTGAAGATACAAAGGATATAATTACGACGAATCTTGGACAAGGATTACTTAGCAGCCTAGTTCAAATTGGTCTTTGCATAAACTTGTTCTTTACTTTCCCTCTGATGATGAATCCAGTTTACGAAGTAGTGGAAAGGAGGTTTTGTGAAGGGAGTTACTGTGTTTGGATAAGATGGATTATGGTTTTGGTAGTGACGTTTGTGGCATTGTTTGTGCCAAATTTTGCTGATTTCTTGTCATTGGTTGGGAGTAGTGTGTGCATAATTCTTGGCTTTGTGTTGCCTGCCTTGTTTCATCTGATTGTGTTCAAAGATGAGCTAAGATGGCATGGTTTGGCTTGTGATGGTGCAATTATTGTAGTGGCTGCTGTTTTTTCAGTCTATGGAACCTACTCTTCATTGCTGGAGATACTTTTTGGAGCCAAGGAATAA</genome_strand>
        <mrna_strand>GTTTTCAATGGCTTCGATATCTCTATTGTATGGTGCTTCTGGTGCATTGGGATATTTTGCTTTTGGTGAAGATACAAAGGATATAATTACGACGAATCTTGGACAAGGATTACTTAGCAGCCTAGTTCAAATTGGTCTTTGCATAAACTTGTACTTTACTTTCCCTCTGATGATGAATCCAGTTTACGAAGTAGTGGAAAGGAGGTTTTGTGAAGGGAGTTACTGTGTTTGGATAAGATGGATTATGGTTTTGGTAGAGACGTTTGTGGCATTGTTTGTGCCAGATTTTGCTGATTTCTTGTCATTGGTTGGGAGTAGTGTGTGCATAATTATAGGCTTTGTGTTGCCTGCCTTGATCCATCTGAGTGTGTTCAAAGATGAGCTAAGATGGCATGGTGTGGCTTGTGATGGTGCAATTATTGTAGTGGCTGCTGAAATTTCAGACTAGGGAACCTACTGTTCATTGCTGGAGATACTTTTTGGAGCCAAGGAATAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E733487" ref_strand="+" ref_description="SGN-E733487 [LB10AF03]">
      <seq>cgtttggataagatggattatggttttggtagtgacgtttgtggcattgtttgtgccaaattttgctgatttcttgtcattggttgggagtagtgtgtgcataattcttggctttgtgttgcctgccttgtttcatctgattgtgttcaaagatgagctaagatggcatggtttggcttgtgatggtgcaattattgtagtggctgctgttttttcagtctatggaacctactcttcattgctggagatactttttggagccaaggaataaattgtttgtcttcctttttaatgtacaagttcaagagatgtttatcttgtatatccatcagacctccaaagttaagcgtgtttgggcgagagtatactaggatggctgatcctcggatgtcctgttgcatccctcattcgaaaacagtcttactttcactaggtagggataaggtctgcatacaccaaatccccgcggtggatataatattattgttgttgcttatcgtgcattatggttgttcgtttgtttttcatccttcctacatttgtaaattttcttccatctatggccattaatcataggtttggtacaactgtggaggttgtgtgagggacatgatcatgtccacttagtattcattgcaaatggtcataatttgctcaaatggccatttggttctcttcttagtactatttatatataataatactatattatgttttgagatttaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="42232" stop="43554"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42531" g_stop="43254" g_length="724"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="724" r_length="724" r_score="0.999"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="725" polyA_stop="742"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E733487" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>724</cumulative_length_of_scored_exons>
        <coverage percentage="0.976" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E733487" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42531" e_stop="43254"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTTTGGATAAGATGGATTATGGTTTTGGTAGTGACGTTTGTGGCATTGTTTGTGCCAAATTTTGCTGATTTCTTGTCATTGGTTGGGAGTAGTGTGTGCATAATTCTTGGCTTTGTGTTGCCTGCCTTGTTTCATCTGATTGTGTTCAAAGATGAGCTAAGATGGCATGGTTTGGCTTGTGATGGTGCAATTATTGTAGTGGCTGCTGTTTTTTCAGTCTATGGAACCTACTCTTCATTGCTGGAGATACTTTTTGGAGCCAAGGAATAAATTGTTTGTCTTCCTTTTTAATGTACAAGTTCAAGAGATGTTTATCTTGTATATCCATCAGACCTCCAAAGTTAAGCGTGTTTGGGCGAGAGTATACTAGGATGGCTGATCCTCGGATGTCCTGTTGCATCCCTCATTCGAAAACAGTCTTACTTTCACTAGGTAGGGATAAGGTCTGCATACACCAAATCCCCGCGGTGGATATAATATTATTGTTGTTGCTTATCGTGCATTATGGTTGTTCGTTTGTTTTTCATCCTTCCTACATTTGTAAATTTTCTTCCATCTATGGCCATTAATCATAGGTTTGGTACAACTGTGGAGGTTGTGTGAGGGACATGATCATGTCCACTTAGTATTCATTGCAAATGGTCATAATTTGCTCAAATGGCCATTTGGTTCTCTTCTTAGTACTATTTATATATAATAATACTATATTATGTTTTGAGATTT</genome_strand>
        <mrna_strand>CGTTTGGATAAGATGGATTATGGTTTTGGTAGTGACGTTTGTGGCATTGTTTGTGCCAAATTTTGCTGATTTCTTGTCATTGGTTGGGAGTAGTGTGTGCATAATTCTTGGCTTTGTGTTGCCTGCCTTGTTTCATCTGATTGTGTTCAAAGATGAGCTAAGATGGCATGGTTTGGCTTGTGATGGTGCAATTATTGTAGTGGCTGCTGTTTTTTCAGTCTATGGAACCTACTCTTCATTGCTGGAGATACTTTTTGGAGCCAAGGAATAAATTGTTTGTCTTCCTTTTTAATGTACAAGTTCAAGAGATGTTTATCTTGTATATCCATCAGACCTCCAAAGTTAAGCGTGTTTGGGCGAGAGTATACTAGGATGGCTGATCCTCGGATGTCCTGTTGCATCCCTCATTCGAAAACAGTCTTACTTTCACTAGGTAGGGATAAGGTCTGCATACACCAAATCCCCGCGGTGGATATAATATTATTGTTGTTGCTTATCGTGCATTATGGTTGTTCGTTTGTTTTTCATCCTTCCTACATTTGTAAATTTTCTTCCATCTATGGCCATTAATCATAGGTTTGGTACAACTGTGGAGGTTGTGTGAGGGACATGATCATGTCCACTTAGTATTCATTGCAAATGGTCATAATTTGCTCAAATGGCCATTTGGTTCTCTTCTTAGTACTATTTATATATAATAATACTATATTATGTTTTGAGATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E371934" ref_strand="+" ref_description="SGN-E371934 [TUS-30-M24](-)">
      <seq>gcattgtttgtgccaaattttgctgatttcttgtcattggttgggagtagtgtgtgcataattcttggctttgtgttgcctgccttgtttcatctgattgtgttcaaagatgagctaagatggcatggtttggcttgtgatggtgcaattattgtagtggctgctgttttttcagtctatggaacctactcttcattgctggagatactttttggagccaaggaataaattgtttgtcttcctttttaatgtacaagttcaagagatgtttatcttgtatatccatcagacctccaaagttaagcgtgtttgggcgagagtatactaggatggctgatcctcggatgtcctgttgcatccctcattcgaaaacagttttactttcactaggtagggataaggtttgcatacaccaaatccccgcggtggatataatattattgttgttgcttatcgtgcattatggttgttcgtttgtttttcatccttcctacatttgtaaatttttttccatctatggccattaatcataggtttggtacaactgtggaggttgtgtgagggacatgatcatgtccacttagtattcattgcaaatggtcataatttgctcaaatggccatttggttctttttttagtactatttatatataataatactatattatgttttaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="42274" stop="56016"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42574" g_stop="43263" g_length="690"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="690" r_length="690" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E371934" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>690</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E371934" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42574" e_stop="43263"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCATTGTTTGTGCCAAATTTTGCTGATTTCTTGTCATTGGTTGGGAGTAGTGTGTGCATAATTCTTGGCTTTGTGTTGCCTGCCTTGTTTCATCTGATTGTGTTCAAAGATGAGCTAAGATGGCATGGTTTGGCTTGTGATGGTGCAATTATTGTAGTGGCTGCTGTTTTTTCAGTCTATGGAACCTACTCTTCATTGCTGGAGATACTTTTTGGAGCCAAGGAATAAATTGTTTGTCTTCCTTTTTAATGTACAAGTTCAAGAGATGTTTATCTTGTATATCCATCAGACCTCCAAAGTTAAGCGTGTTTGGGCGAGAGTATACTAGGATGGCTGATCCTCGGATGTCCTGTTGCATCCCTCATTCGAAAACAGTCTTACTTTCACTAGGTAGGGATAAGGTCTGCATACACCAAATCCCCGCGGTGGATATAATATTATTGTTGTTGCTTATCGTGCATTATGGTTGTTCGTTTGTTTTTCATCCTTCCTACATTTGTAAATTTTCTTCCATCTATGGCCATTAATCATAGGTTTGGTACAACTGTGGAGGTTGTGTGAGGGACATGATCATGTCCACTTAGTATTCATTGCAAATGGTCATAATTTGCTCAAATGGCCATTTGGTTCTCTTCTTAGTACTATTTATATATAATAATACTATATTATGTTTTGAGATTTGTCCTAAAT</genome_strand>
        <mrna_strand>GCATTGTTTGTGCCAAATTTTGCTGATTTCTTGTCATTGGTTGGGAGTAGTGTGTGCATAATTCTTGGCTTTGTGTTGCCTGCCTTGTTTCATCTGATTGTGTTCAAAGATGAGCTAAGATGGCATGGTTTGGCTTGTGATGGTGCAATTATTGTAGTGGCTGCTGTTTTTTCAGTCTATGGAACCTACTCTTCATTGCTGGAGATACTTTTTGGAGCCAAGGAATAAATTGTTTGTCTTCCTTTTTAATGTACAAGTTCAAGAGATGTTTATCTTGTATATCCATCAGACCTCCAAAGTTAAGCGTGTTTGGGCGAGAGTATACTAGGATGGCTGATCCTCGGATGTCCTGTTGCATCCCTCATTCGAAAACAGTTTTACTTTCACTAGGTAGGGATAAGGTTTGCATACACCAAATCCCCGCGGTGGATATAATATTATTGTTGTTGCTTATCGTGCATTATGGTTGTTCGTTTGTTTTTCATCCTTCCTACATTTGTAAATTTTTTTCCATCTATGGCCATTAATCATAGGTTTGGTACAACTGTGGAGGTTGTGTGAGGGACATGATCATGTCCACTTAGTATTCATTGCAAATGGTCATAATTTGCTCAAATGGCCATTTGGTTCTTTTTTTAGTACTATTTATATATAATAATACTATATTATGTTTTAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E275013" ref_strand="+" ref_description="SGN-E275013 [cLEN-16-H21]">
      <seq>ctgctgttttttcagtctatggaacctactcttcattgctggagatactttttggagccaaggaataaattgtttgtcttcctttttaatgtacaagttcaagagatgtttatcttgtatatccatcagacctccaaagttaagcgtgtttgggcgagagtatactaggatggctgatcctcggatgtcctgttgcatccctcattcgaaaacagtcttactttcactaggtagggataaggtctgcatacaccaaatccccgcggtggatataatattattgttgttgcttatcgtgcattatggttgttcgtttgtttttcatccttcctacatttgtaaattttcttccatctatggccattaatcataggtttggtacaactgtggaggttgtgtgagggacatgatcatgtccacttagtattcattgcaaatggtcataatttgctcaaatggccatttggttctcttcttagtactatttatatataataatactattttatgtttttgagaattgtcctaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="42434" stop="43562"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42734" g_stop="43261" g_length="528"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="529" r_length="529" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E275013" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>528</cumulative_length_of_scored_exons>
        <coverage percentage="0.983" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E275013" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42734" e_stop="43261"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGCTGTTTTTTCAGTCTATGGAACCTACTCTTCATTGCTGGAGATACTTTTTGGAGCCAAGGAATAAATTGTTTGTCTTCCTTTTTAATGTACAAGTTCAAGAGATGTTTATCTTGTATATCCATCAGACCTCCAAAGTTAAGCGTGTTTGGGCGAGAGTATACTAGGATGGCTGATCCTCGGATGTCCTGTTGCATCCCTCATTCGAAAACAGTCTTACTTTCACTAGGTAGGGATAAGGTCTGCATACACCAAATCCCCGCGGTGGATATAATATTATTGTTGTTGCTTATCGTGCATTATGGTTGTTCGTTTGTTTTTCATCCTTCCTACATTTGTAAATTTTCTTCCATCTATGGCCATTAATCATAGGTTTGGTACAACTGTGGAGGTTGTGTGAGGGACATGATCATGTCCACTTAGTATTCATTGCAAATGGTCATAATTTGCTCAAATGGCCATTTGGTTCTCTTCTTAGTACTATTTATATATAATAATACTATATTATG-TTTTGAGATTTGTCCTAA</genome_strand>
        <mrna_strand>CTGCTGTTTTTTCAGTCTATGGAACCTACTCTTCATTGCTGGAGATACTTTTTGGAGCCAAGGAATAAATTGTTTGTCTTCCTTTTTAATGTACAAGTTCAAGAGATGTTTATCTTGTATATCCATCAGACCTCCAAAGTTAAGCGTGTTTGGGCGAGAGTATACTAGGATGGCTGATCCTCGGATGTCCTGTTGCATCCCTCATTCGAAAACAGTCTTACTTTCACTAGGTAGGGATAAGGTCTGCATACACCAAATCCCCGCGGTGGATATAATATTATTGTTGTTGCTTATCGTGCATTATGGTTGTTCGTTTGTTTTTCATCCTTCCTACATTTGTAAATTTTCTTCCATCTATGGCCATTAATCATAGGTTTGGTACAACTGTGGAGGTTGTGTGAGGGACATGATCATGTCCACTTAGTATTCATTGCAAATGGTCATAATTTGCTCAAATGGCCATTTGGTTCTCTTCTTAGTACTATTTATATATAATAATACTATTTTATGTTTTTGAGAATTGTCCTAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E216999" ref_strand="+" ref_description="SGN-E216999 [cLEL-1-C16](-)">
      <seq>gtatatccatcagacctccaaagttaagcgtgtttgggcgagagtatactaggatggctgatcctcggatgtcctgttgcatccctcattcgaaaacagtcttactttcactaggtagggataaggtctgcatacacccaaatccccgcggtggatataatattattgttgttgcttatcgtgcattatggttgttcgtttgtttttcatccttcctacatttgtaaattttcttccatctatggccattaatcataggtttggtacaactgtggaggttgtgtgagggacatgatcatgtccacttagtattcattgcaaatggtcataatttgctcaaatggccatttggttctcttcttagtactatttatatataataatactatattatgttttgaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="42550" stop="43551"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42850" g_stop="43250" g_length="401"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="402" r_length="402" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="403" polyA_stop="421"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E216999" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>401</cumulative_length_of_scored_exons>
        <coverage percentage="0.952" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E216999" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42850" e_stop="43250"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTATATCCATCAGACCTCCAAAGTTAAGCGTGTTTGGGCGAGAGTATACTAGGATGGCTGATCCTCGGATGTCCTGTTGCATCCCTCATTCGAAAACAGTCTTACTTTCACTAGGTAGGGATAAGGTCTGCATACA-CCAAATCCCCGCGGTGGATATAATATTATTGTTGTTGCTTATCGTGCATTATGGTTGTTCGTTTGTTTTTCATCCTTCCTACATTTGTAAATTTTCTTCCATCTATGGCCATTAATCATAGGTTTGGTACAACTGTGGAGGTTGTGTGAGGGACATGATCATGTCCACTTAGTATTCATTGCAAATGGTCATAATTTGCTCAAATGGCCATTTGGTTCTCTTCTTAGTACTATTTATATATAATAATACTATATTATGTTTTGAG</genome_strand>
        <mrna_strand>GTATATCCATCAGACCTCCAAAGTTAAGCGTGTTTGGGCGAGAGTATACTAGGATGGCTGATCCTCGGATGTCCTGTTGCATCCCTCATTCGAAAACAGTCTTACTTTCACTAGGTAGGGATAAGGTCTGCATACACCCAAATCCCCGCGGTGGATATAATATTATTGTTGTTGCTTATCGTGCATTATGGTTGTTCGTTTGTTTTTCATCCTTCCTACATTTGTAAATTTTCTTCCATCTATGGCCATTAATCATAGGTTTGGTACAACTGTGGAGGTTGTGTGAGGGACATGATCATGTCCACTTAGTATTCATTGCAAATGGTCATAATTTGCTCAAATGGCCATTTGGTTCTCTTCTTAGTACTATTTATATATAATAATACTATATTATGTTTTGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E389872" ref_strand="+" ref_description="SGN-E389872 [TUS-4-K12](-)">
      <seq>gaaagatggaaaatggcaaaggagaaccaatgaactcaaaggaggaattcggggaatcaccaaatgatatatgtaacgttgacaaaaagaaggggcggatgaaacagaaaatgtttcccctcagtaattgcagtttcagggataaagtgaacccaaaaaggacatgaatttcaaaaaattcatcgtcaccggataagaagatcaacaaagttactgctgctattaatgagcctatatttccagttgataggtcattttcattgaagtgccaaacttttaggcatccactcgcgttaaacaataagttgatgcaatcacagtctttgtattttagtatcaagtgaggtggctaccatgatgggacttatagtccgaggtttttgttagcttttggagtttcatttccaggtactttttgttagcaggagatgtttggagtcattgtcattattattaacattagaagtgtgacatttgttgttaaaggaaactaatttatatctcttccttccattaatctcaatgtgtaagattatttctggagtagatatatcaatccattgtaagcat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="46584" stop="44836"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46284" g_stop="45909" g_length="376"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="376" r_length="376" r_score="0.987"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45908" i_stop="45330" i_length="579">
            <donor d_prob="0.949" d_score="1.00"/>
            <acceptor a_prob="0.829" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="45329" g_stop="45136" g_length="194"/>
          <reference_exon_boundary r_type="cDNA" r_start="377" r_stop="570" r_length="194" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E389872" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>570</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E389872" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46284" e_stop="45909"/>
          <exon e_start="45329" e_stop="45136"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAAGATGGAAAATGGCAAAGGAGAACCAATGAACTCAAAGGAGGAATTCGGGGAATCACCAAATGATATATGTAACGTTGACAAAAAGAAGGGGCGGATGAAACAGAAAATGTTACCCCTCAGTAATTGCAGTCTCAGGGATAAAGTGAACCCAAAAAGGACATGAATTTCAAAAAATTCATCGTCACCGGATAAGAAGATCAACAAAGTTACTGCTGCTATTAATGAGCCTATATTTCCAGTTGATAGGTCATCTACATTGAAGTGCCAAACTTTTAGGCATCCACTCGCGTTAAACAATAAGTTGATGCAATCACAGTCTTCGTATTTTAGTATCAAGTGAGGTGGCTACCATGATGGGACTTATAGTCCGAGGTAGTCTCTTTCGTGTTTTTTCTTGCTTACTTCTTTTTATACATATATCGCCTCTTCCAGCCCAATTAACGTTTATACATTGATTTTTCACTGCTTGCATAGTTGTTTTGCACATAATATGTTTCCTATGTTGCTTCAGCAAGTGGCTCCTGAATGCCTCAATTAGTTCTGCCTTTCTGAGGTCGTTCACATTACCTGTCCCAAGTCTGGGTAAAGGAGGAGGGTTGCCAAGGGTCAATCGAAAACAACCTCTCTACCCCATAAAGGTAGGGGTAAGGCTGCTAGCATCTTACCCTCCCTAGACCCCACTTGTGTGATTAGACGGGCTCCTAAATGCCTCAATTACAGATGTACAATATGTTACTTCGTGGATCAACTTAATGCCTCGTGAGATTCTATCTCTATCTATTCTTGGCAACCAAATGTTTCTTGCTATGAAAGATTGTTCATCCATCATCGTGATTACGTAGTTCTTGTTTCATGTTTTAGGTTTGATAGACTCGTCTTCTCCTTTACCATCGAGTTTTTTGCTCTACAGATTAGATGAGACTAAGATTTTGATTTCCATTGTGTTGACAGGTTTTTGTTAGCTTCTGGAGTTTCATTTCCAGGTACTTTTTGTTAGCAGGAGATGTCTGGAGTCATTGTCATTATTATTAACATTAGAAGTGTGACATTTGTTGTTAAAGGAAACTAATTTATATCTCTTCCTTCCATTAATCTCAATGTGTAAGATTATTTCTGATGTAGATATATCAATCCATTGTAAGCAT</genome_strand>
        <mrna_strand>GAAAGATGGAAAATGGCAAAGGAGAACCAATGAACTCAAAGGAGGAATTCGGGGAATCACCAAATGATATATGTAACGTTGACAAAAAGAAGGGGCGGATGAAACAGAAAATGTTTCCCCTCAGTAATTGCAGTTTCAGGGATAAAGTGAACCCAAAAAGGACATGAATTTCAAAAAATTCATCGTCACCGGATAAGAAGATCAACAAAGTTACTGCTGCTATTAATGAGCCTATATTTCCAGTTGATAGGTCATTTTCATTGAAGTGCCAAACTTTTAGGCATCCACTCGCGTTAAACAATAAGTTGATGCAATCACAGTCTTTGTATTTTAGTATCAAGTGAGGTGGCTACCATGATGGGACTTATAGTCCGAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTTTGTTAGCTTTTGGAGTTTCATTTCCAGGTACTTTTTGTTAGCAGGAGATGTTTGGAGTCATTGTCATTATTATTAACATTAGAAGTGTGACATTTGTTGTTAAAGGAAACTAATTTATATCTCTTCCTTCCATTAATCTCAATGTGTAAGATTATTTCTGGAGTAGATATATCAATCCATTGTAAGCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E231095" ref_strand="+" ref_description="SGN-E231095 [cLED-5-J2]">
      <seq>gtaacccttcccttttctctaaaaaccctaatttcaacttttttttttgtatcctctaagatgacaagatcagttttaagggattgttgaagcaataagcttatgtgtagatgtaaagaaaaagatggaaggaaatacatgtgacatcaatcacttggattcagatgtgcttttgcctccgcgaaaacggcttctagtaggactgaaaaaacagaatttcgatgataatccatgtagtccatcctcttctactgatgatgttacagaatttgagttcgatatgcgtcttaataacctgttgaagtttcactcggatgattgtaatcgttccatcgaggagattgtcgaggcctcaaaagtggcagctctaaaagctgttgagcttgcaaaagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="48393" stop="46443"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="48093" g_stop="48021" g_length="73"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="73" r_length="73" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="48020" i_stop="47063" i_length="958">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.815" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="47062" g_stop="46743" g_length="320"/>
          <reference_exon_boundary r_type="cDNA" r_start="74" r_stop="393" r_length="320" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E231095" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>393</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E231095" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="48093" e_stop="48021"/>
          <exon e_start="47062" e_stop="46743"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAACCCTTCCCTTTTCTCTAAAAACCCTAATTTCAACTTTTTTTTTTGTATCCTCTAAGATGACAAGATCAGGTATGTTTTTCTCCTTTTATGATTCTCACATTGCATTAAAATTTTGGCTATTTTTTATATATTCAAATAACTATGAACACACATATTTAAGGAGCTATAAACACAATTTAAAATTTTTACAGTCCCTTTAAATCAAGATGCTAAATTTTTGTGTTTTTAGGTCTTGGAATGTTAAAAGATGGTACACTGACCTGAGTTTGAATGATTCTTGATCTTTTTTCTCTGTATATTTGGGGTTTCATTGAATTTGTACTTGTGTTGTTTGATTTTGATTCAATTTGGTAAGTGGTTGTGTTTAATGTGTTTCTAGGGCAAGATTCTGTAAAATCTGATGTGGGTTTTGGAAATAAAAATCAGAAATGTAAATTTTGTGATCAATGAACTAATTTGACAATCATGAGGTCTTACGTTAAAATTCAAATCCAACCGTAGCAAAGACAGTAAAAAAAGGAAAACATTAGGTGATTTATTCTAATATGTTTTAGCTTTGGTGGAGTCGTGGAGAGAGTTATAGACTTGTAGTTGTTGCTGGTGTGAGGTGACAGATATAGAATTAGTGGAGGTGTAGCCCGAACACCACGATTATAAAACAAAAAGAAATGTGAAATTGAGTTGTTCAATAGCCTGTTTGATGAATCTTCTGTGAAGCCAAAAGTGTTTATTTAAAGTTGAGGCGTTTAGTGAAATTTTTAGGGAAAAAATTAAGTGTTTTTGATTAGTAGCGGAACCAAAAAATTGTAACTTACTCAGAAGCACTTTCCGAACATTGACCAAGCACAAGTTACTTCTTTGATATTGGTAAAAAGTGTTTTTCATAATTGATTAGCTAAACATGAATTGTTATTCTCTGAAAAGCACTTCTCGCGGAAAAAAGCACATAATTTTCGTAAAGTTTGTCTAAAGAGATGATTAGTCATATACTTCATGCTAAAGGTATGATCTTTACTGTTCTTTGTAGTTTTAAGGGATTGTTGAAGCAATAAGCTTATGTGTAGATGTAAAGAAAAAGATGGAAGGAAATACATGTGACATCAATCACTTGGATTCAGATGTGCTTTTGCCTCCGCGAAAACGGCTTCTAGTAGGACTGAAAAAACAGAATTTCGATGATAATCCATGTAGTCCATCCTCTTCTACTGATGATGTTACAGAATTTGAGTTCGATATGCGTCTTAATAACCTGTTGAAGTTTCACTCGGATGATTGTAATCGTTCCATCGAGGAGATTGTCGAGGCCTCAAAAGTGGCAGCTCTAAAAGCTGTTGAGCTTGCAAAAGC</genome_strand>
        <mrna_strand>GTAACCCTTCCCTTTTCTCTAAAAACCCTAATTTCAACTTTTTTTTTTGTATCCTCTAAGATGACAAGATCAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTTAAGGGATTGTTGAAGCAATAAGCTTATGTGTAGATGTAAAGAAAAAGATGGAAGGAAATACATGTGACATCAATCACTTGGATTCAGATGTGCTTTTGCCTCCGCGAAAACGGCTTCTAGTAGGACTGAAAAAACAGAATTTCGATGATAATCCATGTAGTCCATCCTCTTCTACTGATGATGTTACAGAATTTGAGTTCGATATGCGTCTTAATAACCTGTTGAAGTTTCACTCGGATGATTGTAATCGTTCCATCGAGGAGATTGTCGAGGCCTCAAAAGTGGCAGCTCTAAAAGCTGTTGAGCTTGCAAAAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E706719" ref_strand="+" ref_description="SGN-E706719 [FA30DA01]">
      <seq>ccggttccgaaccgtctataaaccattaattttccggtgaggggaaaaaactccggcaagaaaatggcagctgccggaaaatgcttccttgtaactggccctgctggtattggtaagacaactttgatagtcagagtacttgaaactctcagaaattcaaatcctaatttgaaagttcaagggttctacactcgtgagattagagaaggaactgagaggattggatttgaggttgtgacgcttgatggacgtacggggcttcttgcttctaacaaaatctcgagcgcgcagtctcttagatggcccaccgtgggaagatacagggtagatgttgcatcatttgagtcgttggcattacaagagttgcaggtaagggaagataccgatctcttcattatcgatgaaattgggaagatggagctctacagctcctcattctttccagctgtacttaaggtccttcaatctaatatcccactcttggcttctatccccattacaaaagtaggccgagatatacctggagttgcgaggatgaagaatcatccaggagctagagtttttacacttgatgcaaataacagggatgcgatgagagaacaaatatgctccgcgttagcagatgtgctgcaaaagccttagacgtcgaagagcatactcttccagctaatgttgtaattgctcctcctgatacactactcaagaagacaagtccccttaaaatctccaacactttgaagaccacttggtggcgtagaatgctcagaacaattgctgagagaggaattttgaagacgagagaggaaaaaaatggagcgatgtttttctataacgcgttgctggtcaattctaacttttctgaagcttcctttaatttatttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="63476" stop="55534"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="63176" g_stop="63072" g_length="105"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="105" r_length="105" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="63071" i_stop="62963" i_length="109">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="62962" g_stop="62875" g_length="88"/>
          <reference_exon_boundary r_type="cDNA" r_start="106" r_stop="193" r_length="88" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="62874" i_stop="62531" i_length="344">
            <donor d_prob="0.940" d_score="1.00"/>
            <acceptor a_prob="0.640" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="62530" g_stop="62440" g_length="91"/>
          <reference_exon_boundary r_type="cDNA" r_start="194" r_stop="284" r_length="91" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="62439" i_stop="58183" i_length="4257">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="58182" g_stop="58098" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="285" r_stop="369" r_length="85" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="58097" i_stop="57869" i_length="229">
            <donor d_prob="0.611" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="57868" g_stop="57712" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="370" r_stop="526" r_length="157" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="57711" i_stop="56283" i_length="1429">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="56282" g_stop="56119" g_length="164"/>
          <reference_exon_boundary r_type="cDNA" r_start="527" r_stop="690" r_length="164" r_score="0.994"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="56118" i_stop="56026" i_length="93">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="56025" g_stop="55834" g_length="192"/>
          <reference_exon_boundary r_type="cDNA" r_start="691" r_stop="882" r_length="192" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E706719" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>882</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E706719" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="63176" e_stop="63072"/>
          <exon e_start="62962" e_stop="62875"/>
          <exon e_start="62530" e_stop="62440"/>
          <exon e_start="58182" e_stop="58098"/>
          <exon e_start="57868" e_stop="57712"/>
          <exon e_start="56282" e_stop="56119"/>
          <exon e_start="56025" e_stop="55834"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCGGTTCCGAACCGTCTATAAACCATTAATTTTCCGGTGAGGGGAAAAAACTCCGGCAAGAAAATGGCAGCTGCCGGAAAATGCTTCCTTGTAACTGGCCCTGCTGTATGCTCTCTCTCTTCCCTTTTCTATCTTCATTTTTGCCCATTTCCAATTCACTAATTCTTCTCTGTGTAGAAAAAATCTGACATTGATTGATCATTTTTTTCTTCAGGGTATTGGTAAGACAACTTTGATAGTCAGAGTACTTGAAACTCTCAGAAATTCAAATCCTAATTTGAAAGTTCAAGGGTTCTACACTCGTATGTATAATCTCTCTGTATCCCTTCTACATTATTCCGGTATATTTGGGGAATGTGTGGAGCTAGGTAGGGTTGAGGGGTTTATCGAAATGACCTTAGGCAGAATTACACTGTTTATACATGATTAAAATTACTTTTTTGTTGAACCCTTGGTCTTTTTGTGTGTTTACTTCGTATTTTGAGCCCTTGATGAAAATGCTGAATCTGCAGCTGATTTGGGAGATACCTAAGTTCTTTTGTTATATGCAAATTATCAATTTTGAAAGAATCCCAGAACCGATAAGCTTTAAATGCTGGCTTGGATTTGTGGGAAGTTCTAATTTCTTTATCTGATTTTGGTGAAGGTGAGATTAGAGAAGGAACTGAGAGGATTGGATTTGAGGTTGTGACGCTTGATGGACGTACGGGGCTTCTTGCTTCTAACAAAATCTCGAGGTAAAGCTTTCTTCTTTTCCTATACTTGGTTTGGTATTTTACTTTTGAGTGGATTGGTAATCAACCATTTGAGCTCAATAGGTGATAGATTTTTCTTGAGTAAAAGCATTTGCAAGAGAAGTGGCTGGATGTAAGAAATGCTTGATTAAATGTGTTCGGATATTCAAAGCAAATAAGCAATATGGTTAGTATGGAAAAAATTGGTACTGTTTTCTGAGGTTTAAGTATGAACGGCCAAGAGCACCATCACTAGAAGGTGATCATGTTCTTGCATAACAAACCAATGACAACAAATGGGTATAAGAAGCATTAGGAGAATATTGTCAATGATTCCTACCATTATAACCCTTGTTATTTGAGCCTTCCACCATTTGAACCTTGGATGATGGATTGTTAGAAGAAAAGTTGTGAGAGTATACAGATAGTTCTTTTTGTGTAAGAGTATTTAGCTAATAAGCAGTTTCAGGAGAGAAGTATTCCAAGGTAGTTGTTCTGATATGTGCTTAGTCAGTTACTCCTTCTGTCCCTATTTACTTGTTCATATTTCCTTTTATATCTGTCCCTATTTACTTGTTCATTTTAACAAATCAAGGAAGGACAACATTTTTTTTCCTAATATGCCCTTATTTAATTCTAGAAAATTTCTAGTACTACTAAGTTGTAATGCATGCTTTTTGGAACCAGAAATACATTTATTATACTTGTGGATATGCATAATCTTTTAAGTTAAGGATAAAATTGTAGCTAACCTATGATGATAATTGGTGCCTTAATATGTGTGTCACTTCTAAAGCGGACAACTAAATAGGGACAGAGGGAGTAGCACAGAGGCTGCCAGATTACGAATGGTGGCTGGATCAATGGCATTAAGCCCGGAACAGAAGTGTGAGAAGAGAGGGCTGATCCTTTCATAATTTATAATCACACATCTTCTGTGACTGGTTTTCAATCCTTTGAAGGTTTCACAGGCAAGTCAACAACAAGGGTTGAGAGACTAGTAGTAATCCAGTCAAGGGTGATAATGCTGTATTGAATCCATAAATATTCATTGTAAGTGGGTGATAGACATCAGGCATGAAATGGGATCATCCACCAAGAAGATGAGGTATTGACTTTTTAGTATACTGAAAAGAAATGATGTAATACCTTTTCAGTATAATGTGAAAAGCTTTTAGTGAGGTAGTTTGGGTTGGTAAATTCAATTGATGAAATCTTTGATGTTGGAAAGTTGTGCAAAGACAAGGGAAGATTGTGGGGAGTGCACTCAGTAGAGGAAGTAGTTTGGGTTGGTAAATTCAATTGATAAAAGTGATGTTGGAAAGTTGTGCAAAGACAAGGGACGATTGTGGGGAGTGCACTCAGTAGAGGAAGAAATAAAGAACCCTTGGTTTTGAGACTTTGAAATATAATGTGTCTTTAGCAGTTTCTTCTGATGAATTAATAATTTAGTGATGTGGGTAAAAACCATATTAAAAAAACTAAAAAGTGTAGAAGAAAAATGGAGAACCTAGACAAGGATATGGTGTCTTAAGGACACCTACTAACATGAATCTCATCGATGTCCAAAAGTTAATAAAAAATTGAAGGTATACTATAATTTGTACAAAGCCATAATTCAGCCCTCTAAAAGCTCTTGTATTCCTGCACTCAAGGGTGTAGCTAGTAGACAATGATGTGAGTGCAAAGCTCTCACATTCCATATGCGTAAGCCTTGATGGATAAGTTACTCGATACTTGTGCTGGTGGGGAGTAGAAGGTATCCGGTGGAATAGTCGAGGTCCTTGCAAATTGGTCCAAACACCACCACCATAAGAACTAACAAATAAGCTCTCATATTCCTTTGTCTTTGTATACACATAAGTATTAGGATGCTACTTTCCAAGCTCTACATCTGCTTCTTCTCTTTCTGAATGTTCAAGAGCTCATTGCGTCCTTCCTTTCATGATGCTTTTCTATAGCACCTATCCATAAGGTAAAGTGCTGTTGTCTCCTCCCCCCTCCATCATAATGCATTCTTTATTTTTCTACTTGTTACTTGCCTAGTAATGCTCTGTTAAAGTCCTAAAAGCATTTACTCCGACCCCTCGATACCTACTAATGGCGGATGTGGCTACAATTGATTTAGCATGTGAAATTTTGTGTCCGTAATTTTTATTCCAGGAGAAATTCTATTTGAAGTGCTTCAACTTTTAGGCTACACTTGTCAGTGTGAGAATGTGGAACATGTAATATGTCAAGGTACTTGATAGTGTACCCTTGGAGTGTGTAATTTCCAATGTTTGGCTGATCGAAATATTTTTGAAAACATTTTCTCTAGGAAAACAAGTTCCTTAAAAATGAGGAAAATGATTTCCCTAATGGAAGTTGGGTAAACTAGTTCCATAAATGACATTCCATGCTAATTATCTCCTCCCATCTACCCAATGCTCCAACTCAGGGGCGGAGCTATAGCTAACGAAGGGTGCGCAAGTGAACACCATTCTTCGGAAAGTTATACCGTACCTACGAGACAAAGTTACGATATTTTTAATATATATTTATGTTTGCACACACTTGAGTAATTATAGGAGTGGCTCAATGGTACAATGAGTGCTGGAAGTGCGAAGCGGAAGGTTGAGGGTTCGATTCTTGGTCCCTTCAAGTGTTTTTAAACATTTTTATTAGTCAAAATTCACATCAAGGAGTACTTTTTAAAATTATGCACACTCTTTATAAAATGTCTGGCTCCGCCACTGCTCCAACTCCCACTCCTTGACCATCCCACCTTGCCACCCTCAACTCCTCCCTTACACCATGTCCCCATCCCACCCATAGTGTTTTGCTAGATTACATATAGATGCTCTTGGAATGTTTTTTTTTTGCTTACTTACCAAAAAACACTAGAAAATAAGTAAGAAAGCCACTTGTTTTCCAAGAAAATATTTTCCTTTGTGCCAAACACATCCTTGATCAAGACTTTCTTAACCATTTTTGTCAAATACCTTTTCTTACCCCTCTAGTCTCATCCTATTCATTCAATCACAATATTCTAGACTGTTGCGACCTGTTTGATGCTCCTAGTGGTAGCCGTAGATAAACATTTGGAAGTTCTCTTATCCTGTGGTTGAACACATGTGCTAAGTGTAAGTGCTAACTGCTTAATGTTGTCAGCTCCTCTCATTCTTACAATCTCACACATCTTTAGGTTGATTTTTCATCCTTGAAACTACCTGTAACCACATTAGGACCTGTCTCAGGTAGGATAAATAGAGTGCCTCGGCAGTACAAATTTACAAACCATCAGGGTATTATCTGCGAACAAGAGATGGAAGCCAACTTACCATTACTCTTTGCACTTGCCGTGTAGAAACTCAATGAACCTTCTGCCACCACTCTGTCCGTTTTCAAATGAACAACAAGAGATATACTGAGTCCCTTCCTCTACCTTCTGCACATGGGCTACTCAACAGGACTGAGAACCTCACCTTCAATATACAAAACTTTATTTACTATTCTCGAAAGTCCAAAGCCATCTTTAACATCACAAAATTCCCGAAATTCTAGTTAACGTGATCGTTGACATTGTGAAGATGTTATTTGCATAGTAAACGGGATTCCCTCTGTTTTCTTTTGGTACTTGTTCTAGAAAGCTTTTCCCCATCAAGTTATCTGGAAATGCATTTCTCTGGGAAAATGGTATTTATATCCTCATTAATTATGACTCAATGTATTTCTTATTCTTTCTGCTGGTGAAAGAAATCCAACTTTGGTTATTATTTTTTTGAGAATATATCTCTTTGATATTTGCAATTTGCATATACTGCAAGAAGAAGAAATTCTTGCCCGTTATCACATAATTCCATGAGAATTTTATGAATGGAGAGTACTAATGTGATGGAGTATCTGGTGAAAGATGTGAAATTTTAATAGTATCTGTTGTTTTTAGTTGTGGGAGAAATGAGAAGACTGAATAATTAGTTGTTTATTTTTTAGTTCAATTTCTCTCTGGTGAAAGATGCGAAATTTTATTCATGTCGATAGTTCCTGATAACGTCCTCCTCAAGATCCTCTTTGGATCAAAATATACAGCGCGTGATTATGGTTGAGTTATTTTCTATGAAGTGATACAAAAATTGTCAAAAGCTATAGCCTTGTGATTTAGGTTGTTTTTAGTTTGGTTAAGCTATATGTTTAAATTATCTGACTATGTTCCCATCAATAATTGCATGATTTTGGTTTTATGCTTTCATTTATGCTGAAGCATTTTTAACCATGCAGCGCGCAGTCTCTTAGATGGCCCACCGTGGGAAGATACAGGGTAGATGTTGCATCATTTGAGTCGTTGGCATTACAAGAGTTGCAGGTCGGTTGAGTTCTTTCAGCAGGATTTTAGTGGCTCATATCCTGACATTGTTGTACTTCACTTTGAGCGGTAACTTTGACTTTGTTCAGGGCTCTTTTTTAATAACTAATCATGATTGCAAATTATAAAACATTCAATTTGTCTCATCATTACTTTAGCACATAAACAAAAGAATTTCTGATCCGTAATATATTGTATATTTCCATTTGATGGTTCATAATTTTGTTAGGTAAGGGAAGATACCGATCTCTTCATTATCGATGAAATTGGGAAGATGGAGCTCTACAGCTCCTCATTCTTTCCAGCTGTACTTAAGGTCCTTCAATCTAATATCCCACTCTTGGCTTCTATCCCCATTACAAAAGTAGGCCGAGATATACCTGGAGGTATTTCCCTATATCTATGTATTTGTTGCAAATGATTACTTAGAGCTGAGATTAGCTTGCCAGTTGATCTATGTTCATCTGTTGAAAAAGTGAGATAATAGTGTGATGCGTCTTCATCACTGTCGACAAACTCCCCTCTATCTGTATGTTTTGCGTTTGTGCAAGTCTGGACCTTAATTTTGTTGTGATCACACCAATAATCCTACATGCCAAATCCAATTCAATTACACCGGCAGTCAAGTATCTATGTACTAGGGATTTGTTGAAGAAATATTTTCTAATGTAGAATGGTATATGGGCCATATAGATTCTGTACAATGGTTTAGAGTAATACTCCCTCCGTTCCAATTTATGTGGTACTGTTTGTTTCGACACGAAGTTTAAGAAAAAAAAATAAGACTTTTGAAATATGTGCTCTAAAACACTCCTTGACCATTTGCGTGGCTAAAAATCATTTCAGCAATAGTAAAGTGAGAATTTTAAAGTTAAATTGTTTTTAATATAAAAAGTGACATCTTTTGGGACGGACTAAAAAGGAAAGAGTGTCTCATAAAATCGGGACACATGAAGTATTAAGTTGCTCTGACTCGGTGCAGGTATTCTATACATGTGCGGATCTAGAGGTAGAATTCTTCATGATCTAAGTTTTAAGATTTGGAAACAACCTCTCTACCTCCAAGAGGGGTAGAGGAAAGGTTTGGGTACACTCTACCCTCTCCAGACCCCACTTTGTGGGATTCACTAGGTATGGTGTTGGTAGGGATCCAAGTGTCAAGTAATACGGATATGGGTGTGGGGACTCACTAGCTATAAAAATATGCCTACATTATGAGACGTTATGTGGAAAACTTATATGTAGCTTTTATAATGCAGTAACTCAAATCTTTTATTCTCAAGTTGTAGGTAGCCATCTAGAAATCTACAATAGCTTTTGTCTTGAGAAATTAAAAATGCCAAATCATGACTCTAAATTTTCCTTAGTTTGTGCCTTTGTGGTCGAAGTACCTAATCTTGATTGACCAGATTTGTACGTATCCCACACGGGTCAACATGGGTGTGGACACGTGGCAACAGAAATGAAGATTTTGCCCAGTTTGGTAGTAATGTGACGTTTTGCAGAAAATGCTTATCGAACTTCTTTTACTATTTATCTTTGTTAAAGCTGGAAGCAAATGATGAAAACTCCAATTCTATGTTTGCTATTTTATGTACCTATGTAAGCTATCCTGACCATTTTGCATAATCAACTTATCACGTCTGTTTTCTTGGTCATTTTTCACAAATCTTCTATATGGTTATTTTGTTGTCTTTTATTCCCTGCTTTTGACCTCCGAACTTTCACTGTTTACTCGAGTGTTGAACTTCTAAACCAACATTCTTGTACTTATCAAAGAAAGAATAAACCAACATGGTTTTTTGATTTTTGCAGTTGCGAGGATGAAGAATCATCCAGGAGCTAGAGTTTTTACACTTGATGCAAATAACAGGGATGCGATGAGAGAACAAATATGCTCCACGTTAGCAGATGTGCTGCAAAAGCCTTAGACGTCGAAGAGCATACTCTTCCAGCTAATGTTGTAATTGCTCCTCCTGGTAAATCATTAATCTTCTTGTAACTTACCTTCATTATTTTGTTCTTCGGAGATGTCTTCCAGTAACTTACCTTCATTATTTTGTTCTTCGGAGATACACTACTCAAGAAGACAAGTCCCCTTAAAATCTCCAACACTTTGAAGACCACTTGGTGGCGTAGAATGCTCAGAACAATTGCTGAGAGAGGAATTTTGAAGACGAGAGAGGAAAAAAATGGAGCGATGTTTTTCTATAACGCGTTGCTGGTCAATTCTAACTTTTCTGAAGCTTCCTTTAATTTATTTT</genome_strand>
        <mrna_strand>CCGGTTCCGAACCGTCTATAAACCATTAATTTTCCGGTGAGGGGAAAAAACTCCGGCAAGAAAATGGCAGCTGCCGGAAAATGCTTCCTTGTAACTGGCCCTGCT.............................................................................................................GGTATTGGTAAGACAACTTTGATAGTCAGAGTACTTGAAACTCTCAGAAATTCAAATCCTAATTTGAAAGTTCAAGGGTTCTACACTC........................................................................................................................................................................................................................................................................................................................................................GTGAGATTAGAGAAGGAACTGAGAGGATTGGATTTGAGGTTGTGACGCTTGATGGACGTACGGGGCTTCTTGCTTCTAACAAAATCTCGAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CGCGCAGTCTCTTAGATGGCCCACCGTGGGAAGATACAGGGTAGATGTTGCATCATTTGAGTCGTTGGCATTACAAGAGTTGCAG.....................................................................................................................................................................................................................................GTAAGGGAAGATACCGATCTCTTCATTATCGATGAAATTGGGAAGATGGAGCTCTACAGCTCCTCATTCTTTCCAGCTGTACTTAAGGTCCTTCAATCTAATATCCCACTCTTGGCTTCTATCCCCATTACAAAAGTAGGCCGAGATATACCTGGAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTGCGAGGATGAAGAATCATCCAGGAGCTAGAGTTTTTACACTTGATGCAAATAACAGGGATGCGATGAGAGAACAAATATGCTCCGCGTTAGCAGATGTGCTGCAAAAGCCTTAGACGTCGAAGAGCATACTCTTCCAGCTAATGTTGTAATTGCTCCTCCTG.............................................................................................ATACACTACTCAAGAAGACAAGTCCCCTTAAAATCTCCAACACTTTGAAGACCACTTGGTGGCGTAGAATGCTCAGAACAATTGCTGAGAGAGGAATTTTGAAGACGAGAGAGGAAAAAAATGGAGCGATGTTTTTCTATAACGCGTTGCTGGTCAATTCTAACTTTTCTGAAGCTTCCTTTAATTTATTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E747327" ref_strand="+" ref_description="SGN-E747327 [GI|47104635]">
      <seq>ccaaagccccttcttatcctctcttcacaacacacacacaatacacaattcatctcaaagggcaaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaatttgtctttctttttctatatttgtgtagagcttattgtttgtttctattagaacgctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69531" stop="66467"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69231" g_stop="69128" g_length="104"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="105" r_length="105" r_score="0.981"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="0.96"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="106" r_stop="156" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="157" r_stop="258" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="259" r_stop="316" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="317" r_stop="361" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="362" r_stop="442" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="443" r_stop="517" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="66771" g_length="455"/>
          <reference_exon_boundary r_type="cDNA" r_start="518" r_stop="972" r_length="455" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="975" polyA_stop="993"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E747327" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>971</cumulative_length_of_scored_exons>
        <coverage percentage="0.978" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E747327" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69231" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="66771"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCAAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAA-ATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</genome_strand>
        <mrna_strand>CCAAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727380" ref_strand="+" ref_description="SGN-E727380 [LA14CB06]">
      <seq>tctcttcacaacacacacacaatacacaattcatctcaaagggcaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaatttgtctttctttttctatatttgtgtagagcttattgtttgtttctattagaacgctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattaaatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtggtgcttaatgataatgccactttttaggcaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69512" stop="66467"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69212" g_stop="69128" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="85" r_length="85" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="86" r_stop="136" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="137" r_stop="238" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="239" r_stop="296" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="297" r_stop="341" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="342" r_stop="422" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="423" r_stop="497" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="66771" g_length="455"/>
          <reference_exon_boundary r_type="cDNA" r_start="498" r_stop="952" r_length="455" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="955" polyA_stop="969"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E727380" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>952</cumulative_length_of_scored_exons>
        <coverage percentage="0.982" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727380" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69212" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="66771"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</genome_strand>
        <mrna_strand>TCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAAATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGGTGCTTAATGATAATGCCACTTTTTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E369215" ref_strand="+" ref_description="SGN-E369215 [TUS-23-O8](-)">
      <seq>aaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgaaaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggttttttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaatttgtctttctttttctatatttgtgtagagcttattgtttgtttttattagaacgctcttttttttagtttattttggggttttttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="68146" stop="66467"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67846" g_stop="67832" g_length="15"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="15" r_length="15" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="16" r_stop="60" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="61" r_stop="141" r_length="81" r_score="0.988"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="142" r_stop="216" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67225" g_stop="66771" g_length="455"/>
          <reference_exon_boundary r_type="cDNA" r_start="217" r_stop="671" r_length="455" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="674" polyA_stop="699"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E369215" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>671</cumulative_length_of_scored_exons>
        <coverage percentage="0.960" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E369215" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67846" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="66771"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</genome_strand>
        <mrna_strand>AAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAAAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTTTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTTTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTTTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E541070" ref_strand="+" ref_description="SGN-E541070 [TUS-61-K18]">
      <seq>ggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaatttgtctttctttttctatatttgtgtagagcttattgtttgtttctattagaacgctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaaannannnnnanncaanaaaaaanacaaaaaaaaaanttan</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="67818" stop="66467"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67518" g_stop="67476" g_length="43"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="43" r_length="43" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="44" r_stop="118" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67225" g_stop="66771" g_length="455"/>
          <reference_exon_boundary r_type="cDNA" r_start="119" r_stop="573" r_length="455" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="601" polyA_stop="612"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E541070" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>573</cumulative_length_of_scored_exons>
        <coverage percentage="0.929" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E541070" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67518" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="66771"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</genome_strand>
        <mrna_strand>GGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E541067" ref_strand="+" ref_description="SGN-E541067 [TUS-61-K18](-)">
      <seq>ggaagatgaggaatctgccaagtcaaattctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgcctgaagtgctaatgggagggagtaaattggtggggaagctgtgtaatcccttagatatttctctatatgaggactccttacttttccccgttaaatacttggctcttttttttagtttatttgggggtttcttaggtaggggaaaaagatgatttagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaatttgtctttctttttcaaaattggggaagagcttattgtttgtttctattagaacgctcttttttttagtttatttgggggtttcttaggtaggggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattcggatgcgggtgttgcttaatgataatgcaactttttgggcaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaagaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="67670" stop="66467"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67370" g_stop="67310" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="61" r_length="61" r_score="0.967"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="0.96"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67225" g_stop="66771" g_length="455"/>
          <reference_exon_boundary r_type="cDNA" r_start="62" r_stop="516" r_length="455" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="519" polyA_stop="560"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E541067" ref_strand="+">
        <total_alignment_score>0.965</total_alignment_score>
        <cumulative_length_of_scored_exons>516</cumulative_length_of_scored_exons>
        <coverage percentage="0.921" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E541067" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67370" e_stop="67310"/>
          <exon e_start="67225" e_stop="66771"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</genome_strand>
        <mrna_strand>GGAAGATGAGGAATCTGCCAAGTCAAATTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGCCTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATCCCTTAGATATTTCTCTATATGAGGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTGGGGGTTTCTTAGGTAGGGGAAAAAGATGATTTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCAAAATTGGGGAAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTGGGGGTTTCTTAGGTAGGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCGGATGCGGGTGTTGCTTAATGATAATGCAACTTTTTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E250568" ref_strand="-" ref_description="SGN-E250568 [cLEG-21-G3]">
      <seq>atgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaatttgtctttctttttctatatttgtgtagagcttattgtttgtttctattagaacgctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="67665" stop="66467"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67365" g_stop="67310" g_length="56"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="56" r_length="56" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67225" g_stop="66771" g_length="455"/>
          <reference_exon_boundary r_type="cDNA" r_start="57" r_stop="511" r_length="455" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="514" polyA_stop="525"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E250568" ref_strand="-">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>511</cumulative_length_of_scored_exons>
        <coverage percentage="0.973" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E250568" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="67365" e_stop="67310"/>
          <exon e_start="67225" e_stop="66771"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</genome_strand>
        <mrna_strand>ATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E235143" ref_strand="+" ref_description="SGN-E235143 [cLEL-6-N4](-)">
      <seq>tgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaatttgtctttctttttctatatttgtgtagagcttattgtttgtttctattagaacgctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcgaaaaaagagaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="67502" stop="66467"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67202" g_stop="66771" g_length="432"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="432" r_length="432" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="445" polyA_stop="464"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E235143" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>432</cumulative_length_of_scored_exons>
        <coverage percentage="0.931" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E235143" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67202" e_stop="66771"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</genome_strand>
        <mrna_strand>TGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E352367" ref_strand="+" ref_description="SGN-E352367 [cTOS-9-O20]">
      <seq>taataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaatttgtctttctttttctatatttgtgtagagcttattgtttgtttctattagaacgctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="67465" stop="66467"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67165" g_stop="66771" g_length="395"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="395" r_length="395" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E352367" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>395</cumulative_length_of_scored_exons>
        <coverage percentage="0.978" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E352367" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67165" e_stop="66771"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</genome_strand>
        <mrna_strand>TAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E228636" ref_strand="+" ref_description="SGN-E228636 [cLEL-29-A22](-)">
      <seq>ttttccccgttaaaaacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagattagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaatttgtctttctttttctaaaattgtgtagagcatattgtttgtttctattagaacgctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatggactttttattctgatgctggtgttgcttaatgataatgcaacgttttaggccaaaaaaaaaaaaaaaaaacacaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="67427" stop="66467"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67127" g_stop="66771" g_length="357"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="357" r_length="357" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="361" polyA_stop="380"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E228636" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>357</cumulative_length_of_scored_exons>
        <coverage percentage="0.904" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E228636" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67127" e_stop="66771"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</genome_strand>
        <mrna_strand>TTTTCCCCGTTAAAAACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATTAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTAAAATTGTGTAGAGCATATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGGACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACGTTTTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E703618" ref_strand="+" ref_description="SGN-E703618 [FA22AA07]">
      <seq>gaggggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaagcaatttgtctttctttttctatatttgcgtaaagcttattgtttgtttctattagaacgctcttttttttagtttattttggggtttccttagtatgggaaaaagatgaattagatgagagctatctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69309" stop="66540"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69010" g_stop="68977" g_length="34"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="33" r_length="33" r_score="0.941"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="34" r_stop="135" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="136" r_stop="193" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="194" r_stop="238" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="239" r_stop="319" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="320" r_stop="394" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67225" g_stop="66840" g_length="386"/>
          <reference_exon_boundary r_type="cDNA" r_start="395" r_stop="780" r_length="386" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E703618" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>781</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E703618" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69010" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="66840"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTT</genome_strand>
        <mrna_strand>GAGG-GGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAAGCAATTTGTCTTTCTTTTTCTATATTTGCGTAAAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCCTTAGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E307546" ref_strand="+" ref_description="SGN-E307546 [cLEY-24-M11]">
      <seq>gttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaaccttttaggcaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="67419" stop="66665"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67119" g_stop="66969" g_length="151"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="151" r_length="151" r_score="0.993"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="66968" i_stop="66876" i_length="93">
            <donor d_prob="0.245" d_score="0.98"/>
            <acceptor a_prob="0.996" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="66875" g_stop="66863" g_length="13"/>
          <reference_exon_boundary r_type="cDNA" r_start="152" r_stop="164" r_length="13" r_score="0.538"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E307546" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>164</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E307546" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67119" e_stop="66969"/>
          <exon e_start="66875" e_stop="66863"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAG</genome_strand>
        <mrna_strand>GTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACCTTTTAG.............................................................................................GCAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E306492" ref_strand="+" ref_description="SGN-E306492 [cLEX-13-E12]">
      <seq>aaaaaccaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgacagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="67686" stop="66665"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67484" g_stop="67476" g_length="9"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="9" r_length="9" r_score="0.778"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="10" r_stop="84" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67225" g_stop="66969" g_length="257"/>
          <reference_exon_boundary r_type="cDNA" r_start="85" r_stop="341" r_length="257" r_score="0.996"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="66968" i_stop="66876" i_length="93">
            <donor d_prob="0.245" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="66875" g_stop="66864" g_length="12"/>
          <reference_exon_boundary r_type="cDNA" r_start="342" r_stop="353" r_length="12" r_score="0.583"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E306492" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>353</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E306492" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67484" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="66969"/>
          <exon e_start="66875" e_stop="66864"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAA</genome_strand>
        <mrna_strand>AAAAACCAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGACAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG.............................................................................................GCAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E719117" ref_strand="+" ref_description="SGN-E719117 [FC06DB11]">
      <seq>gggcgaattggcggccaatcggccgaattcaattcatctcaaagggcaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaatttgtctttctttttctatatttgtgtagagcttattgtttgtttctattagaacgctcttttttttagtttattttggggtttcttagg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69493" stop="66575"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69185" g_stop="69128" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="31" r_stop="88" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="89" r_stop="139" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="140" r_stop="241" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="242" r_stop="299" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="300" r_stop="344" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="345" r_stop="425" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="426" r_stop="500" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="66875" g_length="351"/>
          <reference_exon_boundary r_type="cDNA" r_start="501" r_stop="851" r_length="351" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E719117" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>821</cumulative_length_of_scored_exons>
        <coverage percentage="0.965" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E719117" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69185" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="66875"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGG</genome_strand>
        <mrna_strand>AATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E720640" ref_strand="+" ref_description="SGN-E720640 [FC11BE12]">
      <seq>gactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaatttgtctttctttttctatatttgtgtagagcttattgtttgtttctattagaacgctcttttttttagtttattttggggtttcttagg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="67437" stop="66575"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67137" g_stop="66875" g_length="263"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="263" r_length="263" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E720640" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>263</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E720640" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67137" e_stop="66875"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGG</genome_strand>
        <mrna_strand>GACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E720983" ref_strand="+" ref_description="SGN-E720983 [FC12BG04]">
      <seq>aatcggccgaattgatatacacaattcatcccatagggcaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcaaataacaagctgggagtgaagaaaagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaaaaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgaaaaggctccttacatcgctaaggctgaaaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttaaatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaatttgtctttctttttctatatttgtgaagagcttattgtttgtttctattagaacgctcttttttttagtttattttggggtttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69491" stop="66580"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69192" g_stop="69128" g_length="65"/>
          <reference_exon_boundary r_type="cDNA" r_start="16" r_stop="80" r_length="65" r_score="0.954"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="0.96"/>
            <acceptor a_prob="0.997" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="81" r_stop="131" r_length="51" r_score="0.980"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="132" r_stop="233" r_length="102" r_score="0.980"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="0.98"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="234" r_stop="291" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="292" r_stop="336" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="337" r_stop="417" r_length="81" r_score="0.975"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="418" r_stop="492" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="66880" g_length="346"/>
          <reference_exon_boundary r_type="cDNA" r_start="493" r_stop="838" r_length="346" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E720983" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>823</cumulative_length_of_scored_exons>
        <coverage percentage="0.982" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E720983" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69192" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="66880"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTC</genome_strand>
        <mrna_strand>TATACACAATTCATCCCATAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAAATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAAAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAAAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAAAAGGCTCCTTACATCGCTAAGGCTGAAAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAAATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGAAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E555456" ref_strand="+" ref_description="SGN-E555456 [cTSC-3-L22]">
      <seq>ggatcccccgggctgcagaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaatttgactttctttttctatatttgtgtagagcttattgtttgtttctattagaacgctcttttttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69470" stop="66599"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69171" g_stop="69128" g_length="44"/>
          <reference_exon_boundary r_type="cDNA" r_start="14" r_stop="57" r_length="44" r_score="0.955"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="0.95"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="58" r_stop="108" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="109" r_stop="210" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="211" r_stop="268" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="269" r_stop="313" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="314" r_stop="394" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="395" r_stop="469" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="66899" g_length="327"/>
          <reference_exon_boundary r_type="cDNA" r_start="470" r_stop="796" r_length="327" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E555456" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>783</cumulative_length_of_scored_exons>
        <coverage percentage="0.984" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E555456" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69171" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="66899"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTT</genome_strand>
        <mrna_strand>TGCAGAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGACTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E254970" ref_strand="-" ref_description="SGN-E254970 [cLEG-33-L9]">
      <seq>aaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaatttgtctttctttttctatatttgtgcagagccccttgtttgtttctattaaaaaaaaaaaaaaaaaaaaaaaaaaactcgagacta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="68167" stop="66633"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67867" g_stop="67832" g_length="36"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="36" r_length="36" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="81" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="82" r_stop="162" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="163" r_stop="237" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67225" g_stop="66910" g_length="316"/>
          <reference_exon_boundary r_type="cDNA" r_start="238" r_stop="553" r_length="316" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="554" polyA_stop="576"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E254970" ref_strand="-">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>553</cumulative_length_of_scored_exons>
        <coverage percentage="0.945" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E254970" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="67867" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="66910"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAAC</genome_strand>
        <mrna_strand>AAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGCAGAGCCCCTTGTTTGTTTCTATTAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E718309" ref_strand="+" ref_description="SGN-E718309 [FC04BB11]">
      <seq>cggccaaatcggccgaattgaatttcttttgagtccctcaccaaagccccttcttatcctctcttcacaacacacacacaatacacaattcatctcaaagggcaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcaaataacaagctgggagtgaagaaaagtgctgcccagactaaaaaagagaaaaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69551" stop="66664"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69251" g_stop="69128" g_length="124"/>
          <reference_exon_boundary r_type="cDNA" r_start="21" r_stop="144" r_length="124" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="145" r_stop="195" r_length="51" r_score="0.980"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="196" r_stop="297" r_length="102" r_score="0.980"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="298" r_stop="355" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="356" r_stop="400" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="401" r_stop="481" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="482" r_stop="556" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="66964" g_length="262"/>
          <reference_exon_boundary r_type="cDNA" r_start="557" r_stop="818" r_length="262" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E718309" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>798</cumulative_length_of_scored_exons>
        <coverage percentage="0.976" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E718309" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69251" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="66964"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTTCTTTTGAGTCCCTCACCAAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAAT</genome_strand>
        <mrna_strand>AATTTCTTTTGAGTCCCTCACCAAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAAATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAAAGTGCTGCCCAGACTAAAAAAGAGAAAAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E723052" ref_strand="+" ref_description="SGN-E723052 [FC19AG12]">
      <seq>atcggccgaattgcttttgagtccctcaccaaagccccttcttatcctctcttcacaacacacacacaatacacaattcatctcaaagggcaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcaaataacaagctgggagtgaaaaaaagtgctgcccaaactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgaaaaggctccttacatcgctaaggctgaaaaacgaaaggctgattatgagaagctaatggacgcttacaacaaaaaacaggctggtgaagctgaggaaaatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaaaaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69551" stop="66667"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69259" g_stop="69128" g_length="132"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="132" r_length="132" r_score="0.955"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="133" r_stop="183" r_length="51" r_score="0.980"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="184" r_stop="285" r_length="102" r_score="0.971"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="286" r_stop="343" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="344" r_stop="388" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="389" r_stop="469" r_length="81" r_score="0.963"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="470" r_stop="544" r_length="75" r_score="0.987"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="66967" g_length="259"/>
          <reference_exon_boundary r_type="cDNA" r_start="545" r_stop="803" r_length="259" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E723052" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>803</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E723052" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69259" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="66967"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGAAAAAATTTCTTTTGAGTCCCTCACCAAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGC</genome_strand>
        <mrna_strand>ATCGGCCGAATTGCTTTTGAGTCCCTCACCAAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAAATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAAAAAAGTGCTGCCCAAACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAAAAGGCTCCTTACATCGCTAAGGCTGAAAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAAAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAAATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAAAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294799" ref_strand="+" ref_description="SGN-E294799 [cLET-17-P1]">
      <seq>gctgattatgagaagctaatggacgcttacaacataagacaggctggtgaagctgaggaatatgaggaatatgacgagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggaggggaagctgagttatacctaaaatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtgtattatggggtttcttacgtatgggtcatagatgacttccatgagagctatctttaaagctcagcggcttacgtactttccattctgatgctggtgtcgctcaatgataatgcaactttctaggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="67817" stop="66667"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67517" g_stop="67476" g_length="42"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="42" r_length="42" r_score="0.952"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="0.95"/>
            <acceptor a_prob="1.000" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="117" r_length="75" r_score="0.960"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="0.96"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67225" g_stop="66967" g_length="259"/>
          <reference_exon_boundary r_type="cDNA" r_start="118" r_stop="376" r_length="259" r_score="0.919"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E294799" ref_strand="+">
        <total_alignment_score>0.928</total_alignment_score>
        <cumulative_length_of_scored_exons>376</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E294799" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67517" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="66967"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGC</genome_strand>
        <mrna_strand>GCTGATTATGAGAAGCTAATGGACGCTTACAACATAAGACAG...........................................................................................GCTGGTGAAGCTGAGGAATATGAGGAATATGACGAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGAGGGGAAGCTGAGTTATACCTAAAATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTGTATTATGGGGTTTCTTACGTATGGGTCATAGATGACTTCCATGAGAGCTATCTTTAAAGCTCAGCGGCTTACGTACTTTCCATTCTGATGCTGGTGTCGCTCAATGATAATGCAACTTTCTAGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E723034" ref_strand="+" ref_description="SGN-E723034 [FC19AF01]">
      <seq>aatcggccgaattgcttttgagtccctcaccaaagccccttcttatcctctcttcacaacacacacacaatacacaattcatctcaaagggcaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcaaataacaagctgggagtgaaaaaaagtgctgcccaaactaaaaaagagaaaaatgctgccaaggatccaaacaagcctaaaaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgaaaaggctccttacatcgctaaggctgaaaaacgaaaggctgattatgagaagctaatggacgcttacaacaaaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttaaatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttagg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69551" stop="66668"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69260" g_stop="69128" g_length="133"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="133" r_length="133" r_score="0.947"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="134" r_stop="184" r_length="51" r_score="0.980"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="185" r_stop="286" r_length="102" r_score="0.951"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="0.98"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="287" r_stop="344" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="345" r_stop="389" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="390" r_stop="470" r_length="81" r_score="0.963"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="471" r_stop="545" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="66968" g_length="258"/>
          <reference_exon_boundary r_type="cDNA" r_start="546" r_stop="803" r_length="258" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E723034" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>803</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E723034" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69260" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="66968"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATGGAAAAAATTTCTTTTGAGTCCCTCACCAAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGG</genome_strand>
        <mrna_strand>AATCGGCCGAATTGCTTTTGAGTCCCTCACCAAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAAATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAAAAAAGTGCTGCCCAAACTAAAAAAGAGAAAAATGCTGCCAAGGATCCAAACAAGCCTAAAAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAAAAGGCTCCTTACATCGCTAAGGCTGAAAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAAAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAAATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E688158" ref_strand="+" ref_description="SGN-E688158 [T3_tus_85_O13]">
      <seq>cctctcttcacaacacacacacaatacacaattcatctcaaagggcaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggccaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaacctcgggggggggggccg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69514" stop="66665"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69214" g_stop="69128" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="87" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="88" r_stop="138" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="68065" g_length="22"/>
          <reference_exon_boundary r_type="cDNA" r_start="139" r_stop="160" r_length="22" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="68064" i_stop="67731" i_length="334">
            <donor d_prob="0.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="0.91"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="161" r_stop="203" r_length="43" r_score="0.911"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="0.91"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="204" r_stop="284" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="285" r_stop="359" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67225" g_stop="66969" g_length="257"/>
          <reference_exon_boundary r_type="cDNA" r_start="360" r_stop="616" r_length="257" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="622" polyA_stop="655"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E688158" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>618</cumulative_length_of_scored_exons>
        <coverage percentage="0.920" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E688158" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69214" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="68065"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="66969"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</genome_strand>
        <mrna_strand>CCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCT..............................................................................................................................................................................................................................................................................................................................................G--CCCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340014" ref_strand="+" ref_description="SGN-E340014 [cTOF-3-E8]">
      <seq>acaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaactttttaggcnaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="67653" stop="66665"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67353" g_stop="67310" g_length="44"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="44" r_length="44" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67225" g_stop="66969" g_length="257"/>
          <reference_exon_boundary r_type="cDNA" r_start="45" r_stop="301" r_length="257" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="305" polyA_stop="319"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E340014" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>301</cumulative_length_of_scored_exons>
        <coverage percentage="0.944" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E340014" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67353" e_stop="67310"/>
          <exon e_start="67225" e_stop="66969"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</genome_strand>
        <mrna_strand>ACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E349200" ref_strand="+" ref_description="SGN-E349200 [cTOS-2-K2]">
      <seq>aggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatcttttaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaacttttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="68187" stop="66671"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67887" g_stop="67832" g_length="56"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="56" r_length="56" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="57" r_stop="101" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="102" r_stop="182" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="183" r_stop="257" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67225" g_stop="66971" g_length="255"/>
          <reference_exon_boundary r_type="cDNA" r_start="258" r_stop="512" r_length="255" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E349200" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>512</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E349200" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67887" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="66971"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTT</genome_strand>
        <mrna_strand>AGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTTAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E349601" ref_strand="+" ref_description="SGN-E349601 [cTOS-1-D8]">
      <seq>aggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgctggtgttgcttaatgataatgcaacttttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="68187" stop="66671"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67887" g_stop="67832" g_length="56"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="56" r_length="56" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="57" r_stop="101" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="102" r_stop="182" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="183" r_stop="257" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67225" g_stop="66971" g_length="255"/>
          <reference_exon_boundary r_type="cDNA" r_start="258" r_stop="512" r_length="255" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E349601" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>512</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E349601" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67887" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="66971"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTT</genome_strand>
        <mrna_strand>AGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E342712" ref_strand="+" ref_description="SGN-E342712 [cTOF-7-A11]">
      <seq>tgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattagatgagagctatctttaaagctcagtggcttatgtactttttattctgatgcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69313" stop="66701"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69013" g_stop="68977" g_length="37"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="37" r_length="37" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="38" r_stop="139" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="140" r_stop="197" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="198" r_stop="242" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="243" r_stop="323" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="324" r_stop="398" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67225" g_stop="67000" g_length="226"/>
          <reference_exon_boundary r_type="cDNA" r_start="399" r_stop="624" r_length="226" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E342712" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>624</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E342712" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69013" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67000"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCT</genome_strand>
        <mrna_strand>TGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E355107" ref_strand="+" ref_description="SGN-E355107 [cTOS-18-L7]">
      <seq>gtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttgggggttcttagggatgggaaaaagatgaattagatgagagctatctttaaagctcagtgggttatgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69304" stop="66717"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69004" g_stop="68977" g_length="28"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="28" r_length="28" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="29" r_stop="130" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="131" r_stop="188" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="189" r_stop="233" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="234" r_stop="314" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="315" r_stop="389" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67225" g_stop="67017" g_length="209"/>
          <reference_exon_boundary r_type="cDNA" r_start="390" r_stop="598" r_length="209" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E355107" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>598</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E355107" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69004" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67017"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTA</genome_strand>
        <mrna_strand>GTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGGTTCTTAGGGATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGGTTATGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E718063" ref_strand="+" ref_description="SGN-E718063 [FC03CC06]">
      <seq>ttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcaaataacaagctgggagtgaaaaaaagtgctgcccagactaaaaaagagaaaaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgaaaaggctccttacatcgctaaggctgaaaaacgaaaggctgattatgaaaagctaatggacgcttacaacaaaaaacaggctggtgaagctgaggaaaatgaggaatctgacaagtcaaagtctgaggttgatgaggaaaatggaagcgatgaggaaaaaaaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttaaatatttctctatatgatgactccttacttttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaattaaatgagagctatct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69451" stop="66739"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69151" g_stop="69128" g_length="24"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="24" r_length="24" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="0.00"/>
            <acceptor a_prob="0.997" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="25" r_stop="75" r_length="51" r_score="0.980"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="76" r_stop="177" r_length="102" r_score="0.971"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="178" r_stop="235" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="236" r_stop="280" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="281" r_stop="361" r_length="81" r_score="0.951"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="0.96"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="362" r_stop="436" r_length="75" r_score="0.973"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="67039" g_length="187"/>
          <reference_exon_boundary r_type="cDNA" r_start="437" r_stop="623" r_length="187" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E718063" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>623</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E718063" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69151" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67039"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCT</genome_strand>
        <mrna_strand>TTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAAATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAAAAAAGTGCTGCCCAGACTAAAAAAGAGAAAAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAAAAGGCTCCTTACATCGCTAAGGCTGAAAAACGAAAGGCTGATTATGAAAAGCTAATGGACGCTTACAACAAAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAAATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAAATGGAAGCGATGAG....................................................................................GAAAAAAAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAAATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAAATGAGAGCTATCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E369216" ref_strand="+" ref_description="SGN-E369216 [TUS-23-O8]">
      <seq>caaagccccttcttatcctctcttcacaacacacacacaatacacaattcatctcaaagggcaaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatactttgcctcttttttttagtttattttggggtttcttaggtatgggaaaaagatgaatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69530" stop="66754"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69230" g_stop="69128" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="104" r_length="104" r_score="0.981"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="0.96"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="105" r_stop="155" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="156" r_stop="257" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="258" r_stop="315" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="316" r_stop="360" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="361" r_stop="441" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="442" r_stop="516" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="67054" g_length="172"/>
          <reference_exon_boundary r_type="cDNA" r_start="517" r_stop="689" r_length="173" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E369216" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>687</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E369216" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69230" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67054"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGC-AAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATAC-TTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATT</genome_strand>
        <mrna_strand>CAAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTTGCCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E326571" ref_strand="+" ref_description="SGN-E326571 [cTOC-17-H2]">
      <seq>aaagccccttcttatcctctcttcacaacacacacacaatacacaattcatctcaaagggcaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaagttgatgangaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccnttactttccccgttaaatacttggctcttttttttagtttattttggggtttcttaggtatgggaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69529" stop="66763"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69229" g_stop="69128" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="102" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="103" r_stop="153" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="154" r_stop="255" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="256" r_stop="313" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="314" r_stop="358" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="359" r_stop="439" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="440" r_stop="514" r_length="75" r_score="0.973"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="0.96"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="67063" g_length="163"/>
          <reference_exon_boundary r_type="cDNA" r_start="515" r_stop="677" r_length="163" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E326571" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>677</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E326571" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69229" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67063"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAA</genome_strand>
        <mrna_strand>AAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAAGTTGATGANGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCNTTACTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E349147" ref_strand="+" ref_description="SGN-E349147 [cTOS-2-J2]">
      <seq>aggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggcgtcttttttttagtttattttggggtttctta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="68187" stop="66775"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67887" g_stop="67832" g_length="56"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="56" r_length="56" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="57" r_stop="101" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="102" r_stop="182" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="183" r_stop="257" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67225" g_stop="67075" g_length="151"/>
          <reference_exon_boundary r_type="cDNA" r_start="258" r_stop="409" r_length="152" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E349147" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>408</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E349147" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67887" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67075"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGC-TCTTTTTTTTAGTTTATTTTGGGGTTTCTTA</genome_strand>
        <mrna_strand>AGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCGTCTTTTTTTTAGTTTATTTTGGGGTTTCTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344467" ref_strand="+" ref_description="SGN-E344467 [cTOF-14-B1]">
      <seq>ctcaccaaagccccttcttatcctctcttcacaacacacacacaatacacaattcatctcaaagggcaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccctagatatttctctatatgatgactccttacttttcccccgtaaatacttggctctttttttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69535" stop="66796"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69235" g_stop="69128" g_length="108"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="108" r_length="108" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="109" r_stop="159" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="160" r_stop="261" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="262" r_stop="319" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="320" r_stop="364" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="365" r_stop="445" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="446" r_stop="520" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="67096" g_length="130"/>
          <reference_exon_boundary r_type="cDNA" r_start="521" r_stop="650" r_length="130" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E344467" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>650</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E344467" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69235" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67096"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCACCAAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTT</genome_strand>
        <mrna_strand>CTCACCAAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCCTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCCGTAAATACTTGGCTCTTTTTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E245828" ref_strand="+" ref_description="SGN-E245828 [cLEF-48-O12]">
      <seq>cacaattcatctcaaagggcaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttggctctttttttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69488" stop="66796"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69188" g_stop="69128" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="61" r_length="61" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="62" r_stop="112" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="113" r_stop="214" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="215" r_stop="272" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="273" r_stop="317" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="318" r_stop="398" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="399" r_stop="473" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="67096" g_length="130"/>
          <reference_exon_boundary r_type="cDNA" r_start="474" r_stop="603" r_length="130" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E245828" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>603</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E245828" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69188" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67096"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTT</genome_strand>
        <mrna_strand>CACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E362465" ref_strand="+" ref_description="SGN-E362465 [cLPP-1-F1]">
      <seq>ttatcctctcttcacaacacacacacaatacacaattcatctcaaagggcaaaaaatatctctttgttttttctctctcaaccctagaagttttttttgtcatcatgaaaggaggtaaatccaaggggaaagctgataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacattgccaaggctgagaaacgaaaggctgaatatgagaagctaatggacgcatacaacagaaaacaggctggtgaggctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgacgaggaagaagaggatgatgactgaagtgcttaatgggagggagtaaattggtggggaatctgtgtaataccttagatatttctctatatgatgactccttacttttccccgttaaatacttgctcttttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69518" stop="66799"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69218" g_stop="69128" g_length="91"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="90" r_length="90" r_score="0.989"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="0.98"/>
            <acceptor a_prob="0.997" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="91" r_stop="142" r_length="52" r_score="0.922"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="0.92"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="143" r_stop="244" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="245" r_stop="302" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="303" r_stop="347" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="348" r_stop="428" r_length="81" r_score="0.951"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="0.96"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="429" r_stop="503" r_length="75" r_score="0.973"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="67099" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="504" r_stop="630" r_length="127" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E362465" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>630</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E362465" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69218" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67099"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTT-TAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGC-TAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTT</genome_strand>
        <mrna_strand>TTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTT-TCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTGTCATCATGAAAGGAGGTAAATCCAAGGGGAAAGCTGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATTGCCAAGGCTGAGAAACGAAAGGCTGAATATGAGAAGCTAATGGACGCATACAACAGAAAACAG...........................................................................................GCTGGTGAGGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGACGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTTAATGGGAGGGAGTAAATTGGTGGGGAATCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTT-GCTCTTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E299321" ref_strand="+" ref_description="SGN-E299321 [cLET-43-F20]">
      <seq>gatccaaacaagcctaagaggccagcaagagctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaagttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatctgatgactccgtacttttcccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="68331" stop="66820"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="68031" g_stop="67985" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="47" r_length="47" r_score="0.979"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="0.98"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="48" r_stop="105" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="106" r_stop="150" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="151" r_stop="231" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="232" r_stop="306" r_length="75" r_score="0.987"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67225" g_stop="67120" g_length="106"/>
          <reference_exon_boundary r_type="cDNA" r_start="307" r_stop="412" r_length="106" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E299321" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>412</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E299321" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="68031" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67120"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCC</genome_strand>
        <mrna_strand>GATCCAAACAAGCCTAAGAGGCCAGCAAGAGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAAGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATCTGATGACTCCGTACTTTTCCCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E304478" ref_strand="+" ref_description="SGN-E304478 [cLEX-12-J16]">
      <seq>ttttttaatcatgataggaggtaaatccaaggggaaagcagataacgggctgggagggaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagctatgaggaagaagaggatgatgactgaagtgctaatgggagggagtgaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttttcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69324" stop="66822"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69024" g_stop="68977" g_length="48"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="48" r_length="48" r_score="0.938"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="0.94"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="49" r_stop="150" r_length="102" r_score="0.990"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="151" r_stop="208" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="209" r_stop="253" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="254" r_stop="334" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="335" r_stop="409" r_length="75" r_score="0.987"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67225" g_stop="67122" g_length="104"/>
          <reference_exon_boundary r_type="cDNA" r_start="410" r_stop="513" r_length="104" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E304478" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>513</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E304478" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69024" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67122"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCC</genome_strand>
        <mrna_strand>TTTTTTAATCATGATAGGAGGTAAATCCAAGGGGAAAGCAGATAACGG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGGGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCTATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTGAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293251" ref_strand="+" ref_description="SGN-E293251 [cLET-18-C9]">
      <seq>aaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttacttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69465" stop="66825"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69165" g_stop="69128" g_length="38"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="38" r_length="38" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="0.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="39" r_stop="89" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="90" r_stop="191" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="192" r_stop="249" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="250" r_stop="294" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="295" r_stop="375" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="376" r_stop="450" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="67125" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="451" r_stop="551" r_length="101" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E293251" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>551</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293251" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69165" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67125"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTT</genome_strand>
        <mrna_strand>AAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E300686" ref_strand="+" ref_description="SGN-E300686 [cLET-45-P16]">
      <seq>aatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttgtctatatgatgactccttacttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69464" stop="66825"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69164" g_stop="69128" g_length="37"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="37" r_length="37" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="0.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="38" r_stop="88" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="89" r_stop="190" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="191" r_stop="248" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="249" r_stop="293" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="294" r_stop="374" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="375" r_stop="449" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="67125" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="450" r_stop="550" r_length="101" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E300686" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>550</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E300686" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69164" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67125"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTT</genome_strand>
        <mrna_strand>AATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTGTCTATATGATGACTCCTTACTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E324785" ref_strand="+" ref_description="SGN-E324785 [cTOC-8-I4]">
      <seq>tctctttgtttttttctctctcaaccctagaagtttttttggaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatgactccttac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69460" stop="66828"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69160" g_stop="69128" g_length="33"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="33" r_length="33" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="0.00"/>
            <acceptor a_prob="0.997" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="34" r_stop="84" r_length="51" r_score="0.961"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="0.96"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="85" r_stop="186" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="187" r_stop="244" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="245" r_stop="289" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="290" r_stop="370" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="371" r_stop="445" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="67128" g_length="98"/>
          <reference_exon_boundary r_type="cDNA" r_start="446" r_stop="543" r_length="98" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E324785" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>543</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E324785" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69160" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67128"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTAC</genome_strand>
        <mrna_strand>TCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTGGAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E335855" ref_strand="+" ref_description="SGN-E335855 [cTOE-6-L17]">
      <seq>ctctcttcacaacacacacacaatacacaattcatctcaaagggcaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69513" stop="66837"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69213" g_stop="69128" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="86" r_length="86" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="87" r_stop="137" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="68065" g_length="22"/>
          <reference_exon_boundary r_type="cDNA" r_start="138" r_stop="159" r_length="22" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="68064" i_stop="67731" i_length="334">
            <donor d_prob="0.000" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="0.91"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="160" r_stop="202" r_length="43" r_score="0.911"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="0.91"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="203" r_stop="283" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="284" r_stop="358" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67225" g_stop="67137" g_length="89"/>
          <reference_exon_boundary r_type="cDNA" r_start="359" r_stop="447" r_length="89" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E335855" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>449</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E335855" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69213" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="68065"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67137"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATG</genome_strand>
        <mrna_strand>CTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCT..............................................................................................................................................................................................................................................................................................................................................G--CCCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295093" ref_strand="+" ref_description="SGN-E295093 [cLET-40-M9]">
      <seq>atatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaagctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaagctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggggaagctgtgtaataccttagatatttctctatatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69463" stop="66840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69163" g_stop="69128" g_length="36"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="36" r_length="36" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="0.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="87" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="88" r_stop="189" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="190" r_stop="247" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="248" r_stop="292" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="293" r_stop="373" r_length="81" r_score="0.975"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="374" r_stop="448" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="67140" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="449" r_stop="534" r_length="86" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E295093" ref_strand="+">
        <total_alignment_score>0.996</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="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295093" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69163" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67140"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATG</genome_strand>
        <mrna_strand>ATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAAGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAA...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E341739" ref_strand="+" ref_description="SGN-E341739 [cTOF-9-A1]">
      <seq>gccccttcttatcctctcttacaacacacacacaatacacaattcatctcaaagggcaaaaaatatctctttgtttttttctctctcaaccctagaagttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacccttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaagttgatgaggaagatggaagcgatgaggaagaagaggatgatgacctgaagtgctaatgggaagggagtaaattggtggggaaacct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69526" stop="66870"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69226" g_stop="69128" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="98" r_length="98" r_score="0.990"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="99" r_stop="148" r_length="50" r_score="0.980"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="149" r_stop="250" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="251" r_stop="308" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="309" r_stop="353" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="354" r_stop="434" r_length="81" r_score="0.988"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="435" r_stop="509" r_length="75" r_score="0.987"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="67168" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="510" r_stop="569" r_length="60" r_score="0.879"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E341739" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>569</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E341739" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69226" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67168"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGA-CTGAAGTGCTAATGGG-AGGGAGTAAATTGGTGGGGAAGCTG</genome_strand>
        <mrna_strand>GCCCCTTCTTATCCTCTCTT-ACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................-TTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACCCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAAGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACCTGAAGTGCTAATGGGAAGGGAGTAAATTGGTGGGGAAACCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E338645" ref_strand="+" ref_description="SGN-E338645 [cTOE-15-L1]">
      <seq>ccttcttatcctctcttcacaacacacacacaatacacaattcatctcaaagggcaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgatgaagatggaagcgatgaggaagaacacgatgatgactgaagtgctaatgggagggagtaaattggtgggga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69523" stop="66873"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69223" g_stop="69128" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="96" r_length="96" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="97" r_stop="147" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="148" r_stop="249" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="250" r_stop="307" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="308" r_stop="352" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="353" r_stop="433" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="434" r_stop="508" r_length="75" r_score="0.987"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="67173" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="509" r_stop="561" r_length="53" r_score="0.962"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E338645" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>561</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E338645" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69223" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67173"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGA</genome_strand>
        <mrna_strand>CCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGATGAAGATGGAAGCGATGAG....................................................................................GAAGAACACGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E246803" ref_strand="+" ref_description="SGN-E246803 [cLEF-41-E9]">
      <seq>caaagccccttcttatcctctcttcacaacacacacacaatacacaattcatctcaaagggcaaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagtaaattggtggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69530" stop="66875"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69230" g_stop="69128" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="104" r_length="104" r_score="0.981"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="0.96"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="105" r_stop="155" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="156" r_stop="257" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="258" r_stop="315" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="316" r_stop="360" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="361" r_stop="441" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="442" r_stop="516" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="67175" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="517" r_stop="567" r_length="51" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E246803" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>566</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E246803" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69230" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67175"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGC-AAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGG</genome_strand>
        <mrna_strand>CAAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E206665" ref_strand="+" ref_description="SGN-E206665 [cLEC-31-J14]">
      <seq>aagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatgggagggagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="68393" stop="66886"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="14" r_stop="115" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="116" r_stop="173" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="174" r_stop="218" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="219" r_stop="299" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="300" r_stop="374" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67225" g_stop="67186" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="375" r_stop="414" r_length="40" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E206665" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>401</cumulative_length_of_scored_exons>
        <coverage percentage="0.969" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E206665" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67186"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGT</genome_strand>
        <mrna_strand>GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295679" ref_strand="+" ref_description="SGN-E295679 [cLET-25-B24]">
      <seq>aatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgatgtgctaatgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69464" stop="66894"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69164" g_stop="69128" g_length="37"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="37" r_length="37" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="0.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="38" r_stop="88" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="89" r_stop="190" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="191" r_stop="248" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="249" r_stop="293" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="294" r_stop="374" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="375" r_stop="449" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="67194" g_length="32"/>
          <reference_exon_boundary r_type="cDNA" r_start="450" r_stop="481" r_length="32" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E295679" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>481</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295679" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69164" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67194"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATGG</genome_strand>
        <mrna_strand>AATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGATGTGCTAATGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E319615" ref_strand="+" ref_description="SGN-E319615 [cTOB-12-C9]">
      <seq>aagccccttcttatcctctcttcacaacacacacacaatacacaattcatctcaaagggcaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggaagaagaggatgatgactgaagtgctaatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69528" stop="66895"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69228" g_stop="69128" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="101" r_length="101" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="102" r_stop="152" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="153" r_stop="254" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="255" r_stop="312" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="313" r_stop="357" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="358" r_stop="438" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67310" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="439" r_stop="513" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="67225" g_stop="67195" g_length="31"/>
          <reference_exon_boundary r_type="cDNA" r_start="514" r_stop="544" r_length="31" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E319615" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>544</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E319615" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69228" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67310"/>
          <exon e_start="67225" e_stop="67195"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACAGGAAGAAGAGGATGATGACTGAAGTGCTAATG</genome_strand>
        <mrna_strand>AAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG....................................................................................GAAGAAGAGGATGATGACTGAAGTGCTAATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E689154" ref_strand="+" ref_description="SGN-E689154 [t3_tus_80_F14]">
      <seq>taagagtgctgcccagactaaaaaagagaagaatgctgcctaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatgtacacatcagaactctgttcttaagatttatggtgacactcagcttcgtaaatcctgatttaataatgttattttcgtggcttggtatattaagggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgtgagtattttctcttgtcagacctgaagccgagactgattttgtgcttgaaactggtatttgattgagagctgttttctctttgattaatcaatctataggttggcaaagctggtggtgacaagtggaaacacttgactgatgctgtaagtatctgtgttttagctatttttaaaatgctgtatcgagacttagtgatgttgcagtcttgttttagtcatcgagttttgttctattgatattgaattttgtgttgtttgaaatcatgaatacaggagaaggctccttacatcgctnaggctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggtgatgaaatatctgcaaattgtacatgcttatcttttttttcctgattggttatttgtgctaaagaaactccatatcttctgctgtataggctggtgaagctgaggaagatgaggaatctgacaagtcaaagtctgaggttgatgaggaagatggaagcgatgaggtttgtaatgggcaatgatcaatatcttgttttgtctgtttaactttaggtcttgtattgatgattttactttgattaacaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="68373" stop="66927"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="68074" g_stop="67227" g_length="848"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="848" r_length="848" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E689154" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>848</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E689154" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="68074" e_stop="67227"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACA</genome_strand>
        <mrna_strand>TAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCTAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTNAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E324547" ref_strand="+" ref_description="SGN-E324547 [cTOC-9-D3]">
      <seq>aaaaatatctcttagtttttttctctctcaaccctagaagttttttggtaatcatgaaaggaggtaaatccaaagggaaagcagataacaagctgggagtgaagaagagtgctgcccacactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaagctgagaaacgaaaggctgattatgagaagctaatggacgcttacaacagaaaacaggctggtgaagctgaggaagatgaagaatctgacaagtcaaagtctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69467" stop="67039"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69167" g_stop="69128" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="40" r_length="40" r_score="0.975"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="0.98"/>
            <acceptor a_prob="0.997" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="41" r_stop="91" r_length="51" r_score="0.941"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="0.94"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="92" r_stop="193" r_length="102" r_score="0.990"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="194" r_stop="251" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="252" r_stop="296" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67476" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="297" r_stop="377" r_length="81" r_score="0.988"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="67384" g_stop="67339" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="378" r_stop="423" r_length="46" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E324547" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>423</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E324547" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69167" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67476"/>
          <exon e_start="67384" e_stop="67339"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTG</genome_strand>
        <mrna_strand>AAAAATATCTCTTAGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTGGTAATCATGAAAGGAGGTAAATCCAAAGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCACACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAAGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG...........................................................................................GCTGGTGAAGCTGAGGAAGATGAAGAATCTGACAAGTCAAAGTCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E361844" ref_strand="+" ref_description="SGN-E361844 [cLPP-12-J15]">
      <seq>ttatcctctcttcacaacacacacacaatacacaattcatctcaaagggcaaaaaatatctctttgttttttctctctcaaccctagaagttttttttgtcatcatgaaaggaggtaaatccaaggggaaagctgataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaataggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacattgccaaggctgagaaacgaaaggctgaatatgagaagctaatggacgcatacaacagaaaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69518" stop="67178"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69218" g_stop="69128" g_length="91"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="90" r_length="90" r_score="0.989"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="0.98"/>
            <acceptor a_prob="0.997" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="91" r_stop="142" r_length="52" r_score="0.922"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="0.92"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="143" r_stop="244" r_length="102" r_score="0.990"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="0.98"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="245" r_stop="302" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="303" r_stop="347" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67478" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="348" r_stop="426" r_length="79" r_score="0.949"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E361844" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>426</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E361844" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69218" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67478"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTT-TAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAAC</genome_strand>
        <mrna_strand>TTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTT-TCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTGTCATCATGAAAGGAGGTAAATCCAAGGGGAAAGCTGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAATAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATTGCCAAGGCTGAGAAACGAAAGGCTGAATATGAGAAGCTAATGGACGCATACAACAGAAAAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E338741" ref_strand="+" ref_description="SGN-E338741 [cTOE-21-C22]">
      <seq>cccttcttatcctctcttcacaacacacacacaatacacaattcatctcaaagggcaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacgctta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69524" stop="67189"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69224" g_stop="69128" g_length="97"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="97" r_length="97" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="98" r_stop="148" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="149" r_stop="250" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="251" r_stop="308" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="309" r_stop="353" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67489" g_length="68"/>
          <reference_exon_boundary r_type="cDNA" r_start="354" r_stop="421" r_length="68" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E338741" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>421</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E338741" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69224" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67489"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTA</genome_strand>
        <mrna_strand>CCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E321773" ref_strand="+" ref_description="SGN-E321773 [cTOB-25-B9]">
      <seq>cacaacacacacacaatacacaattcatctcaaagggcaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgttggcaaagctggtggtgacaagtggaaacacttgactgatgctgagaaggctccttacatcgctaaggctgagaaacgaaaggctgattatgagaagctaatggacg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69506" stop="67193"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69206" g_stop="69128" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="79" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="80" r_stop="130" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="131" r_stop="232" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="233" r_stop="290" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="291" r_stop="335" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67556" g_stop="67493" g_length="64"/>
          <reference_exon_boundary r_type="cDNA" r_start="336" r_stop="399" r_length="64" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E321773" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>399</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E321773" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69206" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
          <exon e_start="67556" e_stop="67493"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACG</genome_strand>
        <mrna_strand>CACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT.....................................................................................................GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT.................................................................................................................................GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E324683" ref_strand="+" ref_description="SGN-E324683 [cTOC-8-E5]">
      <seq>aagagtgctgcccagactaaaaaagagaagaatgctgcgcgggatccaaacaagcctaagaggccagcaagtgctttcttcgttttcatgtacacatcagaactctgttcttaagatttatggtgacactcagcttcgtaaatcctgatttaataatgttattttcgtggcttggtatattaagggaggacttcaggaagcagtacaaggaaaagcatccaggcaacaaatctgttgctgctgtgagtattttctcttgtcagacctgaagccgagactgattttgtgcttgaaactggtatttgattgagagctgttttctctttgattaatcaatctataggttggcaaagctggtggtgacaagtggaaacacttgactgatgctgtaagtatctgtgttttagctatttttaaaatgctgtatcgagacttagtgatgttgcagtcttgttttagtcatcgagttttgttctattgatattgaatttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="68373" stop="67282"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="68073" g_stop="67582" g_length="492"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="492" r_length="492" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E324683" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>492</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E324683" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="68073" e_stop="67582"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTT</genome_strand>
        <mrna_strand>AAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCGCGGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E337142" ref_strand="+" ref_description="SGN-E337142 [cTOE-7-J21]">
      <seq>agccccttcttatcctctcttcacaacacacacacaatacacaattcatctcaaagggcaaaaaatatctctttgtttttttctctctcaaccctagaagtttttttttaatcatgaaaggaggtaaatccaaggggaaagcagataacaagctgggagtgaagaagagtgctgcccagactaaaaaagagaagaatgctgccaaggatccaaacaagcctaagaggccaccaagtgcttccttcgttttcatggaggacttcaggaagcagtacaaggaaaagcatccatgcaacaaatctgttgctgctgctggcaaagctggtggtgacaagtggaaacacttgactgatgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="69527" stop="67385"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="69227" g_stop="69128" g_length="100"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="100" r_length="100" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="69027" g_stop="68977" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="101" r_stop="151" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68086" g_stop="67985" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="152" r_stop="253" r_length="102" r_score="0.980"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95">
            <donor d_prob="0.930" d_score="0.96"/>
            <acceptor a_prob="0.965" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67889" g_stop="67832" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="254" r_stop="311" r_length="58" r_score="0.983"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101">
            <donor d_prob="0.979" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="67730" g_stop="67686" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="312" r_stop="356" r_length="45" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E337142" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>356</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E337142" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="69227" e_stop="69128"/>
          <exon e_start="69027" e_stop="68977"/>
          <exon e_start="68086" e_stop="67985"/>
          <exon e_start="67889" e_stop="67832"/>
          <exon e_start="67730" e_stop="67686"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAGGTAACCCTACGGCGGCGACTCAGCCGAGGAGTACTACTTCTCTGTCGATTTTGAACGGATTGTGAACCGATTCTAACCGGTTTTTGTTGTTTTATTGCAGTTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAAGTACGTAAACGTATTGCTTTTTTTTTGTTGTTGTGAATCAATCTGCAAAGCTGATAATGAATGCGTATATCTCTGTTTTTTTTTCTGTTGTAATTCAATTAGAGAGCTGATAATAAGTGCGTATATCTGTTTTTGTTTGTTCTTCATATTTATTTGGTGTGAACGGAGGTTAATCGAAGGATGAAGCTGATAGAACGTGCGCGCATCTGTTGTTATGGATTTTTTTTGAAGATTTTTTTGGTGTTTTTTAGCTTTTAGATCTATGATTGAGGTGTTTGAGCATGACTTGTTTTTGAATATGTGATTGTTCTGACGATTTTGGTTGTCTATACAGTTCAAATCTATGATTGAGTCCTGTGTGCATGATATGTTTTGGATGTATGATATTTCAATCATTGTGGTCATCTACATGGTCAGAATGTACGATTGAGGTGTTTGAGCAATGATATGTTTGAATCCGTGCGATTATTTGAGAAAAATCTTGCGAACTATTGATTAGATGTGAGGTGGTTTATTTCTATTTGAATGATGTTTTATCATGCTTTGGTAAATCATTACAGTTTTAGTTCTACTCTGATTATGGTTGATACATGAGCATAAGTTGTGGTGTGTGTATATATTTTGATTCTCAATAAGTGTTGAAGGATTTTGATACGAGTACATCAAGAGTATATGGATTGATTGAAATTTCTAAATATATTAAAAGTCTGTTGTCATATATGTTTATAATTTCAGCTGTTAATCTTTGTGTGGTTATGCTAGTTTTGTTTTAGAATTTGATTTGATTTTTTCTGGACTACAACATCCTGGTGTATATGTTTGATAATATTAGTGTTCTATATGCTGGATTTATTTTGAATTTTGATGTTATTTTTACTGGATTATTTCAGGCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT</genome_strand>
        <mrna_strand>AGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG....................................................................................................TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCACCAAGTGCTTCCTTCGTTTTCAT...............................................................................................GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCATGCAACAAATCTGTTGCTGCT.....................................................................................................GCTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E324246" ref_strand="+" ref_description="SGN-E324246 [cTOC-4-C6]">
      <seq>gcggagcttcaaattgagccaattgattgaatttttcagatttttcagtgaatttctaatagctatgtacggatcaagaaggtaagtttacctaattccctttggtttgataaaatttaatgctttgttgaagaggtgaattgggcgttttgttctgttgatgtgtttttccgccttatttccccgatttcatttgttttaattgatattttttgttgattttgatgcgcaattactgaattgcttgattatttgttcaacctctgcttgatttaagccgagttgtggagaatcttcacttttgatgcctcacctgtgtcggagtttcctaaattacactacttttggagaattcgtcaacacaagttgacatttttgaagagttagagcaacatggtatttaaagaaccacgcaggagaaattatggatgtagtcattattggttaacacttttgtagaacaaaagattgattt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="76202" stop="77275"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="76501" g_stop="76975" g_length="475"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="475" r_length="475" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E324246" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>475</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E324246" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="76501" e_stop="76975"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCGGAGCTTCAAATTGAGCCAATTGATTGAATTTTTCAGATTTTTCAGTGAATTTCTAATAGCTATGTACGGATCAAGAAGGTAAGTTTACCTAATTCCCTTTGGTTTGATAAAATTTAATGCTTTGTTGAAGAGGTGAATTGGGCGTTTTGTTCTGTTGATGTGTTTTTCCGCCTTATTTCCCCGATTTCATTTGTTTTAATTGATATTTTTTGTTGATTTTGATGCGCAATTACTGAATTGCTTGATTATTTGTTCAACCTCTGCTTGATTTAAGCCGAGTTGTGGAGAATCTTCACTTTTGATGCCTCACCTGTGTCGGAGTTTCCTAAATTACACTACTTTTGGAGAATTCGTCAACACAAGTTGACATTTTTGAAGAGTTAGAGCAACATGGTATTTAAAGAACCACGCAGGAGAAATTATGGATGTAGTCATTATTGGTTAACACTTTTGTAGAACAAAGGATTGATTT</genome_strand>
        <mrna_strand>GCGGAGCTTCAAATTGAGCCAATTGATTGAATTTTTCAGATTTTTCAGTGAATTTCTAATAGCTATGTACGGATCAAGAAGGTAAGTTTACCTAATTCCCTTTGGTTTGATAAAATTTAATGCTTTGTTGAAGAGGTGAATTGGGCGTTTTGTTCTGTTGATGTGTTTTTCCGCCTTATTTCCCCGATTTCATTTGTTTTAATTGATATTTTTTGTTGATTTTGATGCGCAATTACTGAATTGCTTGATTATTTGTTCAACCTCTGCTTGATTTAAGCCGAGTTGTGGAGAATCTTCACTTTTGATGCCTCACCTGTGTCGGAGTTTCCTAAATTACACTACTTTTGGAGAATTCGTCAACACAAGTTGACATTTTTGAAGAGTTAGAGCAACATGGTATTTAAAGAACCACGCAGGAGAAATTATGGATGTAGTCATTATTGGTTAACACTTTTGTAGAACAAAAGATTGATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E245713" ref_strand="+" ref_description="SGN-E245713 [cLEF-48-E8]">
      <seq>tgcatcatcccagagtataaaagaatgcatttggccgcccaaaaaggtgtctcgacatggatttctcggacataaaaaagaagaagatcagaccatcaacagtttgaaattgtgattttagagttaattgattgaccaaaagaagaagatcataccataaactgctactagtttggaattgtgatttgagagtttattgattgaccgaatttaaacctgcatgtaaggctgtaaccgaacccctctgaccaaacgaaaaaagaagacctttctatttggtggaacgggaagcatttgagctttaagattccttaatacaaggtattacttcatcaaataatacctcgtcttaagattcctttttttctttttgacctaagaagtgtaaaaacaaaacctttgactttttttcagttcccgttgttatccgacctttaaggggttgttgatagagtaacaacaatttcttaaagggagattctctatctcaacataagaaccttataagtgaaatgtttgaacttttaagttcacatagttatcacgtttttaggttatggtaaccaatgcaaatttcttgatcacaggatagcttaagtctttaagataccatattagttatcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="76841" stop="78065"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="77141" g_stop="77765" g_length="625"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="625" r_length="625" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E245713" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>625</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E245713" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="77141" e_stop="77765"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCATCATCCCAGAGTATAAAAGAATGCATTTGGCCGCCCAAAAAGTTGTCTCGACATGGATTTCTCGGACATAAAAAAGAAGAAGATCAGACCATCAACAGTTTGAAATTGTGATTTTAGAGTTAATTGATTGACCAAAAGAAGAAGATCATACCATAAACTGCTACTAGTTTGGAATTGTGATTTGAGAGTTTATTGATTGACCGAATTTAAACCTGCATGTAAGGCTGTAACCGAACCCCTCTGACCAAACGAAAAAAGAAGACCTTTCTATTTGGTGGAACGGGAAGCATTTGAGCTTTAAGATTCCTTAATACAAGGTATTACTTCATCAAATAATACCTCGTCTTAAGATTCCTTTTTTTCTTTTTGACCTAAGAAGTGTAAAAACAAAACCTTTGACTTTTTTTCAGTTCCCGTTGTTATCCGACCTTTAAGGGGTTGTTGATAGAGTAACAACAATTTCTTAAAGGGAGATTCTCTATCTCAACATAAGAACCTTATAAGTGAAATGTTTGAACTTTTAAGTTCACATAGTTATCACGTTTTTAGGTTATGGTAACCAATGCAAATTTCTTGATCACAGGATAGCTTAAGTCTTTAAGATACCATATTAGTTATCTA</genome_strand>
        <mrna_strand>TGCATCATCCCAGAGTATAAAAGAATGCATTTGGCCGCCCAAAAAGGTGTCTCGACATGGATTTCTCGGACATAAAAAAGAAGAAGATCAGACCATCAACAGTTTGAAATTGTGATTTTAGAGTTAATTGATTGACCAAAAGAAGAAGATCATACCATAAACTGCTACTAGTTTGGAATTGTGATTTGAGAGTTTATTGATTGACCGAATTTAAACCTGCATGTAAGGCTGTAACCGAACCCCTCTGACCAAACGAAAAAAGAAGACCTTTCTATTTGGTGGAACGGGAAGCATTTGAGCTTTAAGATTCCTTAATACAAGGTATTACTTCATCAAATAATACCTCGTCTTAAGATTCCTTTTTTTCTTTTTGACCTAAGAAGTGTAAAAACAAAACCTTTGACTTTTTTTCAGTTCCCGTTGTTATCCGACCTTTAAGGGGTTGTTGATAGAGTAACAACAATTTCTTAAAGGGAGATTCTCTATCTCAACATAAGAACCTTATAAGTGAAATGTTTGAACTTTTAAGTTCACATAGTTATCACGTTTTTAGGTTATGGTAACCAATGCAAATTTCTTGATCACAGGATAGCTTAAGTCTTTAAGATACCATATTAGTTATCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731168" ref_strand="+" ref_description="SGN-E731168 [LA26BD07]">
      <seq>gtgggggatttttttcctttttgggtatcataattgaagggcaatgttggggagcgggggggtttcggacgggtacgagaatggctcaaagagaccaagaatgatggaatcaaatccctgcttcgcagtgagcagcggttcaagcggttatcaccagccttatggctatggcagcggcagatttcagccctctggatttcctgttgttcgtttgaggggtcttccgttcaactgcactgaaattgacattcacaagttctttgctggcctggatattgtggatgttttcctggtcaacaaggatggacggttcgttggggaggcttttgttgtctttgctggtcatatgcaagttgattatgctcttcaaagggacagacagaacatggggaggagatatgtggaagttttcagctgtaagaaagaagagtattaccaagctgtagctgctgaggtgaaggaaggaggtaaggataatgaatatcgttccccctcctctatctcgaccaaagaggtcagtgaacaaagatgatatggagtactctgtgatactgaaattgcgaggtctcccatacagtgttagaaaaacagatattggcagggtttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="78152" stop="79357"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="78452" g_stop="79057" g_length="606"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="607" r_length="607" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E731168" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>606</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E731168" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="78452" e_stop="79057"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGGGGGATTTTTTTCCTTTTTGGGTATCATAATTGAAGGGCAATGTTGGGGAGCGGGGGGGTTTCGGACGGGTACGAGAATGGCTCAAAGAGACCAAGAATGATGGAATCAAATCCCTGCTTCGCAGTGAGCAGCGGTTCAAGCGGTTATCACCAGCCTTATGGCTATGGCAGCGGCAGATTTCAGCCCTCTGGATTTCCTGTTGTTCGTTTGAGGGGTCTTCCGTTCAACTGCACTGAAATTGACATTCACAAGTTCTTTGCTGGCCTGGATATTGTGGATGTTTTCCTGGTCAACAAGGATGGACGGTTCGTTGGGGAGGCTTTTGTTGTCTTTGCTGGTCATATGCAAGTTGATTATGCTCTTCAAAGGGACAGACAGAACATGGGGAGGAGATATGTGGAAGTTTTCAGCTGTAAGAAAGAAGAGTATTACCAAGCTGTAGCTGCTGAGGTGAAGGAAGGAGGTAAGGATAATGAATATCGTT-CCCCTCCTCTATCTCGACCAAAGAGGTCAGTGAACAAAGATGATATGGAGTACTCTGTGATACTGAAATTGCGAGGTCTCCCATACAGTGTTAGAAAAACAGATATTGGCAGGTTTTT</genome_strand>
        <mrna_strand>GTGGGGGATTTTTTTCCTTTTTGGGTATCATAATTGAAGGGCAATGTTGGGGAGCGGGGGGGTTTCGGACGGGTACGAGAATGGCTCAAAGAGACCAAGAATGATGGAATCAAATCCCTGCTTCGCAGTGAGCAGCGGTTCAAGCGGTTATCACCAGCCTTATGGCTATGGCAGCGGCAGATTTCAGCCCTCTGGATTTCCTGTTGTTCGTTTGAGGGGTCTTCCGTTCAACTGCACTGAAATTGACATTCACAAGTTCTTTGCTGGCCTGGATATTGTGGATGTTTTCCTGGTCAACAAGGATGGACGGTTCGTTGGGGAGGCTTTTGTTGTCTTTGCTGGTCATATGCAAGTTGATTATGCTCTTCAAAGGGACAGACAGAACATGGGGAGGAGATATGTGGAAGTTTTCAGCTGTAAGAAAGAAGAGTATTACCAAGCTGTAGCTGCTGAGGTGAAGGAAGGAGGTAAGGATAATGAATATCGTTCCCCCTCCTCTATCTCGACCAAAGAGGTCAGTGAACAAAGATGATATGGAGTACTCTGTGATACTGAAATTGCGAGGTCTCCCATACAGTGTTAGAAAAACAGATATTGGCAGGGTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E578034" ref_strand="-" ref_description="SGN-E578034 [LE08DB04]">
      <seq>agggacagacagaacatggggaggagatatgtggaagttttcagctgtaagaaagaagagtattaccaagctgtagctgctgaggtgaaggaaggaggtaaggataatgaatatcgttcccctcctctatctcgaccaaagaggtcagtgaacaaagatgatatggagtactctgtgatactgaaattgcgaggtctcccatacagtgttagaaaaacagatattggcaggtttttcggtgaggaatttaatgttaaacctgacaaggtacacattgcataccgctctgatggaaaagctactggagaggcttatgtggaattcgcctctactgaagaagccaagaaagctatgtgcaaggacaatatgaagattggatctaggtatattgaactatttccttctcatccagatgaagctagacgagccgagtcaaggtcacaacactgatgccaaatactttgcaatgtgaagcatttttaagcatcacatgttttctatacctgtttctactgtggattagtcttgcacttgttaaacattgtcttctctgattactgtcattactgtatgatgatgattatatccccgtaagtatgcattttgagacattaataggaacaggtttatagtctctggttctcactcttggctatttctttagttttggtttttgcttaattcactttgattagtgtcaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="78522" stop="79821"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="78822" g_stop="79520" g_length="699"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="699" r_length="699" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="700" polyA_stop="722"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E578034" ref_strand="-">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>699</cumulative_length_of_scored_exons>
        <coverage percentage="0.968" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E578034" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="78822" e_stop="79520"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGGGACAGACAGAACATGGGGAGGAGATATGTGGAAGTTTTCAGCTGTAAGAAAGAAGAGTATTACCAAGCTGTAGCTGCTGAGGTGAAGGAAGGAGGTAAGGATAATGAATATCGTTCCCCTCCTCTATCTCGACCAAAGAGGTCAGTGAACAAAGATGATATGGAGTACTCTGTGATACTGAAATTGCGAGGTCTCCCATACAGTGTTAGAAAAACAGATATTGGCAGGTTTTTCGGTGAGGAATTTAATGTTAAACCTGACAAGGTACACATTGCATACCGCTCTGATGGAAAAGCTACTGGAGAGGCTTATGTGGAATTCGCCTCTACTGAAGAAGCCAAGAAAGCTATGTGCAAGGACAATATGAAGATTGGATCTAGGTATATTGAACTATTTCCTTCTCATCCAGATGAAGCTAGACGAGCCGAGTCAAGGTCACAACACTGATGCCAAATACTTTGCAATGTGAAGCATTTTTAAGCATCACATGTTTTCTATACCTGTTTCTACTGTGGATTAGTCTTGCACTTGTTAAACATTGTCTTCTCTGATTACTGTCATTACTGTATGATGATGATTATATCCCCGTAAGTATGCATTTTGAGACATTAATAGGAACAGGTTTATAGTCTCTGGTTCTCACTCTTGGCTATTTCTTTAGTTTTGGTTTTTGCTTAATTCACTTTGATTAGTGTC</genome_strand>
        <mrna_strand>AGGGACAGACAGAACATGGGGAGGAGATATGTGGAAGTTTTCAGCTGTAAGAAAGAAGAGTATTACCAAGCTGTAGCTGCTGAGGTGAAGGAAGGAGGTAAGGATAATGAATATCGTTCCCCTCCTCTATCTCGACCAAAGAGGTCAGTGAACAAAGATGATATGGAGTACTCTGTGATACTGAAATTGCGAGGTCTCCCATACAGTGTTAGAAAAACAGATATTGGCAGGTTTTTCGGTGAGGAATTTAATGTTAAACCTGACAAGGTACACATTGCATACCGCTCTGATGGAAAAGCTACTGGAGAGGCTTATGTGGAATTCGCCTCTACTGAAGAAGCCAAGAAAGCTATGTGCAAGGACAATATGAAGATTGGATCTAGGTATATTGAACTATTTCCTTCTCATCCAGATGAAGCTAGACGAGCCGAGTCAAGGTCACAACACTGATGCCAAATACTTTGCAATGTGAAGCATTTTTAAGCATCACATGTTTTCTATACCTGTTTCTACTGTGGATTAGTCTTGCACTTGTTAAACATTGTCTTCTCTGATTACTGTCATTACTGTATGATGATGATTATATCCCCGTAAGTATGCATTTTGAGACATTAATAGGAACAGGTTTATAGTCTCTGGTTCTCACTCTTGGCTATTTCTTTAGTTTTGGTTTTTGCTTAATTCACTTTGATTAGTGTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E393076" ref_strand="+" ref_description="SGN-E393076 [TUS-37-J4]">
      <seq>taaaatgtatgtatattgcataattataagtgtatggcaagaatatatatgtttttgtctcgctttatacaaaaacaaaaacacaatatatacacttctgttgtataaagttagagaaaattgtatttcactgcaattatataattcacaattgtataattcgttggcctttttctctgcaatatttgaagtaaaatgtttgtaatttgtataattaagtgtataacacgaagatatatatttttacatgtgtatatacaattttctctcgctttatacaaaataaaaacagaatttatttttttttgtgtatatagcgagatag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="83122" stop="84020"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="83422" g_stop="83746" g_length="325"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="325" r_length="325" r_score="0.923"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E393076" ref_strand="+">
        <total_alignment_score>0.923</total_alignment_score>
        <cumulative_length_of_scored_exons>325</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E393076" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="83422" e_stop="83746"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAATGTATGTATATTGCATAATTATAAGTGTATAACAAGAAGATATATGTTTTTCTCTCGCTCTATACAAAAACAGAAACACAATATATACACATCTGTTGTATAAAGCTAGAGAAAATTGTATTTCACTGCAATTATATAATTCGCAATTGTATAATTCGTTGGCCTTTTTCTCTGTAATATTTGAAGTAAAATGTTTGTAAATTGTATAATTAAGTGTGTAACACGAAGATATATATTTTTGCATGTGTTTATACAATTTTCTCTCGCTTTATATAAAACAGAAACAGAATTTATACACTTCTGTGTATAAAGTGAGAGAG</genome_strand>
        <mrna_strand>TAAAATGTATGTATATTGCATAATTATAAGTGTATGGCAAGAATATATATGTTTTTGTCTCGCTTTATACAAAAACAAAAACACAATATATACACTTCTGTTGTATAAAGTTAGAGAAAATTGTATTTCACTGCAATTATATAATTCACAATTGTATAATTCGTTGGCCTTTTTCTCTGCAATATTTGAAGTAAAATGTTTGTAATTTGTATAATTAAGTGTATAACACGAAGATATATATTTTTACATGTGTATATACAATTTTCTCTCGCTTTATACAAAATAAAAACAGAATTTATTTTTTTTTGTGTATATAGCGAGATAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E393075" ref_strand="+" ref_description="SGN-E393075 [TUS-37-J2]">
      <seq>taaaatgtatgtatattgcataattataagtgtatggcaagaatatatatgtttttgtctcgctttatacaaaaacaaaaacacaatatatacacttctgttgtataaagttagagaaaattgtatttcactgcaattatataattcacaattgtataattcgttggcctttttctctgcaatatttgaagtaaaatgtttgtaatttgtataattaagtgtataacacgaagatatatatttttacatgtgtatatacaattttctctcgctttatacaaaatagaaacagaggttttttttttttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="83122" stop="84020"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="83422" g_stop="83729" g_length="308"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="308" r_length="308" r_score="0.919"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E393075" ref_strand="+">
        <total_alignment_score>0.919</total_alignment_score>
        <cumulative_length_of_scored_exons>308</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E393075" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="83422" e_stop="83729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAATGTATGTATATTGCATAATTATAAGTGTATAACAAGAAGATATATGTTTTTCTCTCGCTCTATACAAAAACAGAAACACAATATATACACATCTGTTGTATAAAGCTAGAGAAAATTGTATTTCACTGCAATTATATAATTCGCAATTGTATAATTCGTTGGCCTTTTTCTCTGTAATATTTGAAGTAAAATGTTTGTAAATTGTATAATTAAGTGTGTAACACGAAGATATATATTTTTGCATGTGTTTATACAATTTTCTCTCGCTTTATATAAAACAGAAACAGAATTTATACACTTCTG</genome_strand>
        <mrna_strand>TAAAATGTATGTATATTGCATAATTATAAGTGTATGGCAAGAATATATATGTTTTTGTCTCGCTTTATACAAAAACAAAAACACAATATATACACTTCTGTTGTATAAAGTTAGAGAAAATTGTATTTCACTGCAATTATATAATTCACAATTGTATAATTCGTTGGCCTTTTTCTCTGCAATATTTGAAGTAAAATGTTTGTAATTTGTATAATTAAGTGTATAACACGAAGATATATATTTTTACATGTGTATATACAATTTTCTCTCGCTTTATACAAAATAGAAACAGAGGTTTTTTTTTTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E392727" ref_strand="+" ref_description="SGN-E392727 [TUS-37-J5]">
      <seq>taatatgtatgtatattgcataattataagtgtatggcaagaatatatatgtttttgtcacgctttatacaaaatttaaaacacaatatatacacttctgttgtataaagttagagaaaattgtatttcactgcaattatataattcacaatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="83122" stop="83874"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="83422" g_stop="83574" g_length="153"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="153" r_length="153" r_score="0.908"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E392727" ref_strand="+">
        <total_alignment_score>0.908</total_alignment_score>
        <cumulative_length_of_scored_exons>153</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E392727" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="83422" e_stop="83574"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAATGTATGTATATTGCATAATTATAAGTGTATAACAAGAAGATATATGTTTTTCTCTCGCTCTATACAAAAACAGAAACACAATATATACACATCTGTTGTATAAAGCTAGAGAAAATTGTATTTCACTGCAATTATATAATTCGCAATT</genome_strand>
        <mrna_strand>TAATATGTATGTATATTGCATAATTATAAGTGTATGGCAAGAATATATATGTTTTTGTCACGCTTTATACAAAATTTAAAACACAATATATACACTTCTGTTGTATAAAGTTAGAGAAAATTGTATTTCACTGCAATTATATAATTCACAATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E200845" ref_strand="+" ref_description="SGN-E200845 [cLEC-5-G3]">
      <seq>aaaatgtatgtatattgcataattataagtgtatggcaagaatatatatgtttttgtctcgctttatacaaaaacaaaaacacaatatatacacttctgttgtataaagttagagaaaattgtatttcactgcaattatataattcacaattgtataattcgttggcctttttctctgcaatatttgaagtaaaatgtttgtaatttgtataattaagtgtataacacgaagatatatatttttacatgtgtatatacaattttctctcgctttatacaaaatagaaacagaatttatacacttctgtgtatatagcgagataggcgagcgagaatggagagtggcgagcgagatttttgggagggagacgcctgacaaactttagctaacgtttgctatggagcacaattaaatcaaactctagctactccatttagttagattactag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="83123" stop="84171"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="83423" g_stop="83864" g_length="442"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="442" r_length="442" r_score="0.930"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E200845" ref_strand="+">
        <total_alignment_score>0.930</total_alignment_score>
        <cumulative_length_of_scored_exons>442</cumulative_length_of_scored_exons>
        <coverage percentage="0.982" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E200845" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="83423" e_stop="83864"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAATGTATGTATATTGCATAATTATAAGTGTATAACAAGAAGATATATGTTTTTCTCTCGCTCTATACAAAAACAGAAACACAATATATACACATCTGTTGTATAAAGCTAGAGAAAATTGTATTTCACTGCAATTATATAATTCGCAATTGTATAATTCGTTGGCCTTTTTCTCTGTAATATTTGAAGTAAAATGTTTGTAAATTGTATAATTAAGTGTGTAACACGAAGATATATATTTTTGCATGTGTTTATACAATTTTCTCTCGCTTTATATAAAACAGAAACAGAATTTATACACTTCTGTGTATAAAGTGAGAGAGGTGAGCGAGAATGGAGAGTGGGCGAGCGAGATTTTTGGGAGGAAGTCGTCTGGCAAACTTTAGCTAACGTTTGCTATGGAGTACAATTAAATCAAACCCTAGTTACTCCA-TTATTTAG</genome_strand>
        <mrna_strand>AAAATGTATGTATATTGCATAATTATAAGTGTATGGCAAGAATATATATGTTTTTGTCTCGCTTTATACAAAAACAAAAACACAATATATACACTTCTGTTGTATAAAGTTAGAGAAAATTGTATTTCACTGCAATTATATAATTCACAATTGTATAATTCGTTGGCCTTTTTCTCTGCAATATTTGAAGTAAAATGTTTGTAATTTGTATAATTAAGTGTATAACACGAAGATATATATTTTTACATGTGTATATACAATTTTCTCTCGCTTTATACAAAATAGAAACAGAATTTATACACTTCTGTGTATATAGCGAGATAGGCGAGCGAGAATGGAGAGT-GGCGAGCGAGATTTTTGGGAGGGAGACGCCTGACAAACTTTAGCTAACGTTTGCTATGGAGCACAATTAAATCAAACTCTAGCTACTCCATTTAGTTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E722343" ref_strand="+" ref_description="SGN-E722343 [FC16DH12]">
      <seq>aatcggccgaattgaatttccattcatcctctaagttcctttgaactctttacccacacaaactttttcactttagttatgttactaatattattgaagtgaaagggaaaattaaattttaagtgtagaatttttgatggggaattgttttggagctaagctttctaactctaaatctagtagtacttaccctagcttctcagctagaccatctactccagatacatcaaagagctacagcactggtgttggctactcggccacgagtggcagtattggatgtagtaatttctcagcagctgcaagtgaagatatatgtttgaacggagagatattgccaattccaaatttaaagatttatagtttttctgatttgaagttgtccacgaagaatttcaagtctgactcagttttggggattggcggttttgggaccgtgtataaaggatgggttgatgagaagacgcttgctccgactaaagctggcactggaatgattgttgccatcaagaagttgaactctgagagcactcaaggatttgaagagtggcagtcagaagtgaactttttaggaaggctttcgcatcctaaccttgttaaactactgggatattgtcatgaggacaaggaactgttactcgtttacgaatttatgcccaaggggagcttggaaaaccatctttttagaaggagtgctgctattgaaccgctttcttgggacttgcggctcaaaattgccataggagcagcacggggcttagcgttcttacatacttcagaaaagaaagttatttacag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="84847" stop="88634"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="85135" g_stop="85356" g_length="222"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="221" r_length="221" r_score="0.937"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="85357" i_stop="86716" i_length="1360">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.956" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="86717" g_stop="87048" g_length="332"/>
          <reference_exon_boundary r_type="cDNA" r_start="222" r_stop="553" r_length="332" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="87049" i_stop="88005" i_length="957">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.828" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="88006" g_stop="88141" g_length="136"/>
          <reference_exon_boundary r_type="cDNA" r_start="554" r_stop="689" r_length="136" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="88142" i_stop="88225" i_length="84">
            <donor d_prob="0.835" d_score="1.00"/>
            <acceptor a_prob="0.892" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="88226" g_stop="88334" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="690" r_stop="798" r_length="109" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E722343" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>799</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E722343" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="85135" e_stop="85356"/>
          <exon e_start="86717" e_stop="87048"/>
          <exon e_start="88006" e_stop="88141"/>
          <exon e_start="88226" e_stop="88334"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTTCTTGCTTTCAATTTCCATTCATTTTCTTTGTTCCTTTGAACTCTTTACCCACACAAACTTTTTCAATTTAGTTATGTTACTAATATTATTGAAGTGAAAGGGAAAATTAAATTTTAAGTGTAGAATTTTTGATGGGGAATTGTTTTGGAGCTAAGCTTTCTAACTCTAAATCTAGTAGTACTTACCCTAGCTTCTCAGCTAGACCATCTACTCCAGGTACTTTTTATGCACAAATTATGCATCTGTTGTTCATAGTAATATCTATTAGGTTTCAATTTGTTTGTTTTTTTGGGAAAAAAGGTCTTAAAATATTTAACTTTAATCGAAATTGCTGTTAGATATCAAATTTTATGGAAGATTTTTTACTCTGTACTGTTTAATAAGTGTATTTTAAACGTATATATGTAACCACATAGCCATCATGTATATTGTATCATTGTAAATAGTAATGTGTCCACGTGAACACATATATACCTTTAAAACACAGTATTAAATAGCGCAAGTTTGATATCAATTTCAATTAAAGTTGGAGTATTTTTCAACCTTGTTTTGTTTTTGACCTGACGCAGAGTTTAAGGAAGTTAAAAGAATTTTTTTTTTAATCTTGTGGTCTTATATATAATTGTTGGAATTACATAGTTGCTAAAAAAGAGTGCAAATATTAACTGTGTATGAATAGTGTAATTTTTCGTTCAAGGGTACATAAGGATGTTGGATGATAGAGTCACGATTTTCATTAATATAAAGAAGTAAATACATGAATGAGCAAGACTGAGAGAGATTGAACATAAGATATGATTTACCTATCTAGACACTGTAATTTTTTGGGCGAAGGGTTGATTGTGGACAGAGTTAAAAGAACAAAATTTTGGCATATAACGAAAATAGAACTTGTTGTCTTAAATATATCGTGTTTATGTGGTTATGAGAGCATGTTGTTAATGGTAAAATGAGAAGTTTAAATTTTATTAATATAGAATGGTGGTATCTTTTGTCGGAACATACTAATTACTAAGAAGGAAAGAATGTAATGCACAGAGGTAGTAACTAATTCTTGAATTTCTTGTGAACGAATATGTTGAACGTCTTAGTTCTGTTCGTGCTTAATTTCTATTCCGAGTACTTTGGAATTTCCCCTCTTTTCTTGTTTTTGTACTCCCTCTATATCATTTTATATGACGATGGCCGATGTTCAATGACGAAGTCAAGATTTTCACTAAGGAACGTCAAAATAAACACATAATGGATCCAGATGGACTCAACATATAGTGTATATGTATATACATTTTTGGCACATAACAAACTTAGAACTTGTTGTCATTCTTAAATATATATGTATCACATTTTGTATGGCTATGAGAACATGTCATTACCGGAGTTTGTAAATATAGAAAGGTAGACATTTTTTCGGGAACAGAATAAGAATGAAGAATGTAACGAACAGAACTAGTAACCAACTTTTTTCTCGTGAATGAGTTTGTTGGATGTCTTAATTCTTGTAATTATGGATTTTATGCTTAGCTGAGAGTGAGAAGATTCGAATTATAGATTTACATGGTAGTTAGTATATGTGCAGATACATCAAAGAGCTACAGCACTGGTGTTGGCTACTCGGCCACGAGTGGCAGTATTGGATGTAGTAATTTCTCAGCAGCTGCAAGTGAAGATATATGTTTGAACGGAGAGATATTGCCAATTCCAAATTTAAAGATTTATAGTTTTTCTGATTTGAAGTTGTCCACGAAGAATTTCAAGTCTGACTCAGTTTTGGGGATTGGCGGTTTTGGGACCGTGTATAAAGGATGGGTTGATGAGAAGACGCTTGCTCCGACTAAAGCTGGCACTGGAATGATTGTTGCCATCAAGAAGTTGAACTCTGAGAGCACTCAAGGATTTGAAGAGTGGCAGGTAAACAATTGAGATTTTTGATACAATGATAAAACAATTATTCTTTGGCACTAATTTCGACTCTTTTTTTTTTAGTCGAAGCAGCCAATACTTAGGCCTTTTCCCTTTTACTGAAAATGCTTTAAAATGCACAAATGTTGAGCTAACGGTTTGTAGAGTGAGTGAGTAATTGTCTTGAGTAGTTGTTGACAGAGGGCAAGACCAGGTAAGGCGAGGGGGTTCATTTGACCCTCCTTTAGTGGAAAAATTACACTAGTAGATGTTGAACCCCATTCGTCTTCTTAGTGTGTCTACTTCATTTTTTGAACCCCTTCCATGAAAATTTTGGCTCCGCCACTGGTTGTTGGTTAGGCAAGGCCATCAAAGAAACCAGGATGTCTACTATGCTTGCTTAATACAATTCAAATAACTAAGAAAATAGTAAAATGTGTATGGTCTAAGTGAATGGTTTTGTACATATATGTAATACATTATACGAATTTTCTTCTAGAATCGATACTGATTGGATTTCGGTTGCTTAATTTGCATATTGTCAAGTAGAAACTTAAATGTTGGATTTGATAGTTCACAGACTACTGATTGATCTTTTCATTTGCGCAAATTTAGCTTTCTTGGATTTGCTTACTCGAGCTGAGGGTCTATTGGCAACAACTTCTCTATCTTAGAGGCTCTTCGTGTCCAGCTTCAGAAAGAAAAAAACAACCCGTTTTACAAAATTGATTCCAATTGGATGGAGTTATTGAGATAAATTTCAAGCTAGATCATGTTTTGCTTTGTCTACTATGTTCTTTGTTGCTACCATTTTTTCCCCGAAAATTTCAGTTTGTATAGTTATGCATTCTATTTGTAGTAGGAATATTCTTCTTTTTGTTTAGCAATCTTTTGGTTTATTGTGATCTATGCTTTCAAGTTAGATTCTTTATATAGTGCTCATAATCCGTTTCGCTTAAAATGCAGTCAGAAGTGAACTTTTTAGGAAGGCTTTCGCATCCTAACCTTGTTAAACTACTGGGATATTGTCATGAGGACAAGGAACTGTTACTCGTTTACGAATTTATGCCCAAGGGGAGCTTGGAAAACCATCTTTTTAGAAGTAAGAAGTTAGTGTTAGAAATTCAATAAACCATAGCTCGATTAATTATACAGTGAGCTGACCTTCAGCGTGTTTGCTTTGTAGGGAGTGCTGCTATTGAACCGCTTTCTTGGGACTTGCGGCTCAAAATTGCCATAGGAGCAGCACGGGGCTTAGCGTTCTTACATACTTCAGAAAAGAAAGTTATTTACAG</genome_strand>
        <mrna_strand>AATCGGC-CGAATTGAATTTCCATTCATCCTCTAAGTTCCTTTGAACTCTTTACCCACACAAACTTTTTCACTTTAGTTATGTTACTAATATTATTGAAGTGAAAGGGAAAATTAAATTTTAAGTGTAGAATTTTTGATGGGGAATTGTTTTGGAGCTAAGCTTTCTAACTCTAAATCTAGTAGTACTTACCCTAGCTTCTCAGCTAGACCATCTACTCCAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATACATCAAAGAGCTACAGCACTGGTGTTGGCTACTCGGCCACGAGTGGCAGTATTGGATGTAGTAATTTCTCAGCAGCTGCAAGTGAAGATATATGTTTGAACGGAGAGATATTGCCAATTCCAAATTTAAAGATTTATAGTTTTTCTGATTTGAAGTTGTCCACGAAGAATTTCAAGTCTGACTCAGTTTTGGGGATTGGCGGTTTTGGGACCGTGTATAAAGGATGGGTTGATGAGAAGACGCTTGCTCCGACTAAAGCTGGCACTGGAATGATTGTTGCCATCAAGAAGTTGAACTCTGAGAGCACTCAAGGATTTGAAGAGTGGCAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCAGAAGTGAACTTTTTAGGAAGGCTTTCGCATCCTAACCTTGTTAAACTACTGGGATATTGTCATGAGGACAAGGAACTGTTACTCGTTTACGAATTTATGCCCAAGGGGAGCTTGGAAAACCATCTTTTTAGAA....................................................................................GGAGTGCTGCTATTGAACCGCTTTCTTGGGACTTGCGGCTCAAAATTGCCATAGGAGCAGCACGGGGCTTAGCGTTCTTACATACTTCAGAAAAGAAAGTTATTTACAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E698012" ref_strand="+" ref_description="SGN-E698012 [FA04DH12]">
      <seq>cgctttaccacacaaactttttcaatttagttatgttactaatattattgaagtgaaagggaaaattaaattttaagtgtagaatttttgatggggaattgttttggagctaagctttctaactctaaatctagtagtacttaccctagcttctcagctagaccatctactccagatacatcaaagagctacagcactggtgttggctactcggccacgagtggcagtattggatgtagtaatttctcagcagctgcaagtgaagatatatgtttgaacggagagatattgccaattccaaatttaaagatttatagtttttctgatttgaagttgtccacgaagaatttcaagtctgactcagttttggggattggcggttttgggaccgtgtataaaggatgggttgatgagaagacgcttgctccgactaaagctggcactggaatgattgttgccatcaagaagttgaactctgagagcactcaaggatttgaagagtggcagtcagaagtgaactttttaggaaggctttcgcatcctaaccttgttaaactactgggatattgtcatgaggacaaggaactgttactcgtttacgaatttatgcccaaggggagcttggaaaaccatctttttagaaggagtgctgctattgaaccgctttcttgggacttgcggctcaaaattgccataggagcagcacggggcttagcgttcttacatacttcagaaaagaaagttatttacagagacttncaagcctcaaacatactgcttgatgggaattacaatgccaaaatatcagattttggctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="84881" stop="89108"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="85181" g_stop="85356" g_length="176"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="175" r_length="175" r_score="0.989"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="85357" i_stop="86716" i_length="1360">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.956" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="86717" g_stop="87048" g_length="332"/>
          <reference_exon_boundary r_type="cDNA" r_start="176" r_stop="507" r_length="332" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="87049" i_stop="88005" i_length="957">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.828" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="88006" g_stop="88141" g_length="136"/>
          <reference_exon_boundary r_type="cDNA" r_start="508" r_stop="643" r_length="136" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="88142" i_stop="88225" i_length="84">
            <donor d_prob="0.835" d_score="1.00"/>
            <acceptor a_prob="0.892" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="88226" g_stop="88368" g_length="143"/>
          <reference_exon_boundary r_type="cDNA" r_start="644" r_stop="786" r_length="143" r_score="0.986"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="88369" i_stop="88776" i_length="408">
            <donor d_prob="0.990" d_score="0.96"/>
            <acceptor a_prob="0.971" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="88777" g_stop="88808" g_length="32"/>
          <reference_exon_boundary r_type="cDNA" r_start="787" r_stop="818" r_length="32" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E698012" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>819</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E698012" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="85181" e_stop="85356"/>
          <exon e_start="86717" e_stop="87048"/>
          <exon e_start="88006" e_stop="88141"/>
          <exon e_start="88226" e_stop="88368"/>
          <exon e_start="88777" e_stop="88808"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTTTACCCACACAAACTTTTTCAATTTAGTTATGTTACTAATATTATTGAAGTGAAAGGGAAAATTAAATTTTAAGTGTAGAATTTTTGATGGGGAATTGTTTTGGAGCTAAGCTTTCTAACTCTAAATCTAGTAGTACTTACCCTAGCTTCTCAGCTAGACCATCTACTCCAGGTACTTTTTATGCACAAATTATGCATCTGTTGTTCATAGTAATATCTATTAGGTTTCAATTTGTTTGTTTTTTTGGGAAAAAAGGTCTTAAAATATTTAACTTTAATCGAAATTGCTGTTAGATATCAAATTTTATGGAAGATTTTTTACTCTGTACTGTTTAATAAGTGTATTTTAAACGTATATATGTAACCACATAGCCATCATGTATATTGTATCATTGTAAATAGTAATGTGTCCACGTGAACACATATATACCTTTAAAACACAGTATTAAATAGCGCAAGTTTGATATCAATTTCAATTAAAGTTGGAGTATTTTTCAACCTTGTTTTGTTTTTGACCTGACGCAGAGTTTAAGGAAGTTAAAAGAATTTTTTTTTTAATCTTGTGGTCTTATATATAATTGTTGGAATTACATAGTTGCTAAAAAAGAGTGCAAATATTAACTGTGTATGAATAGTGTAATTTTTCGTTCAAGGGTACATAAGGATGTTGGATGATAGAGTCACGATTTTCATTAATATAAAGAAGTAAATACATGAATGAGCAAGACTGAGAGAGATTGAACATAAGATATGATTTACCTATCTAGACACTGTAATTTTTTGGGCGAAGGGTTGATTGTGGACAGAGTTAAAAGAACAAAATTTTGGCATATAACGAAAATAGAACTTGTTGTCTTAAATATATCGTGTTTATGTGGTTATGAGAGCATGTTGTTAATGGTAAAATGAGAAGTTTAAATTTTATTAATATAGAATGGTGGTATCTTTTGTCGGAACATACTAATTACTAAGAAGGAAAGAATGTAATGCACAGAGGTAGTAACTAATTCTTGAATTTCTTGTGAACGAATATGTTGAACGTCTTAGTTCTGTTCGTGCTTAATTTCTATTCCGAGTACTTTGGAATTTCCCCTCTTTTCTTGTTTTTGTACTCCCTCTATATCATTTTATATGACGATGGCCGATGTTCAATGACGAAGTCAAGATTTTCACTAAGGAACGTCAAAATAAACACATAATGGATCCAGATGGACTCAACATATAGTGTATATGTATATACATTTTTGGCACATAACAAACTTAGAACTTGTTGTCATTCTTAAATATATATGTATCACATTTTGTATGGCTATGAGAACATGTCATTACCGGAGTTTGTAAATATAGAAAGGTAGACATTTTTTCGGGAACAGAATAAGAATGAAGAATGTAACGAACAGAACTAGTAACCAACTTTTTTCTCGTGAATGAGTTTGTTGGATGTCTTAATTCTTGTAATTATGGATTTTATGCTTAGCTGAGAGTGAGAAGATTCGAATTATAGATTTACATGGTAGTTAGTATATGTGCAGATACATCAAAGAGCTACAGCACTGGTGTTGGCTACTCGGCCACGAGTGGCAGTATTGGATGTAGTAATTTCTCAGCAGCTGCAAGTGAAGATATATGTTTGAACGGAGAGATATTGCCAATTCCAAATTTAAAGATTTATAGTTTTTCTGATTTGAAGTTGTCCACGAAGAATTTCAAGTCTGACTCAGTTTTGGGGATTGGCGGTTTTGGGACCGTGTATAAAGGATGGGTTGATGAGAAGACGCTTGCTCCGACTAAAGCTGGCACTGGAATGATTGTTGCCATCAAGAAGTTGAACTCTGAGAGCACTCAAGGATTTGAAGAGTGGCAGGTAAACAATTGAGATTTTTGATACAATGATAAAACAATTATTCTTTGGCACTAATTTCGACTCTTTTTTTTTTAGTCGAAGCAGCCAATACTTAGGCCTTTTCCCTTTTACTGAAAATGCTTTAAAATGCACAAATGTTGAGCTAACGGTTTGTAGAGTGAGTGAGTAATTGTCTTGAGTAGTTGTTGACAGAGGGCAAGACCAGGTAAGGCGAGGGGGTTCATTTGACCCTCCTTTAGTGGAAAAATTACACTAGTAGATGTTGAACCCCATTCGTCTTCTTAGTGTGTCTACTTCATTTTTTGAACCCCTTCCATGAAAATTTTGGCTCCGCCACTGGTTGTTGGTTAGGCAAGGCCATCAAAGAAACCAGGATGTCTACTATGCTTGCTTAATACAATTCAAATAACTAAGAAAATAGTAAAATGTGTATGGTCTAAGTGAATGGTTTTGTACATATATGTAATACATTATACGAATTTTCTTCTAGAATCGATACTGATTGGATTTCGGTTGCTTAATTTGCATATTGTCAAGTAGAAACTTAAATGTTGGATTTGATAGTTCACAGACTACTGATTGATCTTTTCATTTGCGCAAATTTAGCTTTCTTGGATTTGCTTACTCGAGCTGAGGGTCTATTGGCAACAACTTCTCTATCTTAGAGGCTCTTCGTGTCCAGCTTCAGAAAGAAAAAAACAACCCGTTTTACAAAATTGATTCCAATTGGATGGAGTTATTGAGATAAATTTCAAGCTAGATCATGTTTTGCTTTGTCTACTATGTTCTTTGTTGCTACCATTTTTTCCCCGAAAATTTCAGTTTGTATAGTTATGCATTCTATTTGTAGTAGGAATATTCTTCTTTTTGTTTAGCAATCTTTTGGTTTATTGTGATCTATGCTTTCAAGTTAGATTCTTTATATAGTGCTCATAATCCGTTTCGCTTAAAATGCAGTCAGAAGTGAACTTTTTAGGAAGGCTTTCGCATCCTAACCTTGTTAAACTACTGGGATATTGTCATGAGGACAAGGAACTGTTACTCGTTTACGAATTTATGCCCAAGGGGAGCTTGGAAAACCATCTTTTTAGAAGTAAGAAGTTAGTGTTAGAAATTCAATAAACCATAGCTCGATTAATTATACAGTGAGCTGACCTTCAGCGTGTTTGCTTTGTAGGGAGTGCTGCTATTGAACCGCTTTCTTGGGACTTGCGGCTCAAAATTGCCATAGGAGCAGCACGGGGCTTAGCGTTCTTACATACTTCAGAAAAGAAAGTTATTTACAGAGACTTCAAAGCCTCAAACATACTGCTTGATGGGGTAAGATCTGCTTCCTTGTCGTTTTATTTGTTCGGCGAGTTACCTATTGTGTTACTCCTGATTTTGAACATTTACAAGTACTCATGTAGAAGGGGAGTCTTGGTGTAACTGGTAAAGTTGTTGCCATGTGTGACCGGAGGTCACGAGTTGAAGTCATGGAAACAGCCTCTTGCAGGAATGCAGGGTAAGGCTGCGTACAATAGACCGTTGTGGTCCGGCCCTTCTTCGGACCTGTGCATAACGGGAGCTTTAGTGCACCAGGCTGCCTTTTACAAGTACTTGTGTATTTCATGAATATCATCTCTGCTTCTAGTTTCATGTTTTGATAAATTTTCGTGAAATGTTTCTTTTTCATTTGTTATTTGGCCATTTATTGAAACTTCCTGCTTTGCACCTTTTGCTTTGTAGAATTACAATGCAAAAATATCAGATTTTGGCTT</genome_strand>
        <mrna_strand>CGCTTTAC-CACACAAACTTTTTCAATTTAGTTATGTTACTAATATTATTGAAGTGAAAGGGAAAATTAAATTTTAAGTGTAGAATTTTTGATGGGGAATTGTTTTGGAGCTAAGCTTTCTAACTCTAAATCTAGTAGTACTTACCCTAGCTTCTCAGCTAGACCATCTACTCCAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATACATCAAAGAGCTACAGCACTGGTGTTGGCTACTCGGCCACGAGTGGCAGTATTGGATGTAGTAATTTCTCAGCAGCTGCAAGTGAAGATATATGTTTGAACGGAGAGATATTGCCAATTCCAAATTTAAAGATTTATAGTTTTTCTGATTTGAAGTTGTCCACGAAGAATTTCAAGTCTGACTCAGTTTTGGGGATTGGCGGTTTTGGGACCGTGTATAAAGGATGGGTTGATGAGAAGACGCTTGCTCCGACTAAAGCTGGCACTGGAATGATTGTTGCCATCAAGAAGTTGAACTCTGAGAGCACTCAAGGATTTGAAGAGTGGCAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCAGAAGTGAACTTTTTAGGAAGGCTTTCGCATCCTAACCTTGTTAAACTACTGGGATATTGTCATGAGGACAAGGAACTGTTACTCGTTTACGAATTTATGCCCAAGGGGAGCTTGGAAAACCATCTTTTTAGAA....................................................................................GGAGTGCTGCTATTGAACCGCTTTCTTGGGACTTGCGGCTCAAAATTGCCATAGGAGCAGCACGGGGCTTAGCGTTCTTACATACTTCAGAAAAGAAAGTTATTTACAGAGACTTNCAAGCCTCAAACATACTGCTTGATGGG........................................................................................................................................................................................................................................................................................................................................................................................................................AATTACAATGCCAAAATATCAGATTTTGGCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E718005" ref_strand="+" ref_description="SGN-E718005 [FC03BE07]">
      <seq>actttttcaatttagttatgttactaatattattgaagtgaaagggaaaattaaattttaagtgtagaatttttgatggggaattgttttggagctaagctttctaactctaaatctagtagtacttaccctagcttctcagctagaccatctactccagatacatcaaagagctacagcactggtgttggctactcggccacgagtggcagtattggatgtagtaatttctcagcagctgcaagtgaagatatatgtttgaacggagagatattgccaattccaaatttaaagatttatagtttttctgatttgaagttgtccacgaaaaatttcaagtctgactcagttttggggattggcggttttggaaccgtgtataaaggatgggttgatgaaaagacgcttgctccgactaaagctggcactggaatgattgttgccatcaagaagttgaactctgagagcactcaaggatttgaagagtggcagtcagaagtgaactttttaggaaggctttcgcatcctaaccttgttaaactactgggatattgtcatgaggacaaggaactgttactcgtttacgaatttatgcccaaggggagcttggaaaaccatctttttaaaaggagtgctgctattgaaccgctttcttgggacttgcgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="84897" stop="88563"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="85197" g_stop="85356" g_length="160"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="160" r_length="160" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="85357" i_stop="86716" i_length="1360">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.956" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="86717" g_stop="87048" g_length="332"/>
          <reference_exon_boundary r_type="cDNA" r_start="161" r_stop="492" r_length="332" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="87049" i_stop="88005" i_length="957">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.828" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="88006" g_stop="88141" g_length="136"/>
          <reference_exon_boundary r_type="cDNA" r_start="493" r_stop="628" r_length="136" r_score="0.993"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="88142" i_stop="88225" i_length="84">
            <donor d_prob="0.835" d_score="0.98"/>
            <acceptor a_prob="0.892" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="88226" g_stop="88263" g_length="38"/>
          <reference_exon_boundary r_type="cDNA" r_start="629" r_stop="666" r_length="38" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E718005" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>666</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E718005" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="85197" e_stop="85356"/>
          <exon e_start="86717" e_stop="87048"/>
          <exon e_start="88006" e_stop="88141"/>
          <exon e_start="88226" e_stop="88263"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTTTTTCAATTTAGTTATGTTACTAATATTATTGAAGTGAAAGGGAAAATTAAATTTTAAGTGTAGAATTTTTGATGGGGAATTGTTTTGGAGCTAAGCTTTCTAACTCTAAATCTAGTAGTACTTACCCTAGCTTCTCAGCTAGACCATCTACTCCAGGTACTTTTTATGCACAAATTATGCATCTGTTGTTCATAGTAATATCTATTAGGTTTCAATTTGTTTGTTTTTTTGGGAAAAAAGGTCTTAAAATATTTAACTTTAATCGAAATTGCTGTTAGATATCAAATTTTATGGAAGATTTTTTACTCTGTACTGTTTAATAAGTGTATTTTAAACGTATATATGTAACCACATAGCCATCATGTATATTGTATCATTGTAAATAGTAATGTGTCCACGTGAACACATATATACCTTTAAAACACAGTATTAAATAGCGCAAGTTTGATATCAATTTCAATTAAAGTTGGAGTATTTTTCAACCTTGTTTTGTTTTTGACCTGACGCAGAGTTTAAGGAAGTTAAAAGAATTTTTTTTTTAATCTTGTGGTCTTATATATAATTGTTGGAATTACATAGTTGCTAAAAAAGAGTGCAAATATTAACTGTGTATGAATAGTGTAATTTTTCGTTCAAGGGTACATAAGGATGTTGGATGATAGAGTCACGATTTTCATTAATATAAAGAAGTAAATACATGAATGAGCAAGACTGAGAGAGATTGAACATAAGATATGATTTACCTATCTAGACACTGTAATTTTTTGGGCGAAGGGTTGATTGTGGACAGAGTTAAAAGAACAAAATTTTGGCATATAACGAAAATAGAACTTGTTGTCTTAAATATATCGTGTTTATGTGGTTATGAGAGCATGTTGTTAATGGTAAAATGAGAAGTTTAAATTTTATTAATATAGAATGGTGGTATCTTTTGTCGGAACATACTAATTACTAAGAAGGAAAGAATGTAATGCACAGAGGTAGTAACTAATTCTTGAATTTCTTGTGAACGAATATGTTGAACGTCTTAGTTCTGTTCGTGCTTAATTTCTATTCCGAGTACTTTGGAATTTCCCCTCTTTTCTTGTTTTTGTACTCCCTCTATATCATTTTATATGACGATGGCCGATGTTCAATGACGAAGTCAAGATTTTCACTAAGGAACGTCAAAATAAACACATAATGGATCCAGATGGACTCAACATATAGTGTATATGTATATACATTTTTGGCACATAACAAACTTAGAACTTGTTGTCATTCTTAAATATATATGTATCACATTTTGTATGGCTATGAGAACATGTCATTACCGGAGTTTGTAAATATAGAAAGGTAGACATTTTTTCGGGAACAGAATAAGAATGAAGAATGTAACGAACAGAACTAGTAACCAACTTTTTTCTCGTGAATGAGTTTGTTGGATGTCTTAATTCTTGTAATTATGGATTTTATGCTTAGCTGAGAGTGAGAAGATTCGAATTATAGATTTACATGGTAGTTAGTATATGTGCAGATACATCAAAGAGCTACAGCACTGGTGTTGGCTACTCGGCCACGAGTGGCAGTATTGGATGTAGTAATTTCTCAGCAGCTGCAAGTGAAGATATATGTTTGAACGGAGAGATATTGCCAATTCCAAATTTAAAGATTTATAGTTTTTCTGATTTGAAGTTGTCCACGAAGAATTTCAAGTCTGACTCAGTTTTGGGGATTGGCGGTTTTGGGACCGTGTATAAAGGATGGGTTGATGAGAAGACGCTTGCTCCGACTAAAGCTGGCACTGGAATGATTGTTGCCATCAAGAAGTTGAACTCTGAGAGCACTCAAGGATTTGAAGAGTGGCAGGTAAACAATTGAGATTTTTGATACAATGATAAAACAATTATTCTTTGGCACTAATTTCGACTCTTTTTTTTTTAGTCGAAGCAGCCAATACTTAGGCCTTTTCCCTTTTACTGAAAATGCTTTAAAATGCACAAATGTTGAGCTAACGGTTTGTAGAGTGAGTGAGTAATTGTCTTGAGTAGTTGTTGACAGAGGGCAAGACCAGGTAAGGCGAGGGGGTTCATTTGACCCTCCTTTAGTGGAAAAATTACACTAGTAGATGTTGAACCCCATTCGTCTTCTTAGTGTGTCTACTTCATTTTTTGAACCCCTTCCATGAAAATTTTGGCTCCGCCACTGGTTGTTGGTTAGGCAAGGCCATCAAAGAAACCAGGATGTCTACTATGCTTGCTTAATACAATTCAAATAACTAAGAAAATAGTAAAATGTGTATGGTCTAAGTGAATGGTTTTGTACATATATGTAATACATTATACGAATTTTCTTCTAGAATCGATACTGATTGGATTTCGGTTGCTTAATTTGCATATTGTCAAGTAGAAACTTAAATGTTGGATTTGATAGTTCACAGACTACTGATTGATCTTTTCATTTGCGCAAATTTAGCTTTCTTGGATTTGCTTACTCGAGCTGAGGGTCTATTGGCAACAACTTCTCTATCTTAGAGGCTCTTCGTGTCCAGCTTCAGAAAGAAAAAAACAACCCGTTTTACAAAATTGATTCCAATTGGATGGAGTTATTGAGATAAATTTCAAGCTAGATCATGTTTTGCTTTGTCTACTATGTTCTTTGTTGCTACCATTTTTTCCCCGAAAATTTCAGTTTGTATAGTTATGCATTCTATTTGTAGTAGGAATATTCTTCTTTTTGTTTAGCAATCTTTTGGTTTATTGTGATCTATGCTTTCAAGTTAGATTCTTTATATAGTGCTCATAATCCGTTTCGCTTAAAATGCAGTCAGAAGTGAACTTTTTAGGAAGGCTTTCGCATCCTAACCTTGTTAAACTACTGGGATATTGTCATGAGGACAAGGAACTGTTACTCGTTTACGAATTTATGCCCAAGGGGAGCTTGGAAAACCATCTTTTTAGAAGTAAGAAGTTAGTGTTAGAAATTCAATAAACCATAGCTCGATTAATTATACAGTGAGCTGACCTTCAGCGTGTTTGCTTTGTAGGGAGTGCTGCTATTGAACCGCTTTCTTGGGACTTGCGG</genome_strand>
        <mrna_strand>ACTTTTTCAATTTAGTTATGTTACTAATATTATTGAAGTGAAAGGGAAAATTAAATTTTAAGTGTAGAATTTTTGATGGGGAATTGTTTTGGAGCTAAGCTTTCTAACTCTAAATCTAGTAGTACTTACCCTAGCTTCTCAGCTAGACCATCTACTCCAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATACATCAAAGAGCTACAGCACTGGTGTTGGCTACTCGGCCACGAGTGGCAGTATTGGATGTAGTAATTTCTCAGCAGCTGCAAGTGAAGATATATGTTTGAACGGAGAGATATTGCCAATTCCAAATTTAAAGATTTATAGTTTTTCTGATTTGAAGTTGTCCACGAAAAATTTCAAGTCTGACTCAGTTTTGGGGATTGGCGGTTTTGGAACCGTGTATAAAGGATGGGTTGATGAAAAGACGCTTGCTCCGACTAAAGCTGGCACTGGAATGATTGTTGCCATCAAGAAGTTGAACTCTGAGAGCACTCAAGGATTTGAAGAGTGGCAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCAGAAGTGAACTTTTTAGGAAGGCTTTCGCATCCTAACCTTGTTAAACTACTGGGATATTGTCATGAGGACAAGGAACTGTTACTCGTTTACGAATTTATGCCCAAGGGGAGCTTGGAAAACCATCTTTTTAAAA....................................................................................GGAGTGCTGCTATTGAACCGCTTTCTTGGGACTTGCGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E243055" ref_strand="+" ref_description="SGN-E243055 [cLEF-1-F17]">
      <seq>ccacgagtggcagtattggatgtagtaatttctcagcagctgcaagtgaagatatatgtttgaacggagagatattgccaattccaaatttaaagatttatagtttttctgatttgaagttgtccacgaagaatttcaagtctgactcagttttggggattggcggttttgggaccgtgtataaaggatgggttgatgagaagacgcttgctccgactaaagctggcactggaatgattgttgccatcaagaagttgaactctgagagcactcaaggatttgaagagtggcagtcagaagtgaactttttaggaaggctttcgcatcctaaccttgttaaactactgggatattgtcatgaggacaaggaactgttactcgtttacgaatttatgcccaaggggagcttggaaaaccatctttttagaaggagtgctgctattgaaccgctttcttggga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="86456" stop="88556"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="86756" g_stop="87048" g_length="293"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="293" r_length="293" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="87049" i_stop="88005" i_length="957">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.828" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="88006" g_stop="88141" g_length="136"/>
          <reference_exon_boundary r_type="cDNA" r_start="294" r_stop="429" r_length="136" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="88142" i_stop="88225" i_length="84">
            <donor d_prob="0.835" d_score="1.00"/>
            <acceptor a_prob="0.892" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="88226" g_stop="88256" g_length="31"/>
          <reference_exon_boundary r_type="cDNA" r_start="430" r_stop="460" r_length="31" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E243055" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>460</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E243055" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="86756" e_stop="87048"/>
          <exon e_start="88006" e_stop="88141"/>
          <exon e_start="88226" e_stop="88256"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCACGAGTGGCAGTATTGGATGTAGTAATTTCTCAGCAGCTGCAAGTGAAGATATATGTTTGAACGGAGAGATATTGCCAATTCCAAATTTAAAGATTTATAGTTTTTCTGATTTGAAGTTGTCCACGAAGAATTTCAAGTCTGACTCAGTTTTGGGGATTGGCGGTTTTGGGACCGTGTATAAAGGATGGGTTGATGAGAAGACGCTTGCTCCGACTAAAGCTGGCACTGGAATGATTGTTGCCATCAAGAAGTTGAACTCTGAGAGCACTCAAGGATTTGAAGAGTGGCAGGTAAACAATTGAGATTTTTGATACAATGATAAAACAATTATTCTTTGGCACTAATTTCGACTCTTTTTTTTTTAGTCGAAGCAGCCAATACTTAGGCCTTTTCCCTTTTACTGAAAATGCTTTAAAATGCACAAATGTTGAGCTAACGGTTTGTAGAGTGAGTGAGTAATTGTCTTGAGTAGTTGTTGACAGAGGGCAAGACCAGGTAAGGCGAGGGGGTTCATTTGACCCTCCTTTAGTGGAAAAATTACACTAGTAGATGTTGAACCCCATTCGTCTTCTTAGTGTGTCTACTTCATTTTTTGAACCCCTTCCATGAAAATTTTGGCTCCGCCACTGGTTGTTGGTTAGGCAAGGCCATCAAAGAAACCAGGATGTCTACTATGCTTGCTTAATACAATTCAAATAACTAAGAAAATAGTAAAATGTGTATGGTCTAAGTGAATGGTTTTGTACATATATGTAATACATTATACGAATTTTCTTCTAGAATCGATACTGATTGGATTTCGGTTGCTTAATTTGCATATTGTCAAGTAGAAACTTAAATGTTGGATTTGATAGTTCACAGACTACTGATTGATCTTTTCATTTGCGCAAATTTAGCTTTCTTGGATTTGCTTACTCGAGCTGAGGGTCTATTGGCAACAACTTCTCTATCTTAGAGGCTCTTCGTGTCCAGCTTCAGAAAGAAAAAAACAACCCGTTTTACAAAATTGATTCCAATTGGATGGAGTTATTGAGATAAATTTCAAGCTAGATCATGTTTTGCTTTGTCTACTATGTTCTTTGTTGCTACCATTTTTTCCCCGAAAATTTCAGTTTGTATAGTTATGCATTCTATTTGTAGTAGGAATATTCTTCTTTTTGTTTAGCAATCTTTTGGTTTATTGTGATCTATGCTTTCAAGTTAGATTCTTTATATAGTGCTCATAATCCGTTTCGCTTAAAATGCAGTCAGAAGTGAACTTTTTAGGAAGGCTTTCGCATCCTAACCTTGTTAAACTACTGGGATATTGTCATGAGGACAAGGAACTGTTACTCGTTTACGAATTTATGCCCAAGGGGAGCTTGGAAAACCATCTTTTTAGAAGTAAGAAGTTAGTGTTAGAAATTCAATAAACCATAGCTCGATTAATTATACAGTGAGCTGACCTTCAGCGTGTTTGCTTTGTAGGGAGTGCTGCTATTGAACCGCTTTCTTGGGA</genome_strand>
        <mrna_strand>CCACGAGTGGCAGTATTGGATGTAGTAATTTCTCAGCAGCTGCAAGTGAAGATATATGTTTGAACGGAGAGATATTGCCAATTCCAAATTTAAAGATTTATAGTTTTTCTGATTTGAAGTTGTCCACGAAGAATTTCAAGTCTGACTCAGTTTTGGGGATTGGCGGTTTTGGGACCGTGTATAAAGGATGGGTTGATGAGAAGACGCTTGCTCCGACTAAAGCTGGCACTGGAATGATTGTTGCCATCAAGAAGTTGAACTCTGAGAGCACTCAAGGATTTGAAGAGTGGCAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCAGAAGTGAACTTTTTAGGAAGGCTTTCGCATCCTAACCTTGTTAAACTACTGGGATATTGTCATGAGGACAAGGAACTGTTACTCGTTTACGAATTTATGCCCAAGGGGAGCTTGGAAAACCATCTTTTTAGAA....................................................................................GGAGTGCTGCTATTGAACCGCTTTCTTGGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E248575" ref_strand="+" ref_description="SGN-E248575 [cLEF-59-P24]">
      <seq>cactcaaggatttgaagagtggcaggcataagtgaactttttaggaaggctttcgcatcctaaccttgttaaactactgggatattgtcatgaggacaaggaactgttactcgtttacgaatttatgcccaaggggagcttggaaaaccatctttttagaaggagtgctgctattgaaccgctttcttgggacttgcggctcaaaattgccataggagcagcacggggcttagcgttcttacatacttcagaaaagaaagttatttacagagacttcaaagcctcaaacatactgcttgatgggaattacaatgcaaaaata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="86724" stop="88668"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="87024" g_stop="87048" g_length="25"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="25" r_length="25" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="87049" i_stop="88005" i_length="957">
            <donor d_prob="0.999" d_score="0.00"/>
            <acceptor a_prob="0.828" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="88006" g_stop="88141" g_length="136"/>
          <reference_exon_boundary r_type="cDNA" r_start="26" r_stop="161" r_length="136" r_score="0.985"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="88142" i_stop="88225" i_length="84">
            <donor d_prob="0.835" d_score="1.00"/>
            <acceptor a_prob="0.892" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="88226" g_stop="88368" g_length="143"/>
          <reference_exon_boundary r_type="cDNA" r_start="162" r_stop="304" r_length="143" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E248575" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>304</cumulative_length_of_scored_exons>
        <coverage percentage="0.944" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E248575" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="87024" e_stop="87048"/>
          <exon e_start="88006" e_stop="88141"/>
          <exon e_start="88226" e_stop="88368"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACTCAAGGATTTGAAGAGTGGCAGGTAAACAATTGAGATTTTTGATACAATGATAAAACAATTATTCTTTGGCACTAATTTCGACTCTTTTTTTTTTAGTCGAAGCAGCCAATACTTAGGCCTTTTCCCTTTTACTGAAAATGCTTTAAAATGCACAAATGTTGAGCTAACGGTTTGTAGAGTGAGTGAGTAATTGTCTTGAGTAGTTGTTGACAGAGGGCAAGACCAGGTAAGGCGAGGGGGTTCATTTGACCCTCCTTTAGTGGAAAAATTACACTAGTAGATGTTGAACCCCATTCGTCTTCTTAGTGTGTCTACTTCATTTTTTGAACCCCTTCCATGAAAATTTTGGCTCCGCCACTGGTTGTTGGTTAGGCAAGGCCATCAAAGAAACCAGGATGTCTACTATGCTTGCTTAATACAATTCAAATAACTAAGAAAATAGTAAAATGTGTATGGTCTAAGTGAATGGTTTTGTACATATATGTAATACATTATACGAATTTTCTTCTAGAATCGATACTGATTGGATTTCGGTTGCTTAATTTGCATATTGTCAAGTAGAAACTTAAATGTTGGATTTGATAGTTCACAGACTACTGATTGATCTTTTCATTTGCGCAAATTTAGCTTTCTTGGATTTGCTTACTCGAGCTGAGGGTCTATTGGCAACAACTTCTCTATCTTAGAGGCTCTTCGTGTCCAGCTTCAGAAAGAAAAAAACAACCCGTTTTACAAAATTGATTCCAATTGGATGGAGTTATTGAGATAAATTTCAAGCTAGATCATGTTTTGCTTTGTCTACTATGTTCTTTGTTGCTACCATTTTTTCCCCGAAAATTTCAGTTTGTATAGTTATGCATTCTATTTGTAGTAGGAATATTCTTCTTTTTGTTTAGCAATCTTTTGGTTTATTGTGATCTATGCTTTCAAGTTAGATTCTTTATATAGTGCTCATAATCCGTTTCGCTTAAAATGCAGTCAGAAGTGAACTTTTTAGGAAGGCTTTCGCATCCTAACCTTGTTAAACTACTGGGATATTGTCATGAGGACAAGGAACTGTTACTCGTTTACGAATTTATGCCCAAGGGGAGCTTGGAAAACCATCTTTTTAGAAGTAAGAAGTTAGTGTTAGAAATTCAATAAACCATAGCTCGATTAATTATACAGTGAGCTGACCTTCAGCGTGTTTGCTTTGTAGGGAGTGCTGCTATTGAACCGCTTTCTTGGGACTTGCGGCTCAAAATTGCCATAGGAGCAGCACGGGGCTTAGCGTTCTTACATACTTCAGAAAAGAAAGTTATTTACAGAGACTTCAAAGCCTCAAACATACTGCTTGATGGG</genome_strand>
        <mrna_strand>CACTCAAGGATTTGAAGAGTGGCAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCATAAGTGAACTTTTTAGGAAGGCTTTCGCATCCTAACCTTGTTAAACTACTGGGATATTGTCATGAGGACAAGGAACTGTTACTCGTTTACGAATTTATGCCCAAGGGGAGCTTGGAAAACCATCTTTTTAGAA....................................................................................GGAGTGCTGCTATTGAACCGCTTTCTTGGGACTTGCGGCTCAAAATTGCCATAGGAGCAGCACGGGGCTTAGCGTTCTTACATACTTCAGAAAAGAAAGTTATTTACAGAGACTTCAAAGCCTCAAACATACTGCTTGATGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E698727" ref_strand="+" ref_description="SGN-E698727 [FA07BF08]">
      <seq>ccgtttgaggacaaggaactgttactcgtttacgaatttatgcccaaggggagcttggaaaaccatctttttagaaggagtgctgctattgaaccgctttcttgggacttgcggctcaaaattgccataggagcagcacggggcttagcgttcttacatacttcagaaaagaaagttatttacagagacttcaaagcctcaaacatactgcttgatgggaattacaatgcaaaaatatcagattttggcttagctaagttggggccttccggtagtaactcacacgtaactactcgtgtgatgggcacatatggttatgctgctccagaatatgttgaaactggtcatctatatgtaaaaagtgatgtttacggatttggagtggtcgtgcttgagttgctgactggtttacgagccctcgacaccaaaagaccaaacagacaagagaaattggtggactgggtgaaaccgatgctgtctaacaaaaggaagctgaagtccattatggatgctcggatggaaggccaatattcttcaaaagcagcaacccttgctgctcagattactctaaaatgtctagaggtagacccaaagaatcgaccttcaatgaaagaagtaatgaacgtgttggaacagatcgaagccatgaaggagaatccaaaagaatcgaaaaacaaatccgagcattcttcatctcatcgtcacagacaatctccaagaagtcgacaatcacctcgtcagacaaacggccaaggattcaggtcaggatctggaaaatgacaagaagaaatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="87771" stop="90557"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="88065" g_stop="88141" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="76" r_length="76" r_score="0.948"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="88142" i_stop="88225" i_length="84">
            <donor d_prob="0.835" d_score="1.00"/>
            <acceptor a_prob="0.892" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="88226" g_stop="88368" g_length="143"/>
          <reference_exon_boundary r_type="cDNA" r_start="77" r_stop="219" r_length="143" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="88369" i_stop="88776" i_length="408">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.971" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="88777" g_stop="88900" g_length="124"/>
          <reference_exon_boundary r_type="cDNA" r_start="220" r_stop="343" r_length="124" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="88901" i_stop="89808" i_length="908">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.955" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="89809" g_stop="90257" g_length="449"/>
          <reference_exon_boundary r_type="cDNA" r_start="344" r_stop="792" r_length="449" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E698727" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>793</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E698727" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="88065" e_stop="88141"/>
          <exon e_start="88226" e_stop="88368"/>
          <exon e_start="88777" e_stop="88900"/>
          <exon e_start="89809" e_stop="90257"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTCATGAGGACAAGGAACTGTTACTCGTTTACGAATTTATGCCCAAGGGGAGCTTGGAAAACCATCTTTTTAGAAGTAAGAAGTTAGTGTTAGAAATTCAATAAACCATAGCTCGATTAATTATACAGTGAGCTGACCTTCAGCGTGTTTGCTTTGTAGGGAGTGCTGCTATTGAACCGCTTTCTTGGGACTTGCGGCTCAAAATTGCCATAGGAGCAGCACGGGGCTTAGCGTTCTTACATACTTCAGAAAAGAAAGTTATTTACAGAGACTTCAAAGCCTCAAACATACTGCTTGATGGGGTAAGATCTGCTTCCTTGTCGTTTTATTTGTTCGGCGAGTTACCTATTGTGTTACTCCTGATTTTGAACATTTACAAGTACTCATGTAGAAGGGGAGTCTTGGTGTAACTGGTAAAGTTGTTGCCATGTGTGACCGGAGGTCACGAGTTGAAGTCATGGAAACAGCCTCTTGCAGGAATGCAGGGTAAGGCTGCGTACAATAGACCGTTGTGGTCCGGCCCTTCTTCGGACCTGTGCATAACGGGAGCTTTAGTGCACCAGGCTGCCTTTTACAAGTACTTGTGTATTTCATGAATATCATCTCTGCTTCTAGTTTCATGTTTTGATAAATTTTCGTGAAATGTTTCTTTTTCATTTGTTATTTGGCCATTTATTGAAACTTCCTGCTTTGCACCTTTTGCTTTGTAGAATTACAATGCAAAAATATCAGATTTTGGCTTAGCTAAGTTGGGGCCTTCCGGTAGTAACTCACACGTAACTACTCGTGTGATGGGCACATATGGTTATGCTGCTCCAGAATATGTTGAAACTGGTGAGCACTTTCTTGAGCCTTTATTATATGCGTCTAATCTAAAATCTCCATGTGGAGTTGTTAGAAAAAACTGCAAGCTATTTAAGCCAAAATGATTCTGAATTATGGTACTAAGTTGAACGGTTAGCTCTGGCCTTGATCGAATGTTGCTTTGGGGTGTAATCGGAGCAATGACCATAGTATGGATTAATTGGTTGATGAAGTTCCGTTTCTTGTTAGATTTGTTGTCTACTTCCAGTTCAGGACCATAAATCTATAAGATATCCCAACAACTGATTGTTCCTATATGTCAACCAATTAGCACACTAACTTCTTTGTTGTTTATTGCCTTCCGTTTTTTCTCCTTTTTTCATAAGTAATTCGTGAATAAACCCGTTGAACATATTCCAAGATCTCCCAGAAATGTTCAAATTTTACATACAACCACAACAACATACTCGGTGTAATCCCACAAGTGGGGTCTGAGGAAGGTAGTGTGTATGCAAACCTTATTGAATCGTAAATTGAACAACAATAGTTTTTTTCGAATTTGACCAATCTGCTATAATATCCACTTGCTAGTATAGATACATAAGAGTTGGGAACTAACCCCGGTAGAAACAAAAGCAAGACGCAGGAAAGCATTTGCAGTATTACTCCTTTTGTTCCGAAGCTCTTTCCTTTTTTATTCGTTCCAACAATTAAGTGGGGTCTGAGGAGAGAAGAGTGTACCCATACTTTATCTCTACCTAAGAGGTAGAAAGGTTGTTTCCGATAGACCCTCGACTCAAGAAAAAACAGTTCAAACCAGTCTAGATATAAGAAAAAGCAGACGGTAGCAGAACAGAAGAGCAGTACAACAAAATAATACGATAGATGAACCCAAGGGAGGATTTATGTTAATGAGGATTGTTTTGTTATGTCAACAGGTCATCTATATGTAAAAAGTGATGTTTACGGATTTGGAGTGGTCGTGCTTGAGTTGCTGACTGGTTTACGAGCCCTCGACACCAAAAGACCAAACAGACAAGAGAAATTGGTGGACTGGGTGAAACCGATGCTGTCTAACAAAAGGAAGCTGAAGTCCATTATGGATGCTCGGATGGAAGGCCAATATTCTTCAAAAGCAGCAACCCTTGCTGCTCAGATTACTCTAAAATGTCTAGAGGTAGACCCAAAGAATCGACCTTCAATGAAAGAAGTAATGAACGTGTTGGAACAGATCGAAGCCATGAAGGAGAATCCAAAAGAATCGAAAAGCAAATCCGAGCATTCTTCATCTCATCGTCACAGACAATCTCCAAGAAGTCGACAATCACCTCGTCAGACAAACGGCCAAGGATTCAGGTCAGGATCTGGAAAATGACAAGTAGAAATT</genome_strand>
        <mrna_strand>CCGT-TTGAGGACAAGGAACTGTTACTCGTTTACGAATTTATGCCCAAGGGGAGCTTGGAAAACCATCTTTTTAGAA....................................................................................GGAGTGCTGCTATTGAACCGCTTTCTTGGGACTTGCGGCTCAAAATTGCCATAGGAGCAGCACGGGGCTTAGCGTTCTTACATACTTCAGAAAAGAAAGTTATTTACAGAGACTTCAAAGCCTCAAACATACTGCTTGATGGG........................................................................................................................................................................................................................................................................................................................................................................................................................AATTACAATGCAAAAATATCAGATTTTGGCTTAGCTAAGTTGGGGCCTTCCGGTAGTAACTCACACGTAACTACTCGTGTGATGGGCACATATGGTTATGCTGCTCCAGAATATGTTGAAACTG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCATCTATATGTAAAAAGTGATGTTTACGGATTTGGAGTGGTCGTGCTTGAGTTGCTGACTGGTTTACGAGCCCTCGACACCAAAAGACCAAACAGACAAGAGAAATTGGTGGACTGGGTGAAACCGATGCTGTCTAACAAAAGGAAGCTGAAGTCCATTATGGATGCTCGGATGGAAGGCCAATATTCTTCAAAAGCAGCAACCCTTGCTGCTCAGATTACTCTAAAATGTCTAGAGGTAGACCCAAAGAATCGACCTTCAATGAAAGAAGTAATGAACGTGTTGGAACAGATCGAAGCCATGAAGGAGAATCCAAAAGAATCGAAAAACAAATCCGAGCATTCTTCATCTCATCGTCACAGACAATCTCCAAGAAGTCGACAATCACCTCGTCAGACAAACGGCCAAGGATTCAGGTCAGGATCTGGAAAATGACAAGAAGAAATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E396965" ref_strand="+" ref_description="SGN-E396965 [TUS-44-H15]">
      <seq>ttgtagggagtgctgctattgaaccgctttcttgggacttgcggctcaaaattgccataggagcagcacggggcttagcgttcttacatacttcagaaaagaaagttatttacagagacttcaaagcctcaaacatactgcttgatgggaattacaatgcaaaaatatcagattttggcttagctaagttggggccttccggtagtaactcacacgtaactactcgtgtgatgggcacatatggttatgctgctccagaatatgttgaaactggtcatctatatgtaaaaagtgatgtttacggatttgtatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="87920" stop="90148"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="88220" g_stop="88368" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="149" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="88369" i_stop="88776" i_length="408">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.971" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="88777" g_stop="88900" g_length="124"/>
          <reference_exon_boundary r_type="cDNA" r_start="150" r_stop="273" r_length="124" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="88901" i_stop="89808" i_length="908">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.955" a_score="0.95"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="89809" g_stop="89848" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="274" r_stop="313" r_length="40" r_score="0.950"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E396965" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>313</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E396965" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="88220" e_stop="88368"/>
          <exon e_start="88777" e_stop="88900"/>
          <exon e_start="89809" e_stop="89848"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTAGGGAGTGCTGCTATTGAACCGCTTTCTTGGGACTTGCGGCTCAAAATTGCCATAGGAGCAGCACGGGGCTTAGCGTTCTTACATACTTCAGAAAAGAAAGTTATTTACAGAGACTTCAAAGCCTCAAACATACTGCTTGATGGGGTAAGATCTGCTTCCTTGTCGTTTTATTTGTTCGGCGAGTTACCTATTGTGTTACTCCTGATTTTGAACATTTACAAGTACTCATGTAGAAGGGGAGTCTTGGTGTAACTGGTAAAGTTGTTGCCATGTGTGACCGGAGGTCACGAGTTGAAGTCATGGAAACAGCCTCTTGCAGGAATGCAGGGTAAGGCTGCGTACAATAGACCGTTGTGGTCCGGCCCTTCTTCGGACCTGTGCATAACGGGAGCTTTAGTGCACCAGGCTGCCTTTTACAAGTACTTGTGTATTTCATGAATATCATCTCTGCTTCTAGTTTCATGTTTTGATAAATTTTCGTGAAATGTTTCTTTTTCATTTGTTATTTGGCCATTTATTGAAACTTCCTGCTTTGCACCTTTTGCTTTGTAGAATTACAATGCAAAAATATCAGATTTTGGCTTAGCTAAGTTGGGGCCTTCCGGTAGTAACTCACACGTAACTACTCGTGTGATGGGCACATATGGTTATGCTGCTCCAGAATATGTTGAAACTGGTGAGCACTTTCTTGAGCCTTTATTATATGCGTCTAATCTAAAATCTCCATGTGGAGTTGTTAGAAAAAACTGCAAGCTATTTAAGCCAAAATGATTCTGAATTATGGTACTAAGTTGAACGGTTAGCTCTGGCCTTGATCGAATGTTGCTTTGGGGTGTAATCGGAGCAATGACCATAGTATGGATTAATTGGTTGATGAAGTTCCGTTTCTTGTTAGATTTGTTGTCTACTTCCAGTTCAGGACCATAAATCTATAAGATATCCCAACAACTGATTGTTCCTATATGTCAACCAATTAGCACACTAACTTCTTTGTTGTTTATTGCCTTCCGTTTTTTCTCCTTTTTTCATAAGTAATTCGTGAATAAACCCGTTGAACATATTCCAAGATCTCCCAGAAATGTTCAAATTTTACATACAACCACAACAACATACTCGGTGTAATCCCACAAGTGGGGTCTGAGGAAGGTAGTGTGTATGCAAACCTTATTGAATCGTAAATTGAACAACAATAGTTTTTTTCGAATTTGACCAATCTGCTATAATATCCACTTGCTAGTATAGATACATAAGAGTTGGGAACTAACCCCGGTAGAAACAAAAGCAAGACGCAGGAAAGCATTTGCAGTATTACTCCTTTTGTTCCGAAGCTCTTTCCTTTTTTATTCGTTCCAACAATTAAGTGGGGTCTGAGGAGAGAAGAGTGTACCCATACTTTATCTCTACCTAAGAGGTAGAAAGGTTGTTTCCGATAGACCCTCGACTCAAGAAAAAACAGTTCAAACCAGTCTAGATATAAGAAAAAGCAGACGGTAGCAGAACAGAAGAGCAGTACAACAAAATAATACGATAGATGAACCCAAGGGAGGATTTATGTTAATGAGGATTGTTTTGTTATGTCAACAGGTCATCTATATGTAAAAAGTGATGTTTACGGATTTGGAGT</genome_strand>
        <mrna_strand>TTGTAGGGAGTGCTGCTATTGAACCGCTTTCTTGGGACTTGCGGCTCAAAATTGCCATAGGAGCAGCACGGGGCTTAGCGTTCTTACATACTTCAGAAAAGAAAGTTATTTACAGAGACTTCAAAGCCTCAAACATACTGCTTGATGGG........................................................................................................................................................................................................................................................................................................................................................................................................................AATTACAATGCAAAAATATCAGATTTTGGCTTAGCTAAGTTGGGGCCTTCCGGTAGTAACTCACACGTAACTACTCGTGTGATGGGCACATATGGTTATGCTGCTCCAGAATATGTTGAAACTG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCATCTATATGTAAAAAGTGATGTTTACGGATTTGTATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E279686" ref_strand="+" ref_description="SGN-E279686 [cLER-5-D1]">
      <seq>tgtagggagtgctgctattgaaccgctttcttgggacttgcggctcaaaattgccataggagcagcacggggcttagcgttcttacatacttcagaaaagaaagttatttacagagacttcaaagcctcaaacatactgcttgatgggaattacaatgcaaaaatatcagattttggcttagctaagttggggccttccggtagtaactcacacgtaactactcgtgtgatgggcacatatggttatgctgctccagaatatgttgaaactggtcatctatatgtaaaaagtgatgtttacggatttggagtggtcgtgcttgagttgctgactggtttacgagccctcgacaccaaaagaccaaacagacaagagaaattggtggactgggtgaaaccgatgctgtctaacaaaaggaagctgaagtccattatggatgctcggatggaaggccaatattcttcaaaagcagcaacccttgctgctcagattactctaaaatgtctagaggtagacccaaagaatcgaccttcaatgaaagaagtaatgaacgtgttggaacagatcga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="87921" stop="90406"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="88221" g_stop="88368" g_length="148"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="148" r_length="148" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="88369" i_stop="88776" i_length="408">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.971" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="88777" g_stop="88900" g_length="124"/>
          <reference_exon_boundary r_type="cDNA" r_start="149" r_stop="272" r_length="124" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="88901" i_stop="89808" i_length="908">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.955" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="89809" g_stop="90106" g_length="298"/>
          <reference_exon_boundary r_type="cDNA" r_start="273" r_stop="570" r_length="298" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E279686" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>570</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E279686" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="88221" e_stop="88368"/>
          <exon e_start="88777" e_stop="88900"/>
          <exon e_start="89809" e_stop="90106"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTAGGGAGTGCTGCTATTGAACCGCTTTCTTGGGACTTGCGGCTCAAAATTGCCATAGGAGCAGCACGGGGCTTAGCGTTCTTACATACTTCAGAAAAGAAAGTTATTTACAGAGACTTCAAAGCCTCAAACATACTGCTTGATGGGGTAAGATCTGCTTCCTTGTCGTTTTATTTGTTCGGCGAGTTACCTATTGTGTTACTCCTGATTTTGAACATTTACAAGTACTCATGTAGAAGGGGAGTCTTGGTGTAACTGGTAAAGTTGTTGCCATGTGTGACCGGAGGTCACGAGTTGAAGTCATGGAAACAGCCTCTTGCAGGAATGCAGGGTAAGGCTGCGTACAATAGACCGTTGTGGTCCGGCCCTTCTTCGGACCTGTGCATAACGGGAGCTTTAGTGCACCAGGCTGCCTTTTACAAGTACTTGTGTATTTCATGAATATCATCTCTGCTTCTAGTTTCATGTTTTGATAAATTTTCGTGAAATGTTTCTTTTTCATTTGTTATTTGGCCATTTATTGAAACTTCCTGCTTTGCACCTTTTGCTTTGTAGAATTACAATGCAAAAATATCAGATTTTGGCTTAGCTAAGTTGGGGCCTTCCGGTAGTAACTCACACGTAACTACTCGTGTGATGGGCACATATGGTTATGCTGCTCCAGAATATGTTGAAACTGGTGAGCACTTTCTTGAGCCTTTATTATATGCGTCTAATCTAAAATCTCCATGTGGAGTTGTTAGAAAAAACTGCAAGCTATTTAAGCCAAAATGATTCTGAATTATGGTACTAAGTTGAACGGTTAGCTCTGGCCTTGATCGAATGTTGCTTTGGGGTGTAATCGGAGCAATGACCATAGTATGGATTAATTGGTTGATGAAGTTCCGTTTCTTGTTAGATTTGTTGTCTACTTCCAGTTCAGGACCATAAATCTATAAGATATCCCAACAACTGATTGTTCCTATATGTCAACCAATTAGCACACTAACTTCTTTGTTGTTTATTGCCTTCCGTTTTTTCTCCTTTTTTCATAAGTAATTCGTGAATAAACCCGTTGAACATATTCCAAGATCTCCCAGAAATGTTCAAATTTTACATACAACCACAACAACATACTCGGTGTAATCCCACAAGTGGGGTCTGAGGAAGGTAGTGTGTATGCAAACCTTATTGAATCGTAAATTGAACAACAATAGTTTTTTTCGAATTTGACCAATCTGCTATAATATCCACTTGCTAGTATAGATACATAAGAGTTGGGAACTAACCCCGGTAGAAACAAAAGCAAGACGCAGGAAAGCATTTGCAGTATTACTCCTTTTGTTCCGAAGCTCTTTCCTTTTTTATTCGTTCCAACAATTAAGTGGGGTCTGAGGAGAGAAGAGTGTACCCATACTTTATCTCTACCTAAGAGGTAGAAAGGTTGTTTCCGATAGACCCTCGACTCAAGAAAAAACAGTTCAAACCAGTCTAGATATAAGAAAAAGCAGACGGTAGCAGAACAGAAGAGCAGTACAACAAAATAATACGATAGATGAACCCAAGGGAGGATTTATGTTAATGAGGATTGTTTTGTTATGTCAACAGGTCATCTATATGTAAAAAGTGATGTTTACGGATTTGGAGTGGTCGTGCTTGAGTTGCTGACTGGTTTACGAGCCCTCGACACCAAAAGACCAAACAGACAAGAGAAATTGGTGGACTGGGTGAAACCGATGCTGTCTAACAAAAGGAAGCTGAAGTCCATTATGGATGCTCGGATGGAAGGCCAATATTCTTCAAAAGCAGCAACCCTTGCTGCTCAGATTACTCTAAAATGTCTAGAGGTAGACCCAAAGAATCGACCTTCAATGAAAGAAGTAATGAACGTGTTGGAACAGATCGA</genome_strand>
        <mrna_strand>TGTAGGGAGTGCTGCTATTGAACCGCTTTCTTGGGACTTGCGGCTCAAAATTGCCATAGGAGCAGCACGGGGCTTAGCGTTCTTACATACTTCAGAAAAGAAAGTTATTTACAGAGACTTCAAAGCCTCAAACATACTGCTTGATGGG........................................................................................................................................................................................................................................................................................................................................................................................................................AATTACAATGCAAAAATATCAGATTTTGGCTTAGCTAAGTTGGGGCCTTCCGGTAGTAACTCACACGTAACTACTCGTGTGATGGGCACATATGGTTATGCTGCTCCAGAATATGTTGAAACTG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCATCTATATGTAAAAAGTGATGTTTACGGATTTGGAGTGGTCGTGCTTGAGTTGCTGACTGGTTTACGAGCCCTCGACACCAAAAGACCAAACAGACAAGAGAAATTGGTGGACTGGGTGAAACCGATGCTGTCTAACAAAAGGAAGCTGAAGTCCATTATGGATGCTCGGATGGAAGGCCAATATTCTTCAAAAGCAGCAACCCTTGCTGCTCAGATTACTCTAAAATGTCTAGAGGTAGACCCAAAGAATCGACCTTCAATGAAAGAAGTAATGAACGTGTTGGAACAGATCGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E396964" ref_strand="+" ref_description="SGN-E396964 [TUS-44-H15](-)">
      <seq>cgaagccatgaaggagaatccaaaagaatcgaaaagcaaatccgagcattcttcatctcatcgtcacagacaatctccaagaagtcgacaatcacctcgtcagacaaacggccaaggattcaggtcaggatctggaaaatgacaagtagaaattggccttttatagctatgtgtgtataaatttcattcttttctcatttagtacaagatcaagttaatattgttcatcataattttttcatctacaattttgtattgtatgtcacttctgtgaagggcatggcaccactgttattgtaatttatcaaaggtatccatacactcaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="+" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="89804" stop="90728"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="90104" g_stop="90437" g_length="334"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="334" r_length="334" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="+" ref_id="SGN-E396964" ref_strand="+">
        <total_alignment_score>0.970</total_alignment_score>
        <cumulative_length_of_scored_exons>334</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E396964" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="90104" e_stop="90437"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGAAGCCATGAAGGAGAATCCAAAAGAATCGAAAAGCAAATCCGAGCATTCTTCATCTCATCGTCACAGACAATCTCCAAGAAGTCGACAATCACCTCGTCAGACAAACGGCCAAGGATTCAGGTCAGGATCTGGAAAATGACAAGTAGAAATTGGCCTTTTATAGCTATGTGTGTATAAATTTCATTCTTTTCTCATTTAGTACAAGATCAAGTTAATATTGTTCATCATAATTTTTTCATCTACAATTTTGTATTGTATGTCACTTCTGTGTATTGCATGGCACCACTGTTATTGTAATTTATCAAAGGTATCCATACACTCATTTAGCTAC</genome_strand>
        <mrna_strand>CGAAGCCATGAAGGAGAATCCAAAAGAATCGAAAAGCAAATCCGAGCATTCTTCATCTCATCGTCACAGACAATCTCCAAGAAGTCGACAATCACCTCGTCAGACAAACGGCCAAGGATTCAGGTCAGGATCTGGAAAATGACAAGTAGAAATTGGCCTTTTATAGCTATGTGTGTATAAATTTCATTCTTTTCTCATTTAGTACAAGATCAAGTTAATATTGTTCATCATAATTTTTTCATCTACAATTTTGTATTGTATGTCACTTCTGTGAAGGGCATGGCACCACTGTTATTGTAATTTATCAAAGGTATCCATACACTCAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E225343" ref_strand="+" ref_description="SGN-E225343 [cLEL-17-C1](-)">
      <seq>atgtgcccccataggaattatatgctactcagctaacgcagttacaagacagtgggttactttgaccctcaagtaaatatacgggcactgactgcctccggtggcaatgttcatgctgctgtagagcgacttcttggaaatcttgagcgatagtgtaagtcttctcttctataagacaacactactgatggggtctgatgaaattgattgattttggacacaaggagcgtcagagtcaaatcttgtttggaatcaatattaaagatttcaatttttgagctaacgtctcgtcttttgtccccccctattctgttttcacttggactaaagtaaactgatggaagatctagttgttgagttgtctgtacatacaatgttaaaagcggttacattatatgggccgcaagagattttctggacgttaagttaattttcagttatatatcacaactcactgaagttattattcaataaaaaaaagaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="91670" stop="90601"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="91466" g_stop="91464" g_length="3"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="3" r_length="3" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="91463" i_stop="91370" i_length="94">
            <donor d_prob="0.988" d_score="0.00"/>
            <acceptor a_prob="0.993" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="91369" g_stop="90901" g_length="469"/>
          <reference_exon_boundary r_type="cDNA" r_start="4" r_stop="473" r_length="470" r_score="0.966"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="90900" i_stop="90821" i_length="80">
            <donor d_prob="0.000" d_score="0.98"/>
            <acceptor a_prob="0.898" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="90820" g_stop="90806" g_length="15"/>
          <reference_exon_boundary r_type="cDNA" r_start="474" r_stop="488" r_length="15" r_score="0.533"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E225343" ref_strand="+">
        <total_alignment_score>0.966</total_alignment_score>
        <cumulative_length_of_scored_exons>487</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E225343" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="91466" e_stop="91464"/>
          <exon e_start="91369" e_stop="90901"/>
          <exon e_start="90820" e_stop="90806"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGTTACTTTTATCTCTTGCTTTCCTTCTTCCGTTTTTCTCTCTCTTTCCCTCTGACTCAACGATTTTTCAACTTTACTCTTGATGTCTGTTGCAGTGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGA-AATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTCAAAAGCTTGCATAATGTGTTTCAGTGTTTGTATGAATGTTTGTTCAATTATTTAGTTGAAGAGTCTTTAATTGTCTTTATCTAGTTGAAATGAAATGTA</genome_strand>
        <mrna_strand>ATG..............................................................................................TGCCCCCATAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGACAGTGGGTTACTTTGACCCTCAAGTAAATATACGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGAGCGATAGTGTAAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGAGTCAAATCTTGTTTGGAATCAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTCAATA................................................................................AAAAAAAGAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E732992" ref_strand="+" ref_description="SGN-E732992 [LB03CG05]">
      <seq>ccattccaacagccgggccaaaatgctggtggagcagcacttgacaactcgggaatggaaatgcttatgaacatgtttggtggacttgggaccgggggcttgggtgtccctaacagatctaatgtgcccccagaggaattatatgctactcagctaacgcagttacaagaaatgggtttctttgacactcaagaaaatatccgggcactgactgcctccggtggcaatgttcatgctgctgtagagcgacttcttggaaatcttggacaatagtgttagtcttctcttctataagacaacactactgatggggtctgatgaaattgattgattttggacacaaggagcgtcagcgtcaaatcttgtttgaaataaatattaaagatttcaatttttgagctaacgtctcgtcttttgtccccccctattctgttttcacttggactaaagtaaactgatggaagatctagttgttgagttgtctgtacatacaatgttaaaagcggttacattatatgggccgcaagagattttctggacgttaagttaattttcagttatatatcacaactcactgaagttattattaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="92406" stop="90601"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="92333" g_stop="92326" g_length="8"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="8" r_length="8" r_score="0.625"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="92325" i_stop="92097" i_length="229">
            <donor d_prob="0.974" d_score="0.00"/>
            <acceptor a_prob="0.993" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="92096" g_stop="92068" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="9" r_stop="37" r_length="29" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="92067" i_stop="91551" i_length="517">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="91550" g_stop="91464" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="38" r_stop="124" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="91463" i_stop="91370" i_length="94">
            <donor d_prob="0.988" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="91369" g_stop="90888" g_length="482"/>
          <reference_exon_boundary r_type="cDNA" r_start="125" r_stop="606" r_length="482" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E732992" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>606</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E732992" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="92333" e_stop="92326"/>
          <exon e_start="92096" e_stop="92068"/>
          <exon e_start="91550" e_stop="91464"/>
          <exon e_start="91369" e_stop="90888"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAAACCAGTAAGCTGGTTCTTAGTTTCTTGGATGGCAAAATGGTTCATGATTTATGTTATACGGGTTGCTTATTTTACTTGAATTATCAAACTCTTGCCTTTTTCACAAATAAGTTTGCCGGTGAAAAGAATTTTCCTCTCATATTTTCATTTTTACTTGCCAAAAGATGGAGAAATCCTATCTAGTTGAGATGAACTTGTTACTGTGTTGACAAAGTTTCTTTTACTACTTGCAGACAGCCGGGCCAAAATGCTGGTGGAGCAGGTAAACTTCCTATTCTTTAAACTTTGATATTCTTTATCACCTTGATCAAGTCATTCTGAATTAGTCAGCATGATAGCTGGTATTATTGTGTTAATAATGTTGTCTTGGGGAATATAATTTTTCTGGAACATTTTTGTTTTCAAAGTTTGCTCTGATCTTGGCACAATAGGGTCCTCTGAGAAACCCACACCTTCAACTTCCAAATTCTCCTGAACATTATTCCTAGTGTAAATAGACACTTAATTTGTCAAGTTCTTATCTACGATGCGGAGACATTATGTAATATTAGTTTATATGGCTTATGGAGTTTGGGTTTCAAACTGAATTCTTGACTGTGAAACCTTTATCAGGTTGTTAAAGAGATGGCTATTGATTGTCACTGATACAATCGATACAGGGAACTACTGAATCTAATAATTATATGAAATTCAGGGTTGAAGGGCAAAGTAATGCAATTTCTGTTTATGAAATTATGTTTTAGCTAACTCACATCATGGGGTCGTTTGAATAATTGCAGCACTTGACAACTCGGGAATGGAAATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCTAACAGATCTAATGGTTACTTTTATCTCTTGCTTTCCTTCTTCCGTTTTTCTCTCTCTTTCCCTCTGACTCAACGATTTTTCAACTTTACTCTTGATGTCTGTTGCAGTGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTCAAAAGCTTGCATAATGT</genome_strand>
        <mrna_strand>CCATTCCA.....................................................................................................................................................................................................................................ACAGCCGGGCCAAAATGCTGGTGGAGCAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CACTTGACAACTCGGGAATGGAAATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCTAACAGATCTAATG..............................................................................................TGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTAAAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E303167" ref_strand="+" ref_description="SGN-E303167 [cLEX-5-B24]">
      <seq>gtgtccctaacagatctaatgtgcccccagaggaattatatgctactcagctaacgcagttacaagaaatgggtttctttgacactcaagaaaatatccgggcactgactgcctccggtggcaatgttcatgctgctgtagagcgacttcttggaaatcttggacaatagtgttagtcttctcttctataagacaacactactgatggggtctgatgaaattgattgattttggacacaaggagcgtcagcgtcaaatcttgtttgaaataaatattaaagatttcaatttttgagctaacgtctcgtcttttgtcccccccctattctgttttcacttggactaaagtaaactgatggaagatctagttgttgagttgtctgtacatacaatgttaaaagcggttacattatatgggccgcaagagattttctggacgttaagttaattttcagttatatatcacaactcactgaagttattattcaaaanaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="91784" stop="90601"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="91484" g_stop="91464" g_length="21"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="21" r_length="21" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="91463" i_stop="91370" i_length="94">
            <donor d_prob="0.988" d_score="0.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="91369" g_stop="90888" g_length="482"/>
          <reference_exon_boundary r_type="cDNA" r_start="22" r_stop="504" r_length="483" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E303167" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>503</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E303167" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="91484" e_stop="91464"/>
          <exon e_start="91369" e_stop="90888"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGTCCCTAACAGATCTAATGGTTACTTTTATCTCTTGCTTTCCTTCTTCCGTTTTTCTCTCTCTTTCCCTCTGACTCAACGATTTTTCAACTTTACTCTTGATGTCTGTTGCAGTGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGT-CCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTCAAAAGCTTGCATAATGT</genome_strand>
        <mrna_strand>GTGTCCCTAACAGATCTAATG..............................................................................................TGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTCAAAANAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E733299" ref_strand="+" ref_description="SGN-E733299 [LB04CA07]">
      <seq>aatatcctgaatttattcgtcaattgacatcgcctgagacagtgcagcaacttatgactttccagcaaggacttgcatctcaacttgggcgtcagcaaacaaaccaacagccgggccaaaatgctggtggagcagcacttgacaactcgggaatggaaatgcttatgaacatgtttggtggacttgggaccgggggcttgggtgtccctaacagatctaatgtgcccccagaggaattatatgctactcagctaacgcagttacaagaaatgggtttctttgacactcaagaaaatatccgggcactgactgcctccggtggcaatgttcatgctgctgtagagcgacttcttggaaatcttggacaatagtgttagtcttctcttctataagacaacactactgatggggtctgatgaaattgattgattttggacacaaggagcgtcagcgtcaaatcttgtttgaaataaatattaaagatttcaatttttgagctaacgtctcgtcttttgtccccccctattctgttttcacttggactaaagtaaactgatggaagatctagttgttgagttgtctgtacatacaatgttaaaagcggttacattatatgggccgcaagagattttctggacgttaagttaattttcagttatatatcacaactcactgaagttattattcaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="93294" stop="90601"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="92994" g_stop="92948" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="47" r_length="47" r_score="0.979"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="92947" i_stop="92385" i_length="563">
            <donor d_prob="0.976" d_score="0.98"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="92384" g_stop="92326" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="48" r_stop="106" r_length="59" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="92325" i_stop="92097" i_length="229">
            <donor d_prob="0.974" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="92096" g_stop="92068" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="107" r_stop="135" r_length="29" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="92067" i_stop="91551" i_length="517">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="91550" g_stop="91464" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="136" r_stop="222" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="91463" i_stop="91370" i_length="94">
            <donor d_prob="0.988" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="91369" g_stop="90889" g_length="481"/>
          <reference_exon_boundary r_type="cDNA" r_start="223" r_stop="703" r_length="481" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E733299" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>703</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733299" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="92994" e_stop="92948"/>
          <exon e_start="92384" e_stop="92326"/>
          <exon e_start="92096" e_stop="92068"/>
          <exon e_start="91550" e_stop="91464"/>
          <exon e_start="91369" e_stop="90889"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAATCCTGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAGGTAAAGAATACTTGCCACACTTAGAAGGTCTTGCTTGCTTAAAATATGCATCTGGTGCATGAGATATAGCAACTAAATGGCATGGGTGATCTCATTCAGTTTTGCTTGGTAACAGTACAACTTTTGTGACTTTTTATCATTAATAACACTTGAGAGGAGTGCATCCACTTGCAAGATAAACCTAATAGGGAGTATGAAATGACCCAAAGAGACCGTAAACCAAATACAAGTGAACAGCGGATGCCGACACAGTACTAAGAAAAAAACAGATTCTCGTCTACTCTTTTTCATTGCTATATTTCACAATGACATTACACCAATATGTGAATCCGTAGTTCTGGGGTAGTTGGTCCTGATAACTACACTTGGAACTCCGAAGAAAAAGAAAAAAGGAAGTGGGAGGGGGGTTAAACTGCTATTGTTGGAATGTTTGGTAAGAGAAATGGCTTTATGTGGGATGCAAAAAGAGGTTAATGTTTGTATGAGACTGAGATTTTGTTATAGTGTTCCTTTATAATCCATCTGCCTTCTTGTGACTTGTACATCTTTTTCTTTCTTTTTAGCAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCAGTAAGCTGGTTCTTAGTTTCTTGGATGGCAAAATGGTTCATGATTTATGTTATACGGGTTGCTTATTTTACTTGAATTATCAAACTCTTGCCTTTTTCACAAATAAGTTTGCCGGTGAAAAGAATTTTCCTCTCATATTTTCATTTTTACTTGCCAAAAGATGGAGAAATCCTATCTAGTTGAGATGAACTTGTTACTGTGTTGACAAAGTTTCTTTTACTACTTGCAGACAGCCGGGCCAAAATGCTGGTGGAGCAGGTAAACTTCCTATTCTTTAAACTTTGATATTCTTTATCACCTTGATCAAGTCATTCTGAATTAGTCAGCATGATAGCTGGTATTATTGTGTTAATAATGTTGTCTTGGGGAATATAATTTTTCTGGAACATTTTTGTTTTCAAAGTTTGCTCTGATCTTGGCACAATAGGGTCCTCTGAGAAACCCACACCTTCAACTTCCAAATTCTCCTGAACATTATTCCTAGTGTAAATAGACACTTAATTTGTCAAGTTCTTATCTACGATGCGGAGACATTATGTAATATTAGTTTATATGGCTTATGGAGTTTGGGTTTCAAACTGAATTCTTGACTGTGAAACCTTTATCAGGTTGTTAAAGAGATGGCTATTGATTGTCACTGATACAATCGATACAGGGAACTACTGAATCTAATAATTATATGAAATTCAGGGTTGAAGGGCAAAGTAATGCAATTTCTGTTTATGAAATTATGTTTTAGCTAACTCACATCATGGGGTCGTTTGAATAATTGCAGCACTTGACAACTCGGGAATGGAAATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCTAACAGATCTAATGGTTACTTTTATCTCTTGCTTTCCTTCTTCCGTTTTTCTCTCTCTTTCCCTCTGACTCAACGATTTTTCAACTTTACTCTTGATGTCTGTTGCAGTGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTCAAAAGCTTGCATAATG</genome_strand>
        <mrna_strand>AATATCCTGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCA.....................................................................................................................................................................................................................................ACAGCCGGGCCAAAATGCTGGTGGAGCAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CACTTGACAACTCGGGAATGGAAATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCTAACAGATCTAATG..............................................................................................TGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTCAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E374276" ref_strand="+" ref_description="SGN-E374276 [TUS-33-F10]">
      <seq>tgaatttattcgtcaattgacatcgcctgagacagtgcagcaacttatgactttccagcaaggacttgcatctcaacttgggcgtcagcaaacaaaccaacagccgggccaaaatgctggtggagcagcacttgacaactcgggaatggaaatgcttatgaacatgtttggtggacttgggaccgggggcttgggtgtccctaacagatctaatgtgcccccagaggaattatatgctactcagctaacgcagttacaagaaatgggtttctttgacactcaagaaaatatccgggcactgactgcctccggtggcaatgttcatgctgctgtagagcgacttcttggaaatcttggacaatagtgttagtcttctcttctataagacaacactactgatggggtctgatgaaattgattgattttggacacaaggagcgtcagcgtcaaatcttgtttgaaataaatattaaagatttcaatttttgagctaacgtctcgtcttttgtccccccctattctgttttcacttggactaaagtaaactgatggaagatctagttgttgagttgtctgtacatacaatgttaaaagcggttacattatatgggccgcaagagattttctggacgttaagttaattttcagttatatatcacaactcactgaagttattattcaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="93287" stop="90601"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="92987" g_stop="92948" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="40" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="92947" i_stop="92385" i_length="563">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="92384" g_stop="92326" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="41" r_stop="99" r_length="59" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="92325" i_stop="92097" i_length="229">
            <donor d_prob="0.974" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="92096" g_stop="92068" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="100" r_stop="128" r_length="29" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="92067" i_stop="91551" i_length="517">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="91550" g_stop="91464" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="129" r_stop="215" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="91463" i_stop="91370" i_length="94">
            <donor d_prob="0.988" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="91369" g_stop="90891" g_length="479"/>
          <reference_exon_boundary r_type="cDNA" r_start="216" r_stop="694" r_length="479" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E374276" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>694</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E374276" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="92987" e_stop="92948"/>
          <exon e_start="92384" e_stop="92326"/>
          <exon e_start="92096" e_stop="92068"/>
          <exon e_start="91550" e_stop="91464"/>
          <exon e_start="91369" e_stop="90891"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAGGTAAAGAATACTTGCCACACTTAGAAGGTCTTGCTTGCTTAAAATATGCATCTGGTGCATGAGATATAGCAACTAAATGGCATGGGTGATCTCATTCAGTTTTGCTTGGTAACAGTACAACTTTTGTGACTTTTTATCATTAATAACACTTGAGAGGAGTGCATCCACTTGCAAGATAAACCTAATAGGGAGTATGAAATGACCCAAAGAGACCGTAAACCAAATACAAGTGAACAGCGGATGCCGACACAGTACTAAGAAAAAAACAGATTCTCGTCTACTCTTTTTCATTGCTATATTTCACAATGACATTACACCAATATGTGAATCCGTAGTTCTGGGGTAGTTGGTCCTGATAACTACACTTGGAACTCCGAAGAAAAAGAAAAAAGGAAGTGGGAGGGGGGTTAAACTGCTATTGTTGGAATGTTTGGTAAGAGAAATGGCTTTATGTGGGATGCAAAAAGAGGTTAATGTTTGTATGAGACTGAGATTTTGTTATAGTGTTCCTTTATAATCCATCTGCCTTCTTGTGACTTGTACATCTTTTTCTTTCTTTTTAGCAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCAGTAAGCTGGTTCTTAGTTTCTTGGATGGCAAAATGGTTCATGATTTATGTTATACGGGTTGCTTATTTTACTTGAATTATCAAACTCTTGCCTTTTTCACAAATAAGTTTGCCGGTGAAAAGAATTTTCCTCTCATATTTTCATTTTTACTTGCCAAAAGATGGAGAAATCCTATCTAGTTGAGATGAACTTGTTACTGTGTTGACAAAGTTTCTTTTACTACTTGCAGACAGCCGGGCCAAAATGCTGGTGGAGCAGGTAAACTTCCTATTCTTTAAACTTTGATATTCTTTATCACCTTGATCAAGTCATTCTGAATTAGTCAGCATGATAGCTGGTATTATTGTGTTAATAATGTTGTCTTGGGGAATATAATTTTTCTGGAACATTTTTGTTTTCAAAGTTTGCTCTGATCTTGGCACAATAGGGTCCTCTGAGAAACCCACACCTTCAACTTCCAAATTCTCCTGAACATTATTCCTAGTGTAAATAGACACTTAATTTGTCAAGTTCTTATCTACGATGCGGAGACATTATGTAATATTAGTTTATATGGCTTATGGAGTTTGGGTTTCAAACTGAATTCTTGACTGTGAAACCTTTATCAGGTTGTTAAAGAGATGGCTATTGATTGTCACTGATACAATCGATACAGGGAACTACTGAATCTAATAATTATATGAAATTCAGGGTTGAAGGGCAAAGTAATGCAATTTCTGTTTATGAAATTATGTTTTAGCTAACTCACATCATGGGGTCGTTTGAATAATTGCAGCACTTGACAACTCGGGAATGGAAATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCTAACAGATCTAATGGTTACTTTTATCTCTTGCTTTCCTTCTTCCGTTTTTCTCTCTCTTTCCCTCTGACTCAACGATTTTTCAACTTTACTCTTGATGTCTGTTGCAGTGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTCAAAAGCTTGCATAA</genome_strand>
        <mrna_strand>TGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCA.....................................................................................................................................................................................................................................ACAGCCGGGCCAAAATGCTGGTGGAGCAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CACTTGACAACTCGGGAATGGAAATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCTAACAGATCTAATG..............................................................................................TGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTCAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E374275" ref_strand="+" ref_description="SGN-E374275 [TUS-33-F10](-)">
      <seq>ctgaatttatttgtcaattgacatcgcctgagacagtgcagcaacttatgactttccagcaaggacttgcatctcaacttgggcgtcagcaaacaaaccaacagccgggccaaaatgctggtggagcagcacttgacaactcgggaatggaaatgcttatgaacatgtttggtggacttgggaccgggggcttgggtgtccctaacagatctaatgtgcccccagaggaattatatgctactcagctaacgcagttacaagaaatgggtttctttgacactcaagaaaatatccgggcactgactgcctccggtggcaatgttcatgctgctgtagagcgacttcttggaaatcttggacaatagtgttagtcttctcttctataagacaacactactgatggggtctgatgaaattgattgattttggacacaaggagcgtcagcgtcaaatcttgtttgaaataaatattaaagatttcaatttttgagctaacgtctcgtcttttgtccccccctattctgttttcacttggactaaagtaaactgatggaagatctagttgttgagttgtctgtacatacaatgttaaaagcggttacattatatgggccgcaagagattttctggacgttaagttaattttcagttatatatcacaactcactgaagttattattcaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="93288" stop="90601"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="92988" g_stop="92948" g_length="41"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="41" r_length="41" r_score="0.976"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="92947" i_stop="92385" i_length="563">
            <donor d_prob="0.976" d_score="0.98"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="92384" g_stop="92326" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="100" r_length="59" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="92325" i_stop="92097" i_length="229">
            <donor d_prob="0.974" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="92096" g_stop="92068" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="101" r_stop="129" r_length="29" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="92067" i_stop="91551" i_length="517">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="91550" g_stop="91464" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="130" r_stop="216" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="91463" i_stop="91370" i_length="94">
            <donor d_prob="0.988" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="91369" g_stop="90895" g_length="475"/>
          <reference_exon_boundary r_type="cDNA" r_start="217" r_stop="691" r_length="475" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E374275" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>691</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E374275" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="92988" e_stop="92948"/>
          <exon e_start="92384" e_stop="92326"/>
          <exon e_start="92096" e_stop="92068"/>
          <exon e_start="91550" e_stop="91464"/>
          <exon e_start="91369" e_stop="90895"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAGGTAAAGAATACTTGCCACACTTAGAAGGTCTTGCTTGCTTAAAATATGCATCTGGTGCATGAGATATAGCAACTAAATGGCATGGGTGATCTCATTCAGTTTTGCTTGGTAACAGTACAACTTTTGTGACTTTTTATCATTAATAACACTTGAGAGGAGTGCATCCACTTGCAAGATAAACCTAATAGGGAGTATGAAATGACCCAAAGAGACCGTAAACCAAATACAAGTGAACAGCGGATGCCGACACAGTACTAAGAAAAAAACAGATTCTCGTCTACTCTTTTTCATTGCTATATTTCACAATGACATTACACCAATATGTGAATCCGTAGTTCTGGGGTAGTTGGTCCTGATAACTACACTTGGAACTCCGAAGAAAAAGAAAAAAGGAAGTGGGAGGGGGGTTAAACTGCTATTGTTGGAATGTTTGGTAAGAGAAATGGCTTTATGTGGGATGCAAAAAGAGGTTAATGTTTGTATGAGACTGAGATTTTGTTATAGTGTTCCTTTATAATCCATCTGCCTTCTTGTGACTTGTACATCTTTTTCTTTCTTTTTAGCAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCAGTAAGCTGGTTCTTAGTTTCTTGGATGGCAAAATGGTTCATGATTTATGTTATACGGGTTGCTTATTTTACTTGAATTATCAAACTCTTGCCTTTTTCACAAATAAGTTTGCCGGTGAAAAGAATTTTCCTCTCATATTTTCATTTTTACTTGCCAAAAGATGGAGAAATCCTATCTAGTTGAGATGAACTTGTTACTGTGTTGACAAAGTTTCTTTTACTACTTGCAGACAGCCGGGCCAAAATGCTGGTGGAGCAGGTAAACTTCCTATTCTTTAAACTTTGATATTCTTTATCACCTTGATCAAGTCATTCTGAATTAGTCAGCATGATAGCTGGTATTATTGTGTTAATAATGTTGTCTTGGGGAATATAATTTTTCTGGAACATTTTTGTTTTCAAAGTTTGCTCTGATCTTGGCACAATAGGGTCCTCTGAGAAACCCACACCTTCAACTTCCAAATTCTCCTGAACATTATTCCTAGTGTAAATAGACACTTAATTTGTCAAGTTCTTATCTACGATGCGGAGACATTATGTAATATTAGTTTATATGGCTTATGGAGTTTGGGTTTCAAACTGAATTCTTGACTGTGAAACCTTTATCAGGTTGTTAAAGAGATGGCTATTGATTGTCACTGATACAATCGATACAGGGAACTACTGAATCTAATAATTATATGAAATTCAGGGTTGAAGGGCAAAGTAATGCAATTTCTGTTTATGAAATTATGTTTTAGCTAACTCACATCATGGGGTCGTTTGAATAATTGCAGCACTTGACAACTCGGGAATGGAAATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCTAACAGATCTAATGGTTACTTTTATCTCTTGCTTTCCTTCTTCCGTTTTTCTCTCTCTTTCCCTCTGACTCAACGATTTTTCAACTTTACTCTTGATGTCTGTTGCAGTGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTCAAAAGCTTGC</genome_strand>
        <mrna_strand>CTGAATTTATTTGTCAATTGACATCGCCTGAGACAGTGCAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCA.....................................................................................................................................................................................................................................ACAGCCGGGCCAAAATGCTGGTGGAGCAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CACTTGACAACTCGGGAATGGAAATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCTAACAGATCTAATG..............................................................................................TGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTCAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E540571" ref_strand="+" ref_description="SGN-E540571 [TUS-60-O17](-)">
      <seq>catgaaccaggttttagggatgaacccacagcttagaagcatgcttgattccaatccacagctcagagaaatgatgcaaaatcctgaatttattcgtcaattgacatcgcctgagacagtgcagcaacttatgactttccagcaaggacttgcatctcaacttgggcgtcagcaaacaaaccaacagccgggccaaaatgctggtggagcagcacttgacaactcgggaatggaaatgcttatgaacatgtttggtggacttgggaccgggggcttgggtgtccctaacagatctaatgtgcccccagaggaattatatgctactcagctaacgcagttacaagaaatgggtttctttgacactcaagaaaatatccgggcactgactgcctccggtggcaatgttcatgctgctgtagagcgacttcttggaaatcttggacaatagtgttagtcttctcttctataagacaacactactgatggggtctgatgaaattgattgattttggacacaaggagcgtcagcgtcaaatcttgtttgaaataaatattaaagatttcaatttttgagctaacgtctcgtcttttgtccccccctattctgttttcacttggactaaagtaaactgatggaagatctagttgttgagttgtctgtacatacaatgttaaaagcggttacattatatgggccgcaagagattttctggacgttaagttaattttcagttatatatcacaactcactgaagttattattcaaaaaaaaaaggaaaaaaaaaaactcgaggggggccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="93368" stop="90601"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="93193" g_stop="93184" g_length="10"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="10" r_length="10" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="93183" i_stop="93062" i_length="122">
            <donor d_prob="0.999" d_score="0.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93061" g_stop="92948" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="11" r_stop="124" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="92947" i_stop="92385" i_length="563">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="92384" g_stop="92326" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="125" r_stop="183" r_length="59" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="92325" i_stop="92097" i_length="229">
            <donor d_prob="0.974" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="92096" g_stop="92068" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="184" r_stop="212" r_length="29" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="92067" i_stop="91551" i_length="517">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="91550" g_stop="91464" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="213" r_stop="299" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="91463" i_stop="91370" i_length="94">
            <donor d_prob="0.988" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="91369" g_stop="90901" g_length="469"/>
          <reference_exon_boundary r_type="cDNA" r_start="300" r_stop="768" r_length="469" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="777" polyA_stop="788"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E540571" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>768</cumulative_length_of_scored_exons>
        <coverage percentage="0.959" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E540571" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="93193" e_stop="93184"/>
          <exon e_start="93061" e_stop="92948"/>
          <exon e_start="92384" e_stop="92326"/>
          <exon e_start="92096" e_stop="92068"/>
          <exon e_start="91550" e_stop="91464"/>
          <exon e_start="91369" e_stop="90901"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGAACCAGGTATTTATTTATTTGTCTGATTGAAAATTTGCGTGCAGTTGTTAAGTTTTGCTGTATTTCTGTTTCCTTTGACTCTCTTTGTCTCTACTGACAGTAAGTTTCTCATTTAACCTGGTGATTAGGTTTTAGGGATGAACCCACAGCTTAGAAGCATGCTTGATTCCAATCCACAGCTCAGAGAAATGATGCAAAATCCTGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAGGTAAAGAATACTTGCCACACTTAGAAGGTCTTGCTTGCTTAAAATATGCATCTGGTGCATGAGATATAGCAACTAAATGGCATGGGTGATCTCATTCAGTTTTGCTTGGTAACAGTACAACTTTTGTGACTTTTTATCATTAATAACACTTGAGAGGAGTGCATCCACTTGCAAGATAAACCTAATAGGGAGTATGAAATGACCCAAAGAGACCGTAAACCAAATACAAGTGAACAGCGGATGCCGACACAGTACTAAGAAAAAAACAGATTCTCGTCTACTCTTTTTCATTGCTATATTTCACAATGACATTACACCAATATGTGAATCCGTAGTTCTGGGGTAGTTGGTCCTGATAACTACACTTGGAACTCCGAAGAAAAAGAAAAAAGGAAGTGGGAGGGGGGTTAAACTGCTATTGTTGGAATGTTTGGTAAGAGAAATGGCTTTATGTGGGATGCAAAAAGAGGTTAATGTTTGTATGAGACTGAGATTTTGTTATAGTGTTCCTTTATAATCCATCTGCCTTCTTGTGACTTGTACATCTTTTTCTTTCTTTTTAGCAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCAGTAAGCTGGTTCTTAGTTTCTTGGATGGCAAAATGGTTCATGATTTATGTTATACGGGTTGCTTATTTTACTTGAATTATCAAACTCTTGCCTTTTTCACAAATAAGTTTGCCGGTGAAAAGAATTTTCCTCTCATATTTTCATTTTTACTTGCCAAAAGATGGAGAAATCCTATCTAGTTGAGATGAACTTGTTACTGTGTTGACAAAGTTTCTTTTACTACTTGCAGACAGCCGGGCCAAAATGCTGGTGGAGCAGGTAAACTTCCTATTCTTTAAACTTTGATATTCTTTATCACCTTGATCAAGTCATTCTGAATTAGTCAGCATGATAGCTGGTATTATTGTGTTAATAATGTTGTCTTGGGGAATATAATTTTTCTGGAACATTTTTGTTTTCAAAGTTTGCTCTGATCTTGGCACAATAGGGTCCTCTGAGAAACCCACACCTTCAACTTCCAAATTCTCCTGAACATTATTCCTAGTGTAAATAGACACTTAATTTGTCAAGTTCTTATCTACGATGCGGAGACATTATGTAATATTAGTTTATATGGCTTATGGAGTTTGGGTTTCAAACTGAATTCTTGACTGTGAAACCTTTATCAGGTTGTTAAAGAGATGGCTATTGATTGTCACTGATACAATCGATACAGGGAACTACTGAATCTAATAATTATATGAAATTCAGGGTTGAAGGGCAAAGTAATGCAATTTCTGTTTATGAAATTATGTTTTAGCTAACTCACATCATGGGGTCGTTTGAATAATTGCAGCACTTGACAACTCGGGAATGGAAATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCTAACAGATCTAATGGTTACTTTTATCTCTTGCTTTCCTTCTTCCGTTTTTCTCTCTCTTTCCCTCTGACTCAACGATTTTTCAACTTTACTCTTGATGTCTGTTGCAGTGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTCAAAA</genome_strand>
        <mrna_strand>CATGAACCAG..........................................................................................................................GTTTTAGGGATGAACCCACAGCTTAGAAGCATGCTTGATTCCAATCCACAGCTCAGAGAAATGATGCAAAATCCTGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCA.....................................................................................................................................................................................................................................ACAGCCGGGCCAAAATGCTGGTGGAGCAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CACTTGACAACTCGGGAATGGAAATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCTAACAGATCTAATG..............................................................................................TGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTCAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E309681" ref_strand="+" ref_description="SGN-E309681 [cLEY-26-G11]">
      <seq>attgattgattttggacacaaggagcgtcagcgtcaaatcttgtttgaaataaatattaaagatttcaatttttgagctaacgtctcgtcttttgtccccccctattctgttttcacttggactaaagtaaactgatggaagatctagttgttgagttgtctgtacatacaatgttaaaagcggttacattatatgggccgcaagagattttctggacgttaagttaattttcagttatatatcacaactcactgaagttattattcaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="91471" stop="90601"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="91171" g_stop="90901" g_length="271"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="271" r_length="271" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="272" polyA_stop="297"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E309681" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>271</cumulative_length_of_scored_exons>
        <coverage percentage="0.912" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E309681" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="91171" e_stop="90901"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTCAAAA</genome_strand>
        <mrna_strand>ATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTCAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E225811" ref_strand="+" ref_description="SGN-E225811 [cLEL-17-C1](-)">
      <seq>actgatggggtctgatgacattgattgattttggacacaaggagcgtcagcgtcaaatcttgtttgaaataaatattaaagatttcaatttttgagctaacgtctcgtcttttgtcccccccaaatctgttttcacttggactaaagtaaactgatggaagatctagttgttgagttgtctgtacatacaatgttaaaagcggttacattatatgggccgcaagagattttctggacgttaagttaattttcagttatatatcccccctccctgaagttattatccccaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="91490" stop="90601"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="91190" g_stop="90909" g_length="282"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="282" r_length="282" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="289" polyA_stop="305"/>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E225811" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>282</cumulative_length_of_scored_exons>
        <coverage percentage="0.925" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E225811" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="91190" e_stop="90909"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATT</genome_strand>
        <mrna_strand>ACTGATGGGGTCTGATGACATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCAAATCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCCCCCCTCCCTGAAGTTATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E252278" ref_strand="-" ref_description="SGN-E252278 [cLEG-12-D21]">
      <seq>aaatgctggtggagcagcacttgacaactcgggaatggaaatgcttatgaacatgtttggtggacttgggaccgggggcttgggtgtccctaacagatctaatgtgcccccagaggaattatatgctactcagctaacgcagttacaagaaatgggtttctttgacactcaagaaaatatccgggcactgactgcctccggtggcaatgttcatgctgctgtagagcgacttcttggaaatcttggacaatagtgttagtcttctcttctataagacaacactactgatggggtctgatgaaattgattgattttggacacaaggagcgtcagcgtcaaatcttgtttgaaataaatattaaagatttcaatttttgagctaacgtctcgtcttttgtccccccctattctgttttcacttggactaaagtaaactgatggaagatctagttgttgagttgtctgtacatacaatgttaaaagcggttacattatatgggccgcaagagattttctggacgttaagttaattttcagttatatatcaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="91854" stop="90624"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="91550" g_stop="91464" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="18" r_stop="104" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="91463" i_stop="91370" i_length="94">
            <donor d_prob="0.988" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="91369" g_stop="90910" g_length="460"/>
          <reference_exon_boundary r_type="cDNA" r_start="105" r_stop="564" r_length="460" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E252278" ref_strand="-">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>547</cumulative_length_of_scored_exons>
        <coverage percentage="0.970" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E252278" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="91550" e_stop="91464"/>
          <exon e_start="91369" e_stop="90910"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACTTGACAACTCGGGAATGGAAATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCTAACAGATCTAATGGTTACTTTTATCTCTTGCTTTCCTTCTTCCGTTTTTCTCTCTCTTTCCCTCTGACTCAACGATTTTTCAACTTTACTCTTGATGTCTGTTGCAGTGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTAT</genome_strand>
        <mrna_strand>CACTTGACAACTCGGGAATGGAAATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCTAACAGATCTAATG..............................................................................................TGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCAAAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E300597" ref_strand="+" ref_description="SGN-E300597 [cLET-45-M8]">
      <seq>tgaatttattcgtcaattgacatcgcctgagacagtgcagcaacttatgactttccagcaaggacttgcatctcaacttgggcgtcagcaaacaaaccaacagccgggccaaaatgctggtggagcagcacttgacaactcgggaatggaaatgcttatgaacatgtttggtggacttgggaccgggggcttgggtgtccctaacagatctaatgtgcccccagaggaattatatgctactcagctaacgcagttacaagaaatgggtttctttgacactcaagaaaatatccgggcactgactgcctccggtggcaatgttcatgctgctgtagagcgacttcttggaaatcttggacaatagtgttagtcttctcttctataagacaacactactgatggggtctgatgaaattgattgattttggacacaaggagcgtcagcgtcaaatcttgtttgaaataaatattaaagatttcaatttttgagctaacgtctcgtcttttgtccccccct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="93287" stop="90768"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="92987" g_stop="92948" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="40" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="92947" i_stop="92385" i_length="563">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="92384" g_stop="92326" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="41" r_stop="99" r_length="59" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="92325" i_stop="92097" i_length="229">
            <donor d_prob="0.974" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="92096" g_stop="92068" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="100" r_stop="128" r_length="29" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="92067" i_stop="91551" i_length="517">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="91550" g_stop="91464" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="129" r_stop="215" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="91463" i_stop="91370" i_length="94">
            <donor d_prob="0.988" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="91369" g_stop="91068" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="216" r_stop="517" r_length="302" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E300597" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>517</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E300597" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="92987" e_stop="92948"/>
          <exon e_start="92384" e_stop="92326"/>
          <exon e_start="92096" e_stop="92068"/>
          <exon e_start="91550" e_stop="91464"/>
          <exon e_start="91369" e_stop="91068"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAGGTAAAGAATACTTGCCACACTTAGAAGGTCTTGCTTGCTTAAAATATGCATCTGGTGCATGAGATATAGCAACTAAATGGCATGGGTGATCTCATTCAGTTTTGCTTGGTAACAGTACAACTTTTGTGACTTTTTATCATTAATAACACTTGAGAGGAGTGCATCCACTTGCAAGATAAACCTAATAGGGAGTATGAAATGACCCAAAGAGACCGTAAACCAAATACAAGTGAACAGCGGATGCCGACACAGTACTAAGAAAAAAACAGATTCTCGTCTACTCTTTTTCATTGCTATATTTCACAATGACATTACACCAATATGTGAATCCGTAGTTCTGGGGTAGTTGGTCCTGATAACTACACTTGGAACTCCGAAGAAAAAGAAAAAAGGAAGTGGGAGGGGGGTTAAACTGCTATTGTTGGAATGTTTGGTAAGAGAAATGGCTTTATGTGGGATGCAAAAAGAGGTTAATGTTTGTATGAGACTGAGATTTTGTTATAGTGTTCCTTTATAATCCATCTGCCTTCTTGTGACTTGTACATCTTTTTCTTTCTTTTTAGCAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCAGTAAGCTGGTTCTTAGTTTCTTGGATGGCAAAATGGTTCATGATTTATGTTATACGGGTTGCTTATTTTACTTGAATTATCAAACTCTTGCCTTTTTCACAAATAAGTTTGCCGGTGAAAAGAATTTTCCTCTCATATTTTCATTTTTACTTGCCAAAAGATGGAGAAATCCTATCTAGTTGAGATGAACTTGTTACTGTGTTGACAAAGTTTCTTTTACTACTTGCAGACAGCCGGGCCAAAATGCTGGTGGAGCAGGTAAACTTCCTATTCTTTAAACTTTGATATTCTTTATCACCTTGATCAAGTCATTCTGAATTAGTCAGCATGATAGCTGGTATTATTGTGTTAATAATGTTGTCTTGGGGAATATAATTTTTCTGGAACATTTTTGTTTTCAAAGTTTGCTCTGATCTTGGCACAATAGGGTCCTCTGAGAAACCCACACCTTCAACTTCCAAATTCTCCTGAACATTATTCCTAGTGTAAATAGACACTTAATTTGTCAAGTTCTTATCTACGATGCGGAGACATTATGTAATATTAGTTTATATGGCTTATGGAGTTTGGGTTTCAAACTGAATTCTTGACTGTGAAACCTTTATCAGGTTGTTAAAGAGATGGCTATTGATTGTCACTGATACAATCGATACAGGGAACTACTGAATCTAATAATTATATGAAATTCAGGGTTGAAGGGCAAAGTAATGCAATTTCTGTTTATGAAATTATGTTTTAGCTAACTCACATCATGGGGTCGTTTGAATAATTGCAGCACTTGACAACTCGGGAATGGAAATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCTAACAGATCTAATGGTTACTTTTATCTCTTGCTTTCCTTCTTCCGTTTTTCTCTCTCTTTCCCTCTGACTCAACGATTTTTCAACTTTACTCTTGATGTCTGTTGCAGTGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCT</genome_strand>
        <mrna_strand>TGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCA.....................................................................................................................................................................................................................................ACAGCCGGGCCAAAATGCTGGTGGAGCAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CACTTGACAACTCGGGAATGGAAATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCTAACAGATCTAATG..............................................................................................TGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E261984" ref_strand="+" ref_description="SGN-E261984 [cLEG-58-O20]">
      <seq>atacgcgaaatgatgcggggtctaacccgtttgcagctcttttgggagcacaaggtggactaggcagacagcaggcaaataatcctccaactgctggttctgagactactgataatctgcctgccccaaatactaatccacttccgaatccttgggcatctgcaggcactggagctgcccaagccaataccgctgctaggtcaaatactgctggggataccaggggtgcaccacttggcctaggtgggcttggttccccaggtttggagcaaatgctaggcggcatgcctgatactacttcgctaaatcaaatgatgcagaaccctgccatctcacagatgatgcagtctctccttttcaatccacagtacatgaaccaggttttagggatgaacccacagcttagaagcatgcttgattccaatccacagctcagagaaatgatgcaaaatcctgaatttattcgtcaattgacatcgcctgagacagtgcagcaacttatgactttccagcaaggacttgcatctcaactttgggcgtcagcaaacaaaccaacagccggggccaaatgctggtggagcagcacttgacaactcgggaatggaatgcttatgaacatgtttggtggacttgggaccgggggcttgggtgtccctacagatctaatgtgcccccagaggaatatatgctact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="94701" stop="91044"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="94401" g_stop="94234" g_length="168"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="168" r_length="168" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="94233" i_stop="93396" i_length="838">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93395" g_stop="93184" g_length="212"/>
          <reference_exon_boundary r_type="cDNA" r_start="169" r_stop="380" r_length="212" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93183" i_stop="93062" i_length="122">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93061" g_stop="92948" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="381" r_stop="494" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="92947" i_stop="92385" i_length="563">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="92384" g_stop="92326" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="495" r_stop="554" r_length="60" r_score="0.966"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="92325" i_stop="92097" i_length="229">
            <donor d_prob="0.974" d_score="0.96"/>
            <acceptor a_prob="0.993" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="92096" g_stop="92068" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="555" r_stop="583" r_length="29" r_score="0.931"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="92067" i_stop="91551" i_length="517">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="0.989" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="91550" g_stop="91464" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="584" r_stop="668" r_length="85" r_score="0.977"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="91463" i_stop="91370" i_length="94">
            <donor d_prob="0.988" d_score="0.98"/>
            <acceptor a_prob="0.993" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="91369" g_stop="91344" g_length="26"/>
          <reference_exon_boundary r_type="cDNA" r_start="669" r_stop="693" r_length="25" r_score="0.962"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E261984" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>695</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E261984" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94401" e_stop="94234"/>
          <exon e_start="93395" e_stop="93184"/>
          <exon e_start="93061" e_stop="92948"/>
          <exon e_start="92384" e_stop="92326"/>
          <exon e_start="92096" e_stop="92068"/>
          <exon e_start="91550" e_stop="91464"/>
          <exon e_start="91369" e_stop="91344"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATACGCGAAATGATGCGGGGTCTAACCCGTTTGCAGCTCTTTTGGGAGCACAAGGTGGACTAGGCAGACAGCAGGCAAATAATCCTCCAACTGCTGGTTCTGAGACTACTGATAATCTGCCTGCCCCAAATACTAATCCACTTCCGAATCCTTGGGCATCTGCAGGCAGTTAGTTCTTATCATCTCTTATTCTTTAATCATTTTGACTAGCTAGAGTAAAACTGTGTACTTTTTTTTTCTTAAATGGTAATAATTGTATTCATAAAGCAGCACAAGGATTTTTGTACAAGTGGCGAAAAGAGCCAAAAACATAGCCCTCTTGTAAACTTTAGAGGGACTGCATGAATTCTTGTTAAGTTTCTGCCTCATTTGCATTTTGCCTTTTTACACCAAAAGGTCAAGTTACATGATACAATCTATACTTAATCATGTGCGCTGATTTTTGTCTCTCCTAAAAACATCTCGAAAGAGTCAAGTGTCTGCTTCTTTTGGTTTTCTTTTATTCTATATTTTTTAGTTTAACTGTTTACTTAATCTCTTGTTTTGACTTCTATAGAACTTGGGATGCTCCTGCAATTAATAGCTACCTTCTTTTTTCTCTTGTATTTCTTGAGATATTTTTGTACATCATTCTGCTAAGGTTGGGTATGAAGTTCTACTTGTGCAATTTGTGTTTACAACTTGAATTTAATGGTCATCAAGCACAATGATTTCTTATCAAAATTTGTTTGCTGCTTGTTTACTGTTAAACAATAAAAGATTGGTTGTCTTCCCTTTTAATTTTTCGTCTACTAAAATATTTTGAAGTTTCTTGTGAGCTTCTTAATGTTGATTTGAGGTATTTTAATCCTTCATGTTGTAGACATAATTATGGTGTAATCTTAGGATCCTTGAGTAATCATATTTTGTCATGCCGTATTTTTGACCTATATTTCTCACAGAGCCATGTTGTTGGATAAGTATGTATGATATGATTATGTTCTTACTTATACATTGACCTTTTCAGCTGGAGCTGCCCAAGCCAATACCGCTGCTAGGTCAAATACTGCTGGGGATACCAGGGGTGCACCACTTGGCCTAGGTGGGCTTGGTTCCCCAGGTTTGGAGCAAATGCTAGGCGGCATGCCTGATACTACTTCGCTAAATCAAATGATGCAGAACCCTGCCATCTCACAGATGATGCAGTCTCTCCTTTCAAATCCACAGTACATGAACCAGGTATTTATTTATTTGTCTGATTGAAAATTTGCGTGCAGTTGTTAAGTTTTGCTGTATTTCTGTTTCCTTTGACTCTCTTTGTCTCTACTGACAGTAAGTTTCTCATTTAACCTGGTGATTAGGTTTTAGGGATGAACCCACAGCTTAGAAGCATGCTTGATTCCAATCCACAGCTCAGAGAAATGATGCAAAATCCTGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAGGTAAAGAATACTTGCCACACTTAGAAGGTCTTGCTTGCTTAAAATATGCATCTGGTGCATGAGATATAGCAACTAAATGGCATGGGTGATCTCATTCAGTTTTGCTTGGTAACAGTACAACTTTTGTGACTTTTTATCATTAATAACACTTGAGAGGAGTGCATCCACTTGCAAGATAAACCTAATAGGGAGTATGAAATGACCCAAAGAGACCGTAAACCAAATACAAGTGAACAGCGGATGCCGACACAGTACTAAGAAAAAAACAGATTCTCGTCTACTCTTTTTCATTGCTATATTTCACAATGACATTACACCAATATGTGAATCCGTAGTTCTGGGGTAGTTGGTCCTGATAACTACACTTGGAACTCCGAAGAAAAAGAAAAAAGGAAGTGGGAGGGGGGTTAAACTGCTATTGTTGGAATGTTTGGTAAGAGAAATGGCTTTATGTGGGATGCAAAAAGAGGTTAATGTTTGTATGAGACTGAGATTTTGTTATAGTGTTCCTTTATAATCCATCTGCCTTCTTGTGACTTGTACATCTTTTTCTTTCTTTTTAGCAACTTATGACTTTCCAGCAAGGACTTGCATCTCAAC-TTGGGCGTCAGCAAACAAACCAGTAAGCTGGTTCTTAGTTTCTTGGATGGCAAAATGGTTCATGATTTATGTTATACGGGTTGCTTATTTTACTTGAATTATCAAACTCTTGCCTTTTTCACAAATAAGTTTGCCGGTGAAAAGAATTTTCCTCTCATATTTTCATTTTTACTTGCCAAAAGATGGAGAAATCCTATCTAGTTGAGATGAACTTGTTACTGTGTTGACAAAGTTTCTTTTACTACTTGCAGACAGCCGGGCCAAAATGCTGGTGGAGCAGGTAAACTTCCTATTCTTTAAACTTTGATATTCTTTATCACCTTGATCAAGTCATTCTGAATTAGTCAGCATGATAGCTGGTATTATTGTGTTAATAATGTTGTCTTGGGGAATATAATTTTTCTGGAACATTTTTGTTTTCAAAGTTTGCTCTGATCTTGGCACAATAGGGTCCTCTGAGAAACCCACACCTTCAACTTCCAAATTCTCCTGAACATTATTCCTAGTGTAAATAGACACTTAATTTGTCAAGTTCTTATCTACGATGCGGAGACATTATGTAATATTAGTTTATATGGCTTATGGAGTTTGGGTTTCAAACTGAATTCTTGACTGTGAAACCTTTATCAGGTTGTTAAAGAGATGGCTATTGATTGTCACTGATACAATCGATACAGGGAACTACTGAATCTAATAATTATATGAAATTCAGGGTTGAAGGGCAAAGTAATGCAATTTCTGTTTATGAAATTATGTTTTAGCTAACTCACATCATGGGGTCGTTTGAATAATTGCAGCACTTGACAACTCGGGAATGGAAATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCTAACAGATCTAATGGTTACTTTTATCTCTTGCTTTCCTTCTTCCGTTTTTCTCTCTCTTTCCCTCTGACTCAACGATTTTTCAACTTTACTCTTGATGTCTGTTGCAGTGCCCCCAGAGGAATTATATGCTACT</genome_strand>
        <mrna_strand>ATACGCGAAATGATGCGGGGTCTAACCCGTTTGCAGCTCTTTTGGGAGCACAAGGTGGACTAGGCAGACAGCAGGCAAATAATCCTCCAACTGCTGGTTCTGAGACTACTGATAATCTGCCTGCCCCAAATACTAATCCACTTCCGAATCCTTGGGCATCTGCAGGCA......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGGAGCTGCCCAAGCCAATACCGCTGCTAGGTCAAATACTGCTGGGGATACCAGGGGTGCACCACTTGGCCTAGGTGGGCTTGGTTCCCCAGGTTTGGAGCAAATGCTAGGCGGCATGCCTGATACTACTTCGCTAAATCAAATGATGCAGAACCCTGCCATCTCACAGATGATGCAGTCTCTCCTTTTCAATCCACAGTACATGAACCAG..........................................................................................................................GTTTTAGGGATGAACCCACAGCTTAGAAGCATGCTTGATTCCAATCCACAGCTCAGAGAAATGATGCAAAATCCTGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTTGGGCGTCAGCAAACAAACCA.....................................................................................................................................................................................................................................ACAGCCGGGGCCAAATGCTGGTGGAGCAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CACTTGACAACTCGGGAATGG-AATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCT-ACAGATCTAATG..............................................................................................TGCCCCCAGAGGAA-TATATGCTACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726057" ref_strand="+" ref_description="SGN-E726057 [LA10AF11]">
      <seq>gtggactaggcagacagcaggcaaataatcctccaactgctggttctgagactactgataatctgcctgccccaaatactaatccacttccgaatccttgggcatctgcaggcactggagctgcccaagccaataccgctgctaggtcaaatactgctggggataccaggggtgcaccacttggcctaggtgggcttggttccccaggtttggagcaaatgctaggcggcatgcctgatactacttcgctaaatcaaatgatgcagaaccctgccatctcacagatgatgcagtctctcctttcaaatccacagtacatgaaccaggttttagggatgaacccacagcttagaagcatgcttgattccaatccacagctcagagaaatgatgcaaaatcctgaatttattcgtcaattgacatcgcctgagacagtgcagcaacttatgacntttccagcaggacttgcatctcaacttgggcgtcagcaaacaaaccaacagccgggccaaaatgctggtggagcagcacttgacaactcgggaatggaaatgcttatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="94647" stop="91219"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="94347" g_stop="94234" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="114" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="94233" i_stop="93396" i_length="838">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93395" g_stop="93184" g_length="212"/>
          <reference_exon_boundary r_type="cDNA" r_start="115" r_stop="326" r_length="212" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93183" i_stop="93062" i_length="122">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93061" g_stop="92948" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="327" r_stop="440" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="92947" i_stop="92385" i_length="563">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="92384" g_stop="92326" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="441" r_stop="499" r_length="59" r_score="0.949"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="92325" i_stop="92097" i_length="229">
            <donor d_prob="0.974" d_score="0.94"/>
            <acceptor a_prob="0.993" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="92096" g_stop="92068" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="500" r_stop="528" r_length="29" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="92067" i_stop="91551" i_length="517">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="0.989" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="91550" g_stop="91519" g_length="32"/>
          <reference_exon_boundary r_type="cDNA" r_start="529" r_stop="560" r_length="32" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E726057" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>560</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726057" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94347" e_stop="94234"/>
          <exon e_start="93395" e_stop="93184"/>
          <exon e_start="93061" e_stop="92948"/>
          <exon e_start="92384" e_stop="92326"/>
          <exon e_start="92096" e_stop="92068"/>
          <exon e_start="91550" e_stop="91519"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGGACTAGGCAGACAGCAGGCAAATAATCCTCCAACTGCTGGTTCTGAGACTACTGATAATCTGCCTGCCCCAAATACTAATCCACTTCCGAATCCTTGGGCATCTGCAGGCAGTTAGTTCTTATCATCTCTTATTCTTTAATCATTTTGACTAGCTAGAGTAAAACTGTGTACTTTTTTTTTCTTAAATGGTAATAATTGTATTCATAAAGCAGCACAAGGATTTTTGTACAAGTGGCGAAAAGAGCCAAAAACATAGCCCTCTTGTAAACTTTAGAGGGACTGCATGAATTCTTGTTAAGTTTCTGCCTCATTTGCATTTTGCCTTTTTACACCAAAAGGTCAAGTTACATGATACAATCTATACTTAATCATGTGCGCTGATTTTTGTCTCTCCTAAAAACATCTCGAAAGAGTCAAGTGTCTGCTTCTTTTGGTTTTCTTTTATTCTATATTTTTTAGTTTAACTGTTTACTTAATCTCTTGTTTTGACTTCTATAGAACTTGGGATGCTCCTGCAATTAATAGCTACCTTCTTTTTTCTCTTGTATTTCTTGAGATATTTTTGTACATCATTCTGCTAAGGTTGGGTATGAAGTTCTACTTGTGCAATTTGTGTTTACAACTTGAATTTAATGGTCATCAAGCACAATGATTTCTTATCAAAATTTGTTTGCTGCTTGTTTACTGTTAAACAATAAAAGATTGGTTGTCTTCCCTTTTAATTTTTCGTCTACTAAAATATTTTGAAGTTTCTTGTGAGCTTCTTAATGTTGATTTGAGGTATTTTAATCCTTCATGTTGTAGACATAATTATGGTGTAATCTTAGGATCCTTGAGTAATCATATTTTGTCATGCCGTATTTTTGACCTATATTTCTCACAGAGCCATGTTGTTGGATAAGTATGTATGATATGATTATGTTCTTACTTATACATTGACCTTTTCAGCTGGAGCTGCCCAAGCCAATACCGCTGCTAGGTCAAATACTGCTGGGGATACCAGGGGTGCACCACTTGGCCTAGGTGGGCTTGGTTCCCCAGGTTTGGAGCAAATGCTAGGCGGCATGCCTGATACTACTTCGCTAAATCAAATGATGCAGAACCCTGCCATCTCACAGATGATGCAGTCTCTCCTTTCAAATCCACAGTACATGAACCAGGTATTTATTTATTTGTCTGATTGAAAATTTGCGTGCAGTTGTTAAGTTTTGCTGTATTTCTGTTTCCTTTGACTCTCTTTGTCTCTACTGACAGTAAGTTTCTCATTTAACCTGGTGATTAGGTTTTAGGGATGAACCCACAGCTTAGAAGCATGCTTGATTCCAATCCACAGCTCAGAGAAATGATGCAAAATCCTGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAGGTAAAGAATACTTGCCACACTTAGAAGGTCTTGCTTGCTTAAAATATGCATCTGGTGCATGAGATATAGCAACTAAATGGCATGGGTGATCTCATTCAGTTTTGCTTGGTAACAGTACAACTTTTGTGACTTTTTATCATTAATAACACTTGAGAGGAGTGCATCCACTTGCAAGATAAACCTAATAGGGAGTATGAAATGACCCAAAGAGACCGTAAACCAAATACAAGTGAACAGCGGATGCCGACACAGTACTAAGAAAAAAACAGATTCTCGTCTACTCTTTTTCATTGCTATATTTCACAATGACATTACACCAATATGTGAATCCGTAGTTCTGGGGTAGTTGGTCCTGATAACTACACTTGGAACTCCGAAGAAAAAGAAAAAAGGAAGTGGGAGGGGGGTTAAACTGCTATTGTTGGAATGTTTGGTAAGAGAAATGGCTTTATGTGGGATGCAAAAAGAGGTTAATGTTTGTATGAGACTGAGATTTTGTTATAGTGTTCCTTTATAATCCATCTGCCTTCTTGTGACTTGTACATCTTTTTCTTTCTTTTTAGCAACTTATGAC-TTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCAGTAAGCTGGTTCTTAGTTTCTTGGATGGCAAAATGGTTCATGATTTATGTTATACGGGTTGCTTATTTTACTTGAATTATCAAACTCTTGCCTTTTTCACAAATAAGTTTGCCGGTGAAAAGAATTTTCCTCTCATATTTTCATTTTTACTTGCCAAAAGATGGAGAAATCCTATCTAGTTGAGATGAACTTGTTACTGTGTTGACAAAGTTTCTTTTACTACTTGCAGACAGCCGGGCCAAAATGCTGGTGGAGCAGGTAAACTTCCTATTCTTTAAACTTTGATATTCTTTATCACCTTGATCAAGTCATTCTGAATTAGTCAGCATGATAGCTGGTATTATTGTGTTAATAATGTTGTCTTGGGGAATATAATTTTTCTGGAACATTTTTGTTTTCAAAGTTTGCTCTGATCTTGGCACAATAGGGTCCTCTGAGAAACCCACACCTTCAACTTCCAAATTCTCCTGAACATTATTCCTAGTGTAAATAGACACTTAATTTGTCAAGTTCTTATCTACGATGCGGAGACATTATGTAATATTAGTTTATATGGCTTATGGAGTTTGGGTTTCAAACTGAATTCTTGACTGTGAAACCTTTATCAGGTTGTTAAAGAGATGGCTATTGATTGTCACTGATACAATCGATACAGGGAACTACTGAATCTAATAATTATATGAAATTCAGGGTTGAAGGGCAAAGTAATGCAATTTCTGTTTATGAAATTATGTTTTAGCTAACTCACATCATGGGGTCGTTTGAATAATTGCAGCACTTGACAACTCGGGAATGGAAATGCTTATG</genome_strand>
        <mrna_strand>GTGGACTAGGCAGACAGCAGGCAAATAATCCTCCAACTGCTGGTTCTGAGACTACTGATAATCTGCCTGCCCCAAATACTAATCCACTTCCGAATCCTTGGGCATCTGCAGGCA......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGGAGCTGCCCAAGCCAATACCGCTGCTAGGTCAAATACTGCTGGGGATACCAGGGGTGCACCACTTGGCCTAGGTGGGCTTGGTTCCCCAGGTTTGGAGCAAATGCTAGGCGGCATGCCTGATACTACTTCGCTAAATCAAATGATGCAGAACCCTGCCATCTCACAGATGATGCAGTCTCTCCTTTCAAATCCACAGTACATGAACCAG..........................................................................................................................GTTTTAGGGATGAACCCACAGCTTAGAAGCATGCTTGATTCCAATCCACAGCTCAGAGAAATGATGCAAAATCCTGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAACTTATGACNTTTCCAGC-AGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCA.....................................................................................................................................................................................................................................ACAGCCGGGCCAAAATGCTGGTGGAGCAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CACTTGACAACTCGGGAATGGAAATGCTTATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E257319" ref_strand="+" ref_description="SGN-E257319 [cLEG-46-H16]">
      <seq>agatacgcgaaatgatgcggggtctaacccgtttgcagctcttttgggagcacaaggtggactaggcagacagcaggcaaataatcctccaactgctggttctgagactactgataatctgcctgccccaaatactaatccacttccgaatccttgggcatctgcaggcactggagctgcccaagccaataccgctgctaggtcaaatactgctggggataccaggggtgcaccacttggcctaggtgggcttggttccccaggtttggagcaaatgctaggcggcatgcctgatactacttcgctaaatcaaatgatgcagaaccctgccatctcacagatgatgcagtctctcctttcaaatccacagtacatgaaccaggttttaaggatgaacccacagcttagaagcatgcttgattccaatccacagctcagagaaatgatgcaaaatcctgaatttattcgtcaattgacatcgcctgagacagtgcagcaacttatgactttccagcaaggacttgcatctcaacttgggcgtcagcaaacaaaccaacagccgggccaaaatgctggtggagcagcacttgacaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="94703" stop="91768"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="94403" g_stop="94234" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="170" r_length="170" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="94233" i_stop="93396" i_length="838">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93395" g_stop="93184" g_length="212"/>
          <reference_exon_boundary r_type="cDNA" r_start="171" r_stop="382" r_length="212" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93183" i_stop="93062" i_length="122">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93061" g_stop="92948" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="383" r_stop="496" r_length="114" r_score="0.991"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="92947" i_stop="92385" i_length="563">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="92384" g_stop="92326" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="497" r_stop="555" r_length="59" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="92325" i_stop="92097" i_length="229">
            <donor d_prob="0.974" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="92096" g_stop="92068" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="556" r_stop="584" r_length="29" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E257319" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>584</cumulative_length_of_scored_exons>
        <coverage percentage="0.983" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E257319" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94403" e_stop="94234"/>
          <exon e_start="93395" e_stop="93184"/>
          <exon e_start="93061" e_stop="92948"/>
          <exon e_start="92384" e_stop="92326"/>
          <exon e_start="92096" e_stop="92068"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGATACGCGAAATGATGCGGGGTCTAACCCGTTTGCAGCTCTTTTGGGAGCACAAGGTGGACTAGGCAGACAGCAGGCAAATAATCCTCCAACTGCTGGTTCTGAGACTACTGATAATCTGCCTGCCCCAAATACTAATCCACTTCCGAATCCTTGGGCATCTGCAGGCAGTTAGTTCTTATCATCTCTTATTCTTTAATCATTTTGACTAGCTAGAGTAAAACTGTGTACTTTTTTTTTCTTAAATGGTAATAATTGTATTCATAAAGCAGCACAAGGATTTTTGTACAAGTGGCGAAAAGAGCCAAAAACATAGCCCTCTTGTAAACTTTAGAGGGACTGCATGAATTCTTGTTAAGTTTCTGCCTCATTTGCATTTTGCCTTTTTACACCAAAAGGTCAAGTTACATGATACAATCTATACTTAATCATGTGCGCTGATTTTTGTCTCTCCTAAAAACATCTCGAAAGAGTCAAGTGTCTGCTTCTTTTGGTTTTCTTTTATTCTATATTTTTTAGTTTAACTGTTTACTTAATCTCTTGTTTTGACTTCTATAGAACTTGGGATGCTCCTGCAATTAATAGCTACCTTCTTTTTTCTCTTGTATTTCTTGAGATATTTTTGTACATCATTCTGCTAAGGTTGGGTATGAAGTTCTACTTGTGCAATTTGTGTTTACAACTTGAATTTAATGGTCATCAAGCACAATGATTTCTTATCAAAATTTGTTTGCTGCTTGTTTACTGTTAAACAATAAAAGATTGGTTGTCTTCCCTTTTAATTTTTCGTCTACTAAAATATTTTGAAGTTTCTTGTGAGCTTCTTAATGTTGATTTGAGGTATTTTAATCCTTCATGTTGTAGACATAATTATGGTGTAATCTTAGGATCCTTGAGTAATCATATTTTGTCATGCCGTATTTTTGACCTATATTTCTCACAGAGCCATGTTGTTGGATAAGTATGTATGATATGATTATGTTCTTACTTATACATTGACCTTTTCAGCTGGAGCTGCCCAAGCCAATACCGCTGCTAGGTCAAATACTGCTGGGGATACCAGGGGTGCACCACTTGGCCTAGGTGGGCTTGGTTCCCCAGGTTTGGAGCAAATGCTAGGCGGCATGCCTGATACTACTTCGCTAAATCAAATGATGCAGAACCCTGCCATCTCACAGATGATGCAGTCTCTCCTTTCAAATCCACAGTACATGAACCAGGTATTTATTTATTTGTCTGATTGAAAATTTGCGTGCAGTTGTTAAGTTTTGCTGTATTTCTGTTTCCTTTGACTCTCTTTGTCTCTACTGACAGTAAGTTTCTCATTTAACCTGGTGATTAGGTTTTAGGGATGAACCCACAGCTTAGAAGCATGCTTGATTCCAATCCACAGCTCAGAGAAATGATGCAAAATCCTGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAGGTAAAGAATACTTGCCACACTTAGAAGGTCTTGCTTGCTTAAAATATGCATCTGGTGCATGAGATATAGCAACTAAATGGCATGGGTGATCTCATTCAGTTTTGCTTGGTAACAGTACAACTTTTGTGACTTTTTATCATTAATAACACTTGAGAGGAGTGCATCCACTTGCAAGATAAACCTAATAGGGAGTATGAAATGACCCAAAGAGACCGTAAACCAAATACAAGTGAACAGCGGATGCCGACACAGTACTAAGAAAAAAACAGATTCTCGTCTACTCTTTTTCATTGCTATATTTCACAATGACATTACACCAATATGTGAATCCGTAGTTCTGGGGTAGTTGGTCCTGATAACTACACTTGGAACTCCGAAGAAAAAGAAAAAAGGAAGTGGGAGGGGGGTTAAACTGCTATTGTTGGAATGTTTGGTAAGAGAAATGGCTTTATGTGGGATGCAAAAAGAGGTTAATGTTTGTATGAGACTGAGATTTTGTTATAGTGTTCCTTTATAATCCATCTGCCTTCTTGTGACTTGTACATCTTTTTCTTTCTTTTTAGCAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCAGTAAGCTGGTTCTTAGTTTCTTGGATGGCAAAATGGTTCATGATTTATGTTATACGGGTTGCTTATTTTACTTGAATTATCAAACTCTTGCCTTTTTCACAAATAAGTTTGCCGGTGAAAAGAATTTTCCTCTCATATTTTCATTTTTACTTGCCAAAAGATGGAGAAATCCTATCTAGTTGAGATGAACTTGTTACTGTGTTGACAAAGTTTCTTTTACTACTTGCAGACAGCCGGGCCAAAATGCTGGTGGAGCAG</genome_strand>
        <mrna_strand>AGATACGCGAAATGATGCGGGGTCTAACCCGTTTGCAGCTCTTTTGGGAGCACAAGGTGGACTAGGCAGACAGCAGGCAAATAATCCTCCAACTGCTGGTTCTGAGACTACTGATAATCTGCCTGCCCCAAATACTAATCCACTTCCGAATCCTTGGGCATCTGCAGGCA......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGGAGCTGCCCAAGCCAATACCGCTGCTAGGTCAAATACTGCTGGGGATACCAGGGGTGCACCACTTGGCCTAGGTGGGCTTGGTTCCCCAGGTTTGGAGCAAATGCTAGGCGGCATGCCTGATACTACTTCGCTAAATCAAATGATGCAGAACCCTGCCATCTCACAGATGATGCAGTCTCTCCTTTCAAATCCACAGTACATGAACCAG..........................................................................................................................GTTTTAAGGATGAACCCACAGCTTAGAAGCATGCTTGATTCCAATCCACAGCTCAGAGAAATGATGCAAAATCCTGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCA.....................................................................................................................................................................................................................................ACAGCCGGGCCAAAATGCTGGTGGAGCAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E263539" ref_strand="+" ref_description="SGN-E263539 [cLEG-60-G14]">
      <seq>aaatgcgagagatcatggatcgtaatccggagcttgctcacgtactcaatgatcctgctactcttcgacagacaatggaggctgcacgaaaccctgaacttatgcgtgagatgatgcgcaatacagacagggccatgagcaatattgaatcttctcctgagggatttaacatgctgaggcgtatgtatgaaaatgttcaggagccattcctaaatgcatcaacattgtctggagatacgcgaaatgatgcggggtctaacccgtttgcagctcttttgggagcacaaggtggactaggcagacagcaggcaaataatcctccaactgctggttctgagactactgataatctgcctgccccaaatactaatccacttccgaatccttgggcatctgcaggcactggagctgcccaagccaataccgctgctaggtcaaatactgctggggataccaggggtgcaccacttggcctaggtgggcttggttccccaggtttggagcaaatgctaggcggcatgcctgatactacttcgctaaatcaaatgatgcagaaccctgccatctcacagatgatgcagtctctcctttcaaatccacagtacatgaaccaggttttagggatgaacccacagcttagaagcatgcttgattccaatccacagctcagagaaatgatgcaaaatcctgaatttattcgtcaattgacatcgcctgagacagtgcagcaacttatgactttccagcaaggacttgcatctcaacttgggcgtcagcaaacaaaccaacagccgggccaaaatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="94935" stop="92009"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="94635" g_stop="94234" g_length="402"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="402" r_length="402" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="94233" i_stop="93396" i_length="838">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93395" g_stop="93184" g_length="212"/>
          <reference_exon_boundary r_type="cDNA" r_start="403" r_stop="614" r_length="212" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93183" i_stop="93062" i_length="122">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93061" g_stop="92948" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="615" r_stop="728" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="92947" i_stop="92385" i_length="563">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="92384" g_stop="92326" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="729" r_stop="787" r_length="59" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="92325" i_stop="92097" i_length="229">
            <donor d_prob="0.974" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="92096" g_stop="92080" g_length="17"/>
          <reference_exon_boundary r_type="cDNA" r_start="788" r_stop="804" r_length="17" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E263539" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>804</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E263539" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94635" e_stop="94234"/>
          <exon e_start="93395" e_stop="93184"/>
          <exon e_start="93061" e_stop="92948"/>
          <exon e_start="92384" e_stop="92326"/>
          <exon e_start="92096" e_stop="92080"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAATGCGAGAGATCATGGATCGTAATCCGGAGCTTGCTCACGTACTCAATGATCCTGCTACTCTTCGACAGACAATGGAGGCTGCACGAAACCCTGAACTTATGCGTGAGATGATGCGCAATACAGACAGGGCCATGAGCAATATTGAATCTTCTCCTGAGGGATTTAACATGCTGAGGCGTATGTATGAAAATGTTCAGGAGCCATTCCTAAATGCATCAACATTGTCTGGAGATACGCGAAATGATGCGGGGTCTAACCCGTTTGCAGCTCTTTTGGGAGCACAAGGTGGACTAGGCAGACAGCAGGCAAATAATCCTCCAACTGCTGGTTCTGAGACTACTGATAATCTGCCTGCCCCAAATACTAATCCACTTCCGAATCCTTGGGCATCTGCAGGCAGTTAGTTCTTATCATCTCTTATTCTTTAATCATTTTGACTAGCTAGAGTAAAACTGTGTACTTTTTTTTTCTTAAATGGTAATAATTGTATTCATAAAGCAGCACAAGGATTTTTGTACAAGTGGCGAAAAGAGCCAAAAACATAGCCCTCTTGTAAACTTTAGAGGGACTGCATGAATTCTTGTTAAGTTTCTGCCTCATTTGCATTTTGCCTTTTTACACCAAAAGGTCAAGTTACATGATACAATCTATACTTAATCATGTGCGCTGATTTTTGTCTCTCCTAAAAACATCTCGAAAGAGTCAAGTGTCTGCTTCTTTTGGTTTTCTTTTATTCTATATTTTTTAGTTTAACTGTTTACTTAATCTCTTGTTTTGACTTCTATAGAACTTGGGATGCTCCTGCAATTAATAGCTACCTTCTTTTTTCTCTTGTATTTCTTGAGATATTTTTGTACATCATTCTGCTAAGGTTGGGTATGAAGTTCTACTTGTGCAATTTGTGTTTACAACTTGAATTTAATGGTCATCAAGCACAATGATTTCTTATCAAAATTTGTTTGCTGCTTGTTTACTGTTAAACAATAAAAGATTGGTTGTCTTCCCTTTTAATTTTTCGTCTACTAAAATATTTTGAAGTTTCTTGTGAGCTTCTTAATGTTGATTTGAGGTATTTTAATCCTTCATGTTGTAGACATAATTATGGTGTAATCTTAGGATCCTTGAGTAATCATATTTTGTCATGCCGTATTTTTGACCTATATTTCTCACAGAGCCATGTTGTTGGATAAGTATGTATGATATGATTATGTTCTTACTTATACATTGACCTTTTCAGCTGGAGCTGCCCAAGCCAATACCGCTGCTAGGTCAAATACTGCTGGGGATACCAGGGGTGCACCACTTGGCCTAGGTGGGCTTGGTTCCCCAGGTTTGGAGCAAATGCTAGGCGGCATGCCTGATACTACTTCGCTAAATCAAATGATGCAGAACCCTGCCATCTCACAGATGATGCAGTCTCTCCTTTCAAATCCACAGTACATGAACCAGGTATTTATTTATTTGTCTGATTGAAAATTTGCGTGCAGTTGTTAAGTTTTGCTGTATTTCTGTTTCCTTTGACTCTCTTTGTCTCTACTGACAGTAAGTTTCTCATTTAACCTGGTGATTAGGTTTTAGGGATGAACCCACAGCTTAGAAGCATGCTTGATTCCAATCCACAGCTCAGAGAAATGATGCAAAATCCTGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAGGTAAAGAATACTTGCCACACTTAGAAGGTCTTGCTTGCTTAAAATATGCATCTGGTGCATGAGATATAGCAACTAAATGGCATGGGTGATCTCATTCAGTTTTGCTTGGTAACAGTACAACTTTTGTGACTTTTTATCATTAATAACACTTGAGAGGAGTGCATCCACTTGCAAGATAAACCTAATAGGGAGTATGAAATGACCCAAAGAGACCGTAAACCAAATACAAGTGAACAGCGGATGCCGACACAGTACTAAGAAAAAAACAGATTCTCGTCTACTCTTTTTCATTGCTATATTTCACAATGACATTACACCAATATGTGAATCCGTAGTTCTGGGGTAGTTGGTCCTGATAACTACACTTGGAACTCCGAAGAAAAAGAAAAAAGGAAGTGGGAGGGGGGTTAAACTGCTATTGTTGGAATGTTTGGTAAGAGAAATGGCTTTATGTGGGATGCAAAAAGAGGTTAATGTTTGTATGAGACTGAGATTTTGTTATAGTGTTCCTTTATAATCCATCTGCCTTCTTGTGACTTGTACATCTTTTTCTTTCTTTTTAGCAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCAGTAAGCTGGTTCTTAGTTTCTTGGATGGCAAAATGGTTCATGATTTATGTTATACGGGTTGCTTATTTTACTTGAATTATCAAACTCTTGCCTTTTTCACAAATAAGTTTGCCGGTGAAAAGAATTTTCCTCTCATATTTTCATTTTTACTTGCCAAAAGATGGAGAAATCCTATCTAGTTGAGATGAACTTGTTACTGTGTTGACAAAGTTTCTTTTACTACTTGCAGACAGCCGGGCCAAAATG</genome_strand>
        <mrna_strand>AAATGCGAGAGATCATGGATCGTAATCCGGAGCTTGCTCACGTACTCAATGATCCTGCTACTCTTCGACAGACAATGGAGGCTGCACGAAACCCTGAACTTATGCGTGAGATGATGCGCAATACAGACAGGGCCATGAGCAATATTGAATCTTCTCCTGAGGGATTTAACATGCTGAGGCGTATGTATGAAAATGTTCAGGAGCCATTCCTAAATGCATCAACATTGTCTGGAGATACGCGAAATGATGCGGGGTCTAACCCGTTTGCAGCTCTTTTGGGAGCACAAGGTGGACTAGGCAGACAGCAGGCAAATAATCCTCCAACTGCTGGTTCTGAGACTACTGATAATCTGCCTGCCCCAAATACTAATCCACTTCCGAATCCTTGGGCATCTGCAGGCA......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGGAGCTGCCCAAGCCAATACCGCTGCTAGGTCAAATACTGCTGGGGATACCAGGGGTGCACCACTTGGCCTAGGTGGGCTTGGTTCCCCAGGTTTGGAGCAAATGCTAGGCGGCATGCCTGATACTACTTCGCTAAATCAAATGATGCAGAACCCTGCCATCTCACAGATGATGCAGTCTCTCCTTTCAAATCCACAGTACATGAACCAG..........................................................................................................................GTTTTAGGGATGAACCCACAGCTTAGAAGCATGCTTGATTCCAATCCACAGCTCAGAGAAATGATGCAAAATCCTGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCA.....................................................................................................................................................................................................................................ACAGCCGGGCCAAAATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E322785" ref_strand="+" ref_description="SGN-E322785 [cTOB-30-K3]">
      <seq>ggggtctaacccgtttgcagctcttttgggagcacaaggtggactaggcagacagcaggcaaataatcctccaactgctggttctgagactactgataatctgcctgccccaaatactaatccacttccgaatccttgggcatctgcaggcactggagctgcccaagccaataccgctgctaggtcaaatactgctggggataccaggggtgcaccacttggcctaggtgggcttggttccccaggtttggagcaaatgctaggcggcatgcctgatactacttcgctaaatcaaatgatgcagaaccctgccatctcacagatgatgcagtctctcctttcaaatccacagtacatgaaccaggttttagggatgaacccacagcttagaagcatgcttgattccaatccacagctcagagaaatgatgcaaaatcctgaatttattcgtcaattgacatcgcctgagacagtgcagcaacttatgactttccagcaaggacttgcatctcaacttgggcgtcagcaaacaaaccaacagccgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="94685" stop="92017"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="94385" g_stop="94234" g_length="152"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="152" r_length="152" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="94233" i_stop="93396" i_length="838">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93395" g_stop="93184" g_length="212"/>
          <reference_exon_boundary r_type="cDNA" r_start="153" r_stop="364" r_length="212" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="93183" i_stop="93062" i_length="122">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="93061" g_stop="92948" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="365" r_stop="478" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="92947" i_stop="92385" i_length="563">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="92384" g_stop="92326" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="479" r_stop="537" r_length="59" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="92325" i_stop="92097" i_length="229">
            <donor d_prob="0.974" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="92096" g_stop="92089" g_length="8"/>
          <reference_exon_boundary r_type="cDNA" r_start="538" r_stop="545" r_length="8" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E322785" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>545</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E322785" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94385" e_stop="94234"/>
          <exon e_start="93395" e_stop="93184"/>
          <exon e_start="93061" e_stop="92948"/>
          <exon e_start="92384" e_stop="92326"/>
          <exon e_start="92096" e_stop="92089"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGGGTCTAACCCGTTTGCAGCTCTTTTGGGAGCACAAGGTGGACTAGGCAGACAGCAGGCAAATAATCCTCCAACTGCTGGTTCTGAGACTACTGATAATCTGCCTGCCCCAAATACTAATCCACTTCCGAATCCTTGGGCATCTGCAGGCAGTTAGTTCTTATCATCTCTTATTCTTTAATCATTTTGACTAGCTAGAGTAAAACTGTGTACTTTTTTTTTCTTAAATGGTAATAATTGTATTCATAAAGCAGCACAAGGATTTTTGTACAAGTGGCGAAAAGAGCCAAAAACATAGCCCTCTTGTAAACTTTAGAGGGACTGCATGAATTCTTGTTAAGTTTCTGCCTCATTTGCATTTTGCCTTTTTACACCAAAAGGTCAAGTTACATGATACAATCTATACTTAATCATGTGCGCTGATTTTTGTCTCTCCTAAAAACATCTCGAAAGAGTCAAGTGTCTGCTTCTTTTGGTTTTCTTTTATTCTATATTTTTTAGTTTAACTGTTTACTTAATCTCTTGTTTTGACTTCTATAGAACTTGGGATGCTCCTGCAATTAATAGCTACCTTCTTTTTTCTCTTGTATTTCTTGAGATATTTTTGTACATCATTCTGCTAAGGTTGGGTATGAAGTTCTACTTGTGCAATTTGTGTTTACAACTTGAATTTAATGGTCATCAAGCACAATGATTTCTTATCAAAATTTGTTTGCTGCTTGTTTACTGTTAAACAATAAAAGATTGGTTGTCTTCCCTTTTAATTTTTCGTCTACTAAAATATTTTGAAGTTTCTTGTGAGCTTCTTAATGTTGATTTGAGGTATTTTAATCCTTCATGTTGTAGACATAATTATGGTGTAATCTTAGGATCCTTGAGTAATCATATTTTGTCATGCCGTATTTTTGACCTATATTTCTCACAGAGCCATGTTGTTGGATAAGTATGTATGATATGATTATGTTCTTACTTATACATTGACCTTTTCAGCTGGAGCTGCCCAAGCCAATACCGCTGCTAGGTCAAATACTGCTGGGGATACCAGGGGTGCACCACTTGGCCTAGGTGGGCTTGGTTCCCCAGGTTTGGAGCAAATGCTAGGCGGCATGCCTGATACTACTTCGCTAAATCAAATGATGCAGAACCCTGCCATCTCACAGATGATGCAGTCTCTCCTTTCAAATCCACAGTACATGAACCAGGTATTTATTTATTTGTCTGATTGAAAATTTGCGTGCAGTTGTTAAGTTTTGCTGTATTTCTGTTTCCTTTGACTCTCTTTGTCTCTACTGACAGTAAGTTTCTCATTTAACCTGGTGATTAGGTTTTAGGGATGAACCCACAGCTTAGAAGCATGCTTGATTCCAATCCACAGCTCAGAGAAATGATGCAAAATCCTGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAGGTAAAGAATACTTGCCACACTTAGAAGGTCTTGCTTGCTTAAAATATGCATCTGGTGCATGAGATATAGCAACTAAATGGCATGGGTGATCTCATTCAGTTTTGCTTGGTAACAGTACAACTTTTGTGACTTTTTATCATTAATAACACTTGAGAGGAGTGCATCCACTTGCAAGATAAACCTAATAGGGAGTATGAAATGACCCAAAGAGACCGTAAACCAAATACAAGTGAACAGCGGATGCCGACACAGTACTAAGAAAAAAACAGATTCTCGTCTACTCTTTTTCATTGCTATATTTCACAATGACATTACACCAATATGTGAATCCGTAGTTCTGGGGTAGTTGGTCCTGATAACTACACTTGGAACTCCGAAGAAAAAGAAAAAAGGAAGTGGGAGGGGGGTTAAACTGCTATTGTTGGAATGTTTGGTAAGAGAAATGGCTTTATGTGGGATGCAAAAAGAGGTTAATGTTTGTATGAGACTGAGATTTTGTTATAGTGTTCCTTTATAATCCATCTGCCTTCTTGTGACTTGTACATCTTTTTCTTTCTTTTTAGCAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCAGTAAGCTGGTTCTTAGTTTCTTGGATGGCAAAATGGTTCATGATTTATGTTATACGGGTTGCTTATTTTACTTGAATTATCAAACTCTTGCCTTTTTCACAAATAAGTTTGCCGGTGAAAAGAATTTTCCTCTCATATTTTCATTTTTACTTGCCAAAAGATGGAGAAATCCTATCTAGTTGAGATGAACTTGTTACTGTGTTGACAAAGTTTCTTTTACTACTTGCAGACAGCCGG</genome_strand>
        <mrna_strand>GGGGTCTAACCCGTTTGCAGCTCTTTTGGGAGCACAAGGTGGACTAGGCAGACAGCAGGCAAATAATCCTCCAACTGCTGGTTCTGAGACTACTGATAATCTGCCTGCCCCAAATACTAATCCACTTCCGAATCCTTGGGCATCTGCAGGCA......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGGAGCTGCCCAAGCCAATACCGCTGCTAGGTCAAATACTGCTGGGGATACCAGGGGTGCACCACTTGGCCTAGGTGGGCTTGGTTCCCCAGGTTTGGAGCAAATGCTAGGCGGCATGCCTGATACTACTTCGCTAAATCAAATGATGCAGAACCCTGCCATCTCACAGATGATGCAGTCTCTCCTTTCAAATCCACAGTACATGAACCAG..........................................................................................................................GTTTTAGGGATGAACCCACAGCTTAGAAGCATGCTTGATTCCAATCCACAGCTCAGAGAAATGATGCAAAATCCTGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCA.....................................................................................................................................................................................................................................ACAGCCGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E290020" ref_strand="+" ref_description="SGN-E290020 [cLET-5-G9]">
      <seq>agcacaaggtggactaggcagacagcaggcaaataatcctccaactgctggttctgagactactgataatctgcctgccccaaatactaatccacttccgaatccttgggcatctgcagctggagctgcccaagccaataccgctgctaggtcaaatactgctggggataccaggggtgcaccacttggcctaagtgggcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="94655" stop="93012"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="94355" g_stop="94237" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="119" r_length="119" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="94236" i_stop="93396" i_length="841">
            <donor d_prob="0.985" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="93395" g_stop="93312" g_length="84"/>
          <reference_exon_boundary r_type="cDNA" r_start="120" r_stop="203" r_length="84" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E290020" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>203</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E290020" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94355" e_stop="94237"/>
          <exon e_start="93395" e_stop="93312"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCACAAGGTGGACTAGGCAGACAGCAGGCAAATAATCCTCCAACTGCTGGTTCTGAGACTACTGATAATCTGCCTGCCCCAAATACTAATCCACTTCCGAATCCTTGGGCATCTGCAGGCAGTTAGTTCTTATCATCTCTTATTCTTTAATCATTTTGACTAGCTAGAGTAAAACTGTGTACTTTTTTTTTCTTAAATGGTAATAATTGTATTCATAAAGCAGCACAAGGATTTTTGTACAAGTGGCGAAAAGAGCCAAAAACATAGCCCTCTTGTAAACTTTAGAGGGACTGCATGAATTCTTGTTAAGTTTCTGCCTCATTTGCATTTTGCCTTTTTACACCAAAAGGTCAAGTTACATGATACAATCTATACTTAATCATGTGCGCTGATTTTTGTCTCTCCTAAAAACATCTCGAAAGAGTCAAGTGTCTGCTTCTTTTGGTTTTCTTTTATTCTATATTTTTTAGTTTAACTGTTTACTTAATCTCTTGTTTTGACTTCTATAGAACTTGGGATGCTCCTGCAATTAATAGCTACCTTCTTTTTTCTCTTGTATTTCTTGAGATATTTTTGTACATCATTCTGCTAAGGTTGGGTATGAAGTTCTACTTGTGCAATTTGTGTTTACAACTTGAATTTAATGGTCATCAAGCACAATGATTTCTTATCAAAATTTGTTTGCTGCTTGTTTACTGTTAAACAATAAAAGATTGGTTGTCTTCCCTTTTAATTTTTCGTCTACTAAAATATTTTGAAGTTTCTTGTGAGCTTCTTAATGTTGATTTGAGGTATTTTAATCCTTCATGTTGTAGACATAATTATGGTGTAATCTTAGGATCCTTGAGTAATCATATTTTGTCATGCCGTATTTTTGACCTATATTTCTCACAGAGCCATGTTGTTGGATAAGTATGTATGATATGATTATGTTCTTACTTATACATTGACCTTTTCAGCTGGAGCTGCCCAAGCCAATACCGCTGCTAGGTCAAATACTGCTGGGGATACCAGGGGTGCACCACTTGGCCTAGGTGGGCTTG</genome_strand>
        <mrna_strand>AGCACAAGGTGGACTAGGCAGACAGCAGGCAAATAATCCTCCAACTGCTGGTTCTGAGACTACTGATAATCTGCCTGCCCCAAATACTAATCCACTTCCGAATCCTTGGGCATCTGCAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGGAGCTGCCCAAGCCAATACCGCTGCTAGGTCAAATACTGCTGGGGATACCAGGGGTGCACCACTTGGCCTAAGTGGGCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E719310" ref_strand="+" ref_description="SGN-E719310 [FC07BH04]">
      <seq>ggcgattggcggccaatcggccgaattgggatagggcttttcctttctttgcaatttgctttcttcaattcaactgaattttcccctcccaaaaattgcagcaataagggaggagtatgagtatgggaggcggagatgctagtgttccggcgggagacagcggcgattcaaacaaggtgagtaacaccggcgccggcggaggtgttacaatcaacatccgatgttctagtggctcgaaattctctgtgcaggtcagcctcgattctaccgtcggatcgttcaagtctattcttgcacaacaagccaacattcctgctgagcaacagagattgatctataaaggtcggatcttaaaggatgagcaaacactagaaagctacggtctggaggcagatcacacggttcatttagttcgaggttctgccccagctccctctgcaaaccctgcatgtgcacccaatgttggaggtccaaatactgctcagaatgcaccaagaagtgctgcttctgatgcaggtggaccatttccaggatcaggccttggagcttcaatgtttcctggtcttggaagtggtggcggcggcggtttgtttggagctggtcttccagattttgagcaggtccagcagcagttgactcaaaaccctgacatgatgagagatatgatgaatatgcctctggttcagaatttaatgaataaccctgaaaccatccgtaacttgatcatgaacaatccccaaatgcgagagatcatggatcgtaatccggagcttgctcacgtactcaatgatcctgctactcttcgacagacaatggaggctgcacgaaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="101322" stop="94244"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="101021" g_stop="100671" g_length="351"/>
          <reference_exon_boundary r_type="cDNA" r_start="31" r_stop="381" r_length="351" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="100670" i_stop="94993" i_length="5678">
            <donor d_prob="0.982" d_score="1.00"/>
            <acceptor a_prob="0.986" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94992" g_stop="94544" g_length="449"/>
          <reference_exon_boundary r_type="cDNA" r_start="382" r_stop="830" r_length="449" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E719310" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>800</cumulative_length_of_scored_exons>
        <coverage percentage="0.964" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E719310" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="101021" e_stop="100671"/>
          <exon e_start="94992" e_stop="94544"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATAGGGCTTTTACTTTCTTTGCAATTTGCTTTCTTCAATTCAACTGAATTTTCACCTCCCAAAAATTGCAGCAATAAGGGAGGAGTATGAGTATGGGAGGCGGAGATGCTAGTGTTCCGGCGGGAGACAGCGGCGATTCAAACAAGGTGAGTAACACCGGCGCCGGCGGAGGTGTTACAATCAACATCCGATGTTCTAGTGGCTCGAAATTCTCTGTGCAGGTCAGCCTCGATTCTACCGTCGGATCGTTCAAGTCTATTCTTGCACAACAAGCCAACATTCCTGCTGAGCAACAGAGATTGATCTATAAAGGTCGGATCTTAAAGGATGAGCAAACACTAGAAAGCTACGGTATGTTAATTATAGGCTCTTTTAATTTTATTTTATGGCGGAGCTGATAAATTGCTGGTGCGTTATTAATATATTTTGGAGATTTTGTTTGAGTTTAATTGCACTGTTATAATTCAGAGTTGGAATTGTGATGACAAAATTAGCACAGCTCAATAAAAAACTAAAATGAAAGTGCAGAGGATAGAACTAATTAGAAGCAAACTCAATCTAAGAACATCACCATTAATTTGACCCACAAAGATACCTCGTACTTGTGTGTAAGAATATAGCTCAGCTATGATGATGAAGAACACTTGAATAGCGAAGAGGAAATGAATTGAGATAGATAGATAGAGAGACGGAATTTCCAAAATATTTCCCGACTCTGCACAGTAATTTCACTGTGTTTATATTAGGGGTGTGGTCTAATCCCTTGAGGATGGTTCCCATGTGACCTATTTAGCTTGATCTGCTCATCTGGATCATGATAATACTTCCAACTTGAAATTTGCCTTTTCCTAAAAGTCACGTATATTTTACATGTAATATATTCTCATTTATACGATCATGTATGGATCCATTAGTTCCCAACTGTAGAAACTAGGATATTGGAACCTAGAGGACAAGATGATGCAATAATCAACCCTTCTTCAATGTTCCCCTTTTGCATACCTGTTCATACCCAAGGACTTTTGGGACTTCATGGTTCAGCTTTAGAAGATCTAATTGATGCTTACTAAATCAATTGCGTTGTCTTTTTCCGCAGTTAAATTGTCCCTTATAAATCAATTCCATAGTCTGAATGTGCTATAGCTAAGTGTCCAATAGTTGGATGGCATGCATGTTAGCCGCATCATGTAACATTGCACCAGATGCATTTCGGATCGAGACAACTGGAGAATTAAGGTTGTGAAGCCACATAAAAAGTGATGAGCGAAGAAACCCACACGAAAGACATCATTGTCTATGCGCATAGGAAATATACTACTCTCATTAGTAAATTACCCGTTCTGCTAATTGTCCTAAAATAGTCCTGTTGTACCAATATTGCCAGCTTTCTTCGATGAATTTTTAGTGTGTAATTCATATACCATTTTTTTTTTGCAAGTTCTCACATGAAAAATCTATGACAACAGAAATAAACCCTTCACTTTGAGAGTCCGCTATAAGGAAAAACCTTCTAATCGAAGGATTCTGGCTAAAACTTGGTCCAAGTTTTGACTACCAACATAAACAACCATAGGTGTGATTCAAGGAAGCGGGCGCTCATTCTTTATACTATTGTGCAGCTCCAATATAGCTCTCATTTCCGCAATCTGGAGTTTGCATTTATGATACCTAAGACATACCCAAGGTTTCCTTTCATCTTCATCTGGAGGTCCCTTCAGAAAGCTTGAATGAGGAGCACCCTGGGGGGATGTGCTAACAGAGAATGTGAATTCTGTAATCAGCACAGAAAATCAGAAACTGCCTATTAGCTTCTTAGTTAGCAACTTATCATAAAAACCATTCACTTCTTCCCACATGCTGTGTAGCAACTAGCAAGGGATCACAAGTGTAAATGGTTGGGTGTACTTTCCTCTTCTGGAATATCATGAATTTCCTTGGAATCCGAAGTCCTTAGTCTTCCTGTCTGTCAGTCTCATCATCCTTATGCACAATTCTTCCTAAACCTCTAATGTCAAAACTCTTGACTTTGACTTTGCCGTTTGCTAAATAAGATGTCTGTGTCTGGACTCTGGAGTTGTTCCAGCATGCTTTTCAGTACTATCACCATAGTCTTTAGGAAGATCTACAACTTCTACTTTGATCTCAACCAAGTCTGTTCCACCTTGGTCACGAGAGATAAAACCATTACTACTTCCATTTCCTGCTGGAATAGTAGTGTTGTCAGACATATCTATATGGATTGAAGCAATATAGTTCTCTGCCACATGCATGTTTACATCAGTCCAAGCAGTTAATCCTTGTGAAAGTTCAGCACCAGTAGACACATTTTCATGAACGAGGCTATCATTGCACTATTTTCCAAAATTTGTAGTGTACTAGGATATGAATGGGTTGAGAATATAGCTGGGAGGTAGAAGTTTTAAAGACCACTTGGCTCCTTTTAAGGAAAGCCTCAAAAGCCTTTTCCTGCAACCTTGCCTGCTAAATTGTTTGGTCAAAGTGGTAGGCCTAAATACCATGATAGACATCTTAATTTCTTCTTTCAGTCCATCTGTGAAACTTGAAAGAAAGTAGGCGTTATTGACGTGTTGTACTGCAGATCAGTCATCTGCACCCCAAGGCCTTCAAACTTCTCAAAGGTACACTTCAGCAGATCCCTTTTGAGCCAGCCTAATCAACTTTTCTTCAAGGTATCTATTGTGTGTGGTGGATGATCCTCTTCCCTACTTTAAACTTCATTTCTAAGCCTGTCATTTTAGACTAAGTTTCACGGACTGGGTGCGGTTATCCAACATGGTTGCGAATCTGATGGTCGGATTCGGCGAAATTTTAATTTTAAGATTCAGGTACAAATATAGGTTCTGGGATTCAACTAAAAGAATTCCAAAATTATTAAGTAGAGTTGTAAAGATCTTCTAGGTCGTCTTCACCAAATCCTCAACTTCTTCTTTCATGCTCTCTGGTTCTTCCCTCAAAAAAGAAAAAGAAAGTCATTCAAGCAAGGCCTTCCACCAGCTCTCCTTACAGATCATTGCTAGTGTCTTCCAGAAGTTAGAATACAACCGCTTGAATTCTTAGTTTCTCTTCGTTTGGCCTGAAACATGAAGCAACAAATATTGACAAAGAGGAAAAGCTAAAAAGGACTATAATATTGAAGGTATGCCATTTCATTCTGAAAGGGTAGTTCAAGTGGAAAGCTACCTCCACCTTCAACCTTGAGGTTGAGGGGTTGGGTTCGGTCAGGAAGGGAGCAAGTGAAGAGGGCCAATATTGACTCCGAAGGAGAGGGGTTGAGGTTGGTAGATGTAGGTTATCGTATTTAAAATAACAACAAAGAGAACTACCAAATTCAAGGTAATTGAACTGAAAAAGAAATAAACAGTAATGAAATTTGAACTTTGAACAACCAGATAAAGCTTTCAAATCTGCAGAACGAAAGGAAAGAAGCGAGAAGAGGAGAAAGGAATTCAGAAGAACGGTGTGAAGGATCCGGAATTCTACTATGCCTCTCTCTCTGCTTTAGCTAGATTGTTATATTAACTACCCTTAGATCTCCACCATTCAAGTTTCTTAAGCCAGAGGTAATCCTGACCGTCCACGTCTCCCAATGTTTTATTTGAAATTTCCCGGCTTGCTTAGTTGGTCTTGGTATCGAACCCTTTTGAGCCCATTACATATGGATGTAAATTTCTTCTGATAGAGGATTGGTAGCATGCGGTTTCAATTTGGTTATCGAACGAAACCGGCAAATTGGAGGTGTGAAATGAATATTGAAGATTAAGGAGTGTTATCAAAGGTGCTCGCCTTAGTGCCTTTTGGAGAGAGATGAGGAGTCGGTGTGTCACCTTTCGTTGTGGGGCGAGAGATATGAAAAGGGCGAGCGGAGGTGCTGAGGCTTTTTCTGGAAAAGAAAGAGACTACAGCTTTTAATACTTAAAATTTTATTTTTAGAGTTCTTTTCCACTTACCTCTTTTGAGTCGATTACGCGACTGTGTTCAACTTAGTTCTCCATCTTTGTCTTCAGACTTCAGCTGTGTGCAAAGGTACGCTTCTTCTCTTTTCTTCCTTCTCCTTTCTGCCAACTGGGTACTGGCAGATTCTTTTCTTCTTTCTTCCTCTTTTACTTTCTCCTCTGTTTCCAGCTCTTTCGTTTTCTTTTTTCTTCTTGCATATCTTCTTCTTTCCCTTTTTTTTTCTAATTTCTGCTAATCCGGTTTTTTCCTTTTCATTTGCTAGTCCATTTATTTTTATTTTCTACCCAATTGAGTTTAGTTTAATACTGATTAATACATTAATTTTTTTTTGATGAATTAAATATTCCATTGAAGAAGATGCAAATTAGTTACAAATGTAGAAGCAAAAACAGTAAGATGTTTTTGCCTATAAATAGTAAGATGTTATTGCTGTTGAGATTTAATGTATAATTGATACATTAATTTTTTGCCTATAAACATTAAGATGTTATTTTTATTTAGATTTTGGTTATTTATATATGCAATTAAATATTTTAACTTTTTGGTATTAATTGGCGCCTCACTTCTAAAAGGTGAGCGCCTTGCCTCTTGCCTCGGTGAGGAACGCCGTTGTCGTCTTACGTCTTCCAAAACACCTAATGACCATCTCCCCAACTAGCTTCAAAATAAATGTGTAGTAGTAGTTGTTGGTTCTGTATTGAATTTTTGTGTTAGGGTATTGCATTTAATATTTCTTTACTATAATGATCGTCTTACGTCTTCTAAAGGACTCTACTAGTCTTTGGGATCTCCCAATCATTTAGGGGCCTTCTAGAACTCATATTCCGTCCCTGCTTTGACCAAACTTCTGCCACGGTGCCCCTTTGTTGGCTTCGATATATGTAGCAAGTATACAGTCTGCTAATATGCTTTTAGTATCTACTTCTAAGCAACACAAGTGTTTCTTGATAAAAAGAACATCGGCATTTGGTTTACTTGATAACATGTTAACAAGGCAGTGAAAGTGAGGTGCTGCCCGGGAGGAGTGGATTAGTGGTTTGTTCAATGTGCAAGAACGCCCACATGAGCTGTTTGGCAAATAATAGAGGGGTAGTCCTAGTTTCGAAAAATGATTGTTTGGAAGATTTAGGTTGATGTTGGGATTGTTCGCATGATAATGCCAAACATGCTAACCAGGGAGGTGGGGTAATATCTTCTTTGGCTTGGCTTGGTTGTTAGTGCCATCAATTTAGAAACTGACTAGTAGAACGTGTACACTGCTGTTAGCCTCAAGTGTCTGGGATATTGAGGGGATAACTAAGGAGTTCTGAAGTAATTGCTTTGACTTGTGGGAAGCTCTTGTTAAACTATAGTGTACTAGTAGACCATTTAAAACTAAAAAGCTTGTTAAATGGGATGTGACATGAATTGACAAGTATATGTAAACCTAAGAGACACGAGGTCTTTTTTGTTGTTTTACAGTGTTCACTCTATCATAGTGTTCGACTTTGTACTAGTTGTACTTGAAAAGTTGCATTAGTATTTAGTATATACTGGAAAGATGTTGTGCCATTGGATTTTTCCCTTCTCTAAAGAAGAACACTAAAAATGTGAAGTGAGCTGGGTAAAGTGGGGCTTGTATGACTTGTTGAATGTAATATGTGATTTCACTTTCCTTGGGACATTAAGCTGTATTGATGTCATATCTTCTTTTTTTCTTTTGAGTGTGAAAGGTGTAAAAGTTTGGGCTTATGCGACTCTTTGTTGGATGTATTGTGTGGTTCCACCCTCCTTGAGACACACAGTTTTGCATGGAAGGAATATCTTCTTTTACCTGTGATTAATTTCTACTTCTGCATCATTTGTTACACGAAGATACTCCAACGCCTATCAAGTTGTTCACAATCGGTTAATTATCACTTCAAAATGTTCAAGATTGAGTTTAGAAGTGGTACACCGTTAGCACTCAGTGCTGAACTTCAGTTATATCTGCTTTTGCATCGGCATGTAACAATTTATCAAGCTGTCGGTGATAATTGTGGTGATCTAGCTTATTTTAACTTTGTGCTTGATAGGTCTGGAGGCAGATCACACGGTTCATTTAGTTCGAGGTTCTGCCCCAGCTCCCTCTGCAAACCCTGCATGTGCACCCAATGTTGGAGGTCCAAATACTGCTCAGAATGCACCAAGAAGTGCTGCTTCTGATGCAGGTGGACCATTTCCAGGATCAGGCCTTGGAGCTTCAATGTTTCCTGGTCTTGGAAGTGGCGGCGGCGGCGGTTTGTTTGGAGCTGGTCTTCCAGATTTTGAGCAGGTCCAGCAGCAGTTGACTCAAAACCCTGACATGATGAGAGATATGATGAATATGCCTCTGGTTCAGAATTTAATGAATAACCCTGAAACCATCCGTAACTTGATCATGAACAATCCCCAAATGCGAGAGATCATGGATCGTAATCCGGAGCTTGCTCACGTACTCAATGATCCTGCTACTCTTCGACAGACAATGGAGGCTGCACGAAAC</genome_strand>
        <mrna_strand>ATAGGGCTTTTCCTTTCTTTGCAATTTGCTTTCTTCAATTCAACTGAATTTTCCCCTCCCAAAAATTGCAGCAATAAGGGAGGAGTATGAGTATGGGAGGCGGAGATGCTAGTGTTCCGGCGGGAGACAGCGGCGATTCAAACAAGGTGAGTAACACCGGCGCCGGCGGAGGTGTTACAATCAACATCCGATGTTCTAGTGGCTCGAAATTCTCTGTGCAGGTCAGCCTCGATTCTACCGTCGGATCGTTCAAGTCTATTCTTGCACAACAAGCCAACATTCCTGCTGAGCAACAGAGATTGATCTATAAAGGTCGGATCTTAAAGGATGAGCAAACACTAGAAAGCTACG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCTGGAGGCAGATCACACGGTTCATTTAGTTCGAGGTTCTGCCCCAGCTCCCTCTGCAAACCCTGCATGTGCACCCAATGTTGGAGGTCCAAATACTGCTCAGAATGCACCAAGAAGTGCTGCTTCTGATGCAGGTGGACCATTTCCAGGATCAGGCCTTGGAGCTTCAATGTTTCCTGGTCTTGGAAGTGGTGGCGGCGGCGGTTTGTTTGGAGCTGGTCTTCCAGATTTTGAGCAGGTCCAGCAGCAGTTGACTCAAAACCCTGACATGATGAGAGATATGATGAATATGCCTCTGGTTCAGAATTTAATGAATAACCCTGAAACCATCCGTAACTTGATCATGAACAATCCCCAAATGCGAGAGATCATGGATCGTAATCCGGAGCTTGCTCACGTACTCAATGATCCTGCTACTCTTCGACAGACAATGGAGGCTGCACGAAAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E540573" ref_strand="+" ref_description="SGN-E540573 [TUS-60-O17]">
      <seq>ttgcaatttgctttcttcaattcaactgaattttcacctcccaaaaattgcagcaataagggaggagtatgagtatgggaggcggagatgctagtgttccggcgggagacagcggcgattcaaacaaggtgagtaacaccggcgccggcggaggtgttacaatcaacatccgatgttctagtggctcgaaattctctgtgcaggtcagcctcgattctaccgtcggatcgttcaagtctattcttgcacaacaagccaacattcctgctgagcaacagagattgatctataaaggtcggatcttaaaggatgagcaaacactagaaagctacggtctggaggcagatcacacggttcatttagttcgaggttctgccccagctccctctgcaaaccctgcatgtgcacccaatgttggaggtccaaatactgctcagaatgcaccaagaagtgctgcttctgatgcaggtggaccatttccaggatcaggccttggagcttcaatgtttcctggtcttggaagtggcggcggcggcggtttgtttggagctggtcttccagattttgagcaggtccagcagcagttgactcaaaaccctgacatgatgagagatatgatgaatatgcctctggttcagagtttaatgaataaccctgaaaccatccgtaacttgatcatgaacaatccccaaatgcgagagatcatggatcgtaatcgggagcttgctcacgtactcaatgatcctgctactctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="101303" stop="94271"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="101003" g_stop="100671" g_length="333"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="333" r_length="333" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="100670" i_stop="94993" i_length="5678">
            <donor d_prob="0.982" d_score="1.00"/>
            <acceptor a_prob="0.986" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94992" g_stop="94571" g_length="422"/>
          <reference_exon_boundary r_type="cDNA" r_start="334" r_stop="755" r_length="422" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E540573" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>755</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E540573" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="101003" e_stop="100671"/>
          <exon e_start="94992" e_stop="94571"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGCAATTTGCTTTCTTCAATTCAACTGAATTTTCACCTCCCAAAAATTGCAGCAATAAGGGAGGAGTATGAGTATGGGAGGCGGAGATGCTAGTGTTCCGGCGGGAGACAGCGGCGATTCAAACAAGGTGAGTAACACCGGCGCCGGCGGAGGTGTTACAATCAACATCCGATGTTCTAGTGGCTCGAAATTCTCTGTGCAGGTCAGCCTCGATTCTACCGTCGGATCGTTCAAGTCTATTCTTGCACAACAAGCCAACATTCCTGCTGAGCAACAGAGATTGATCTATAAAGGTCGGATCTTAAAGGATGAGCAAACACTAGAAAGCTACGGTATGTTAATTATAGGCTCTTTTAATTTTATTTTATGGCGGAGCTGATAAATTGCTGGTGCGTTATTAATATATTTTGGAGATTTTGTTTGAGTTTAATTGCACTGTTATAATTCAGAGTTGGAATTGTGATGACAAAATTAGCACAGCTCAATAAAAAACTAAAATGAAAGTGCAGAGGATAGAACTAATTAGAAGCAAACTCAATCTAAGAACATCACCATTAATTTGACCCACAAAGATACCTCGTACTTGTGTGTAAGAATATAGCTCAGCTATGATGATGAAGAACACTTGAATAGCGAAGAGGAAATGAATTGAGATAGATAGATAGAGAGACGGAATTTCCAAAATATTTCCCGACTCTGCACAGTAATTTCACTGTGTTTATATTAGGGGTGTGGTCTAATCCCTTGAGGATGGTTCCCATGTGACCTATTTAGCTTGATCTGCTCATCTGGATCATGATAATACTTCCAACTTGAAATTTGCCTTTTCCTAAAAGTCACGTATATTTTACATGTAATATATTCTCATTTATACGATCATGTATGGATCCATTAGTTCCCAACTGTAGAAACTAGGATATTGGAACCTAGAGGACAAGATGATGCAATAATCAACCCTTCTTCAATGTTCCCCTTTTGCATACCTGTTCATACCCAAGGACTTTTGGGACTTCATGGTTCAGCTTTAGAAGATCTAATTGATGCTTACTAAATCAATTGCGTTGTCTTTTTCCGCAGTTAAATTGTCCCTTATAAATCAATTCCATAGTCTGAATGTGCTATAGCTAAGTGTCCAATAGTTGGATGGCATGCATGTTAGCCGCATCATGTAACATTGCACCAGATGCATTTCGGATCGAGACAACTGGAGAATTAAGGTTGTGAAGCCACATAAAAAGTGATGAGCGAAGAAACCCACACGAAAGACATCATTGTCTATGCGCATAGGAAATATACTACTCTCATTAGTAAATTACCCGTTCTGCTAATTGTCCTAAAATAGTCCTGTTGTACCAATATTGCCAGCTTTCTTCGATGAATTTTTAGTGTGTAATTCATATACCATTTTTTTTTTGCAAGTTCTCACATGAAAAATCTATGACAACAGAAATAAACCCTTCACTTTGAGAGTCCGCTATAAGGAAAAACCTTCTAATCGAAGGATTCTGGCTAAAACTTGGTCCAAGTTTTGACTACCAACATAAACAACCATAGGTGTGATTCAAGGAAGCGGGCGCTCATTCTTTATACTATTGTGCAGCTCCAATATAGCTCTCATTTCCGCAATCTGGAGTTTGCATTTATGATACCTAAGACATACCCAAGGTTTCCTTTCATCTTCATCTGGAGGTCCCTTCAGAAAGCTTGAATGAGGAGCACCCTGGGGGGATGTGCTAACAGAGAATGTGAATTCTGTAATCAGCACAGAAAATCAGAAACTGCCTATTAGCTTCTTAGTTAGCAACTTATCATAAAAACCATTCACTTCTTCCCACATGCTGTGTAGCAACTAGCAAGGGATCACAAGTGTAAATGGTTGGGTGTACTTTCCTCTTCTGGAATATCATGAATTTCCTTGGAATCCGAAGTCCTTAGTCTTCCTGTCTGTCAGTCTCATCATCCTTATGCACAATTCTTCCTAAACCTCTAATGTCAAAACTCTTGACTTTGACTTTGCCGTTTGCTAAATAAGATGTCTGTGTCTGGACTCTGGAGTTGTTCCAGCATGCTTTTCAGTACTATCACCATAGTCTTTAGGAAGATCTACAACTTCTACTTTGATCTCAACCAAGTCTGTTCCACCTTGGTCACGAGAGATAAAACCATTACTACTTCCATTTCCTGCTGGAATAGTAGTGTTGTCAGACATATCTATATGGATTGAAGCAATATAGTTCTCTGCCACATGCATGTTTACATCAGTCCAAGCAGTTAATCCTTGTGAAAGTTCAGCACCAGTAGACACATTTTCATGAACGAGGCTATCATTGCACTATTTTCCAAAATTTGTAGTGTACTAGGATATGAATGGGTTGAGAATATAGCTGGGAGGTAGAAGTTTTAAAGACCACTTGGCTCCTTTTAAGGAAAGCCTCAAAAGCCTTTTCCTGCAACCTTGCCTGCTAAATTGTTTGGTCAAAGTGGTAGGCCTAAATACCATGATAGACATCTTAATTTCTTCTTTCAGTCCATCTGTGAAACTTGAAAGAAAGTAGGCGTTATTGACGTGTTGTACTGCAGATCAGTCATCTGCACCCCAAGGCCTTCAAACTTCTCAAAGGTACACTTCAGCAGATCCCTTTTGAGCCAGCCTAATCAACTTTTCTTCAAGGTATCTATTGTGTGTGGTGGATGATCCTCTTCCCTACTTTAAACTTCATTTCTAAGCCTGTCATTTTAGACTAAGTTTCACGGACTGGGTGCGGTTATCCAACATGGTTGCGAATCTGATGGTCGGATTCGGCGAAATTTTAATTTTAAGATTCAGGTACAAATATAGGTTCTGGGATTCAACTAAAAGAATTCCAAAATTATTAAGTAGAGTTGTAAAGATCTTCTAGGTCGTCTTCACCAAATCCTCAACTTCTTCTTTCATGCTCTCTGGTTCTTCCCTCAAAAAAGAAAAAGAAAGTCATTCAAGCAAGGCCTTCCACCAGCTCTCCTTACAGATCATTGCTAGTGTCTTCCAGAAGTTAGAATACAACCGCTTGAATTCTTAGTTTCTCTTCGTTTGGCCTGAAACATGAAGCAACAAATATTGACAAAGAGGAAAAGCTAAAAAGGACTATAATATTGAAGGTATGCCATTTCATTCTGAAAGGGTAGTTCAAGTGGAAAGCTACCTCCACCTTCAACCTTGAGGTTGAGGGGTTGGGTTCGGTCAGGAAGGGAGCAAGTGAAGAGGGCCAATATTGACTCCGAAGGAGAGGGGTTGAGGTTGGTAGATGTAGGTTATCGTATTTAAAATAACAACAAAGAGAACTACCAAATTCAAGGTAATTGAACTGAAAAAGAAATAAACAGTAATGAAATTTGAACTTTGAACAACCAGATAAAGCTTTCAAATCTGCAGAACGAAAGGAAAGAAGCGAGAAGAGGAGAAAGGAATTCAGAAGAACGGTGTGAAGGATCCGGAATTCTACTATGCCTCTCTCTCTGCTTTAGCTAGATTGTTATATTAACTACCCTTAGATCTCCACCATTCAAGTTTCTTAAGCCAGAGGTAATCCTGACCGTCCACGTCTCCCAATGTTTTATTTGAAATTTCCCGGCTTGCTTAGTTGGTCTTGGTATCGAACCCTTTTGAGCCCATTACATATGGATGTAAATTTCTTCTGATAGAGGATTGGTAGCATGCGGTTTCAATTTGGTTATCGAACGAAACCGGCAAATTGGAGGTGTGAAATGAATATTGAAGATTAAGGAGTGTTATCAAAGGTGCTCGCCTTAGTGCCTTTTGGAGAGAGATGAGGAGTCGGTGTGTCACCTTTCGTTGTGGGGCGAGAGATATGAAAAGGGCGAGCGGAGGTGCTGAGGCTTTTTCTGGAAAAGAAAGAGACTACAGCTTTTAATACTTAAAATTTTATTTTTAGAGTTCTTTTCCACTTACCTCTTTTGAGTCGATTACGCGACTGTGTTCAACTTAGTTCTCCATCTTTGTCTTCAGACTTCAGCTGTGTGCAAAGGTACGCTTCTTCTCTTTTCTTCCTTCTCCTTTCTGCCAACTGGGTACTGGCAGATTCTTTTCTTCTTTCTTCCTCTTTTACTTTCTCCTCTGTTTCCAGCTCTTTCGTTTTCTTTTTTCTTCTTGCATATCTTCTTCTTTCCCTTTTTTTTTCTAATTTCTGCTAATCCGGTTTTTTCCTTTTCATTTGCTAGTCCATTTATTTTTATTTTCTACCCAATTGAGTTTAGTTTAATACTGATTAATACATTAATTTTTTTTTGATGAATTAAATATTCCATTGAAGAAGATGCAAATTAGTTACAAATGTAGAAGCAAAAACAGTAAGATGTTTTTGCCTATAAATAGTAAGATGTTATTGCTGTTGAGATTTAATGTATAATTGATACATTAATTTTTTGCCTATAAACATTAAGATGTTATTTTTATTTAGATTTTGGTTATTTATATATGCAATTAAATATTTTAACTTTTTGGTATTAATTGGCGCCTCACTTCTAAAAGGTGAGCGCCTTGCCTCTTGCCTCGGTGAGGAACGCCGTTGTCGTCTTACGTCTTCCAAAACACCTAATGACCATCTCCCCAACTAGCTTCAAAATAAATGTGTAGTAGTAGTTGTTGGTTCTGTATTGAATTTTTGTGTTAGGGTATTGCATTTAATATTTCTTTACTATAATGATCGTCTTACGTCTTCTAAAGGACTCTACTAGTCTTTGGGATCTCCCAATCATTTAGGGGCCTTCTAGAACTCATATTCCGTCCCTGCTTTGACCAAACTTCTGCCACGGTGCCCCTTTGTTGGCTTCGATATATGTAGCAAGTATACAGTCTGCTAATATGCTTTTAGTATCTACTTCTAAGCAACACAAGTGTTTCTTGATAAAAAGAACATCGGCATTTGGTTTACTTGATAACATGTTAACAAGGCAGTGAAAGTGAGGTGCTGCCCGGGAGGAGTGGATTAGTGGTTTGTTCAATGTGCAAGAACGCCCACATGAGCTGTTTGGCAAATAATAGAGGGGTAGTCCTAGTTTCGAAAAATGATTGTTTGGAAGATTTAGGTTGATGTTGGGATTGTTCGCATGATAATGCCAAACATGCTAACCAGGGAGGTGGGGTAATATCTTCTTTGGCTTGGCTTGGTTGTTAGTGCCATCAATTTAGAAACTGACTAGTAGAACGTGTACACTGCTGTTAGCCTCAAGTGTCTGGGATATTGAGGGGATAACTAAGGAGTTCTGAAGTAATTGCTTTGACTTGTGGGAAGCTCTTGTTAAACTATAGTGTACTAGTAGACCATTTAAAACTAAAAAGCTTGTTAAATGGGATGTGACATGAATTGACAAGTATATGTAAACCTAAGAGACACGAGGTCTTTTTTGTTGTTTTACAGTGTTCACTCTATCATAGTGTTCGACTTTGTACTAGTTGTACTTGAAAAGTTGCATTAGTATTTAGTATATACTGGAAAGATGTTGTGCCATTGGATTTTTCCCTTCTCTAAAGAAGAACACTAAAAATGTGAAGTGAGCTGGGTAAAGTGGGGCTTGTATGACTTGTTGAATGTAATATGTGATTTCACTTTCCTTGGGACATTAAGCTGTATTGATGTCATATCTTCTTTTTTTCTTTTGAGTGTGAAAGGTGTAAAAGTTTGGGCTTATGCGACTCTTTGTTGGATGTATTGTGTGGTTCCACCCTCCTTGAGACACACAGTTTTGCATGGAAGGAATATCTTCTTTTACCTGTGATTAATTTCTACTTCTGCATCATTTGTTACACGAAGATACTCCAACGCCTATCAAGTTGTTCACAATCGGTTAATTATCACTTCAAAATGTTCAAGATTGAGTTTAGAAGTGGTACACCGTTAGCACTCAGTGCTGAACTTCAGTTATATCTGCTTTTGCATCGGCATGTAACAATTTATCAAGCTGTCGGTGATAATTGTGGTGATCTAGCTTATTTTAACTTTGTGCTTGATAGGTCTGGAGGCAGATCACACGGTTCATTTAGTTCGAGGTTCTGCCCCAGCTCCCTCTGCAAACCCTGCATGTGCACCCAATGTTGGAGGTCCAAATACTGCTCAGAATGCACCAAGAAGTGCTGCTTCTGATGCAGGTGGACCATTTCCAGGATCAGGCCTTGGAGCTTCAATGTTTCCTGGTCTTGGAAGTGGCGGCGGCGGCGGTTTGTTTGGAGCTGGTCTTCCAGATTTTGAGCAGGTCCAGCAGCAGTTGACTCAAAACCCTGACATGATGAGAGATATGATGAATATGCCTCTGGTTCAGAATTTAATGAATAACCCTGAAACCATCCGTAACTTGATCATGAACAATCCCCAAATGCGAGAGATCATGGATCGTAATCCGGAGCTTGCTCACGTACTCAATGATCCTGCTACTCTT</genome_strand>
        <mrna_strand>TTGCAATTTGCTTTCTTCAATTCAACTGAATTTTCACCTCCCAAAAATTGCAGCAATAAGGGAGGAGTATGAGTATGGGAGGCGGAGATGCTAGTGTTCCGGCGGGAGACAGCGGCGATTCAAACAAGGTGAGTAACACCGGCGCCGGCGGAGGTGTTACAATCAACATCCGATGTTCTAGTGGCTCGAAATTCTCTGTGCAGGTCAGCCTCGATTCTACCGTCGGATCGTTCAAGTCTATTCTTGCACAACAAGCCAACATTCCTGCTGAGCAACAGAGATTGATCTATAAAGGTCGGATCTTAAAGGATGAGCAAACACTAGAAAGCTACG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCTGGAGGCAGATCACACGGTTCATTTAGTTCGAGGTTCTGCCCCAGCTCCCTCTGCAAACCCTGCATGTGCACCCAATGTTGGAGGTCCAAATACTGCTCAGAATGCACCAAGAAGTGCTGCTTCTGATGCAGGTGGACCATTTCCAGGATCAGGCCTTGGAGCTTCAATGTTTCCTGGTCTTGGAAGTGGCGGCGGCGGCGGTTTGTTTGGAGCTGGTCTTCCAGATTTTGAGCAGGTCCAGCAGCAGTTGACTCAAAACCCTGACATGATGAGAGATATGATGAATATGCCTCTGGTTCAGAGTTTAATGAATAACCCTGAAACCATCCGTAACTTGATCATGAACAATCCCCAAATGCGAGAGATCATGGATCGTAATCGGGAGCTTGCTCACGTACTCAATGATCCTGCTACTCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E291206" ref_strand="+" ref_description="SGN-E291206 [cLET-2-M11]">
      <seq>tgcaatttgctttcttcaattcaactgaattttcacctcccaaaaattgcagcaataagggaggagtatgagtatgggaggcggagatgctagtgttccggcgggagacagcggcgattcaaacaaggtgagtaacaccggcgccggcggaggtgttacaatcaacatccgatgttctagtggctcgaaattctctgtgcaggtcagcctcgattctaccgtcggatcgttcaagtctattcttgcacaacaagccaacattcctgctgagcaacagagattgatctataaaggtcggatcttaaaggatgagcaaacactagaaagctacggtctggaggcagatcacacggttcatttagttcgaggttctgccccagctccctctgcaaaccctgcatgtgcacccaatgttggaggtccaaatactgctcagaatgcaccaagaagtgctgcttctgatgcaggtggaccatttccaggatcaggccttggagcttcaatgtttcctggtcttggaagtggcggcggcggcggtttgtttggagctggtcttccagattatgagcaggtccagcagcagttgactcaaaaccctgacatgatgagagatatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0176B05-TIpyD/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C03HBa0176B05.1" temp_strand="-" temp_description="C03HBa0176B05.1  AC238459.1 htgs_phase:2 submitted_to_sgn_as:gi|260064227|gb|AC238459.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0176b05, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="101302" stop="94409"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="101002" g_stop="100671" g_length="332"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="332" r_length="332" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="100670" i_stop="94993" i_length="5678">
            <donor d_prob="0.982" d_score="1.00"/>
            <acceptor a_prob="0.986" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94992" g_stop="94709" g_length="284"/>
          <reference_exon_boundary r_type="cDNA" r_start="333" r_stop="616" r_length="284" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0176B05.1" gen_strand="-" ref_id="SGN-E291206" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>616</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0176B05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E291206" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="101002" e_stop="100671"/>
          <exon e_start="94992" e_stop="94709"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCAATTTGCTTTCTTCAATTCAACTGAATTTTCACCTCCCAAAAATTGCAGCAATAAGGGAGGAGTATGAGTATGGGAGGCGGAGATGCTAGTGTTCCGGCGGGAGACAGCGGCGATTCAAACAAGGTGAGTAACACCGGCGCCGGCGGAGGTGTTACAATCAACATCCGATGTTCTAGTGGCTCGAAATTCTCTGTGCAGGTCAGCCTCGATTCTACCGTCGGATCGTTCAAGTCTATTCTTGCACAACAAGCCAACATTCCTGCTGAGCAACAGAGATTGATCTATAAAGGTCGGATCTTAAAGGATGAGCAAACACTAGAAAGCTACGGTATGTTAATTATAGGCTCTTTTAATTTTATTTTATGGCGGAGCTGATAAATTGCTGGTGCGTTATTAATATATTTTGGAGATTTTGTTTGAGTTTAATTGCACTGTTATAATTCAGAGTTGGAATTGTGATGACAAAATTAGCACAGCTCAATAAAAAACTAAAATGAAAGTGCAGAGGATAGAACTAATTAGAAGCAAACTCAATCTAAGAACATCACCATTAATTTGACCCACAAAGATACCTCGTACTTGTGTGTAAGAATATAGCTCAGCTATGATGATGAAGAACACTTGAATAGCGAAGAGGAAATGAATTGAGATAGATAGATAGAGAGACGGAATTTCCAAAATATTTCCCGACTCTGCACAGTAATTTCACTGTGTTTATATTAGGGGTGTGGTCTAATCCCTTGAGGATGGTTCCCATGTGACCTATTTAGCTTGATCTGCTCATCTGGATCATGATAATACTTCCAACTTGAAATTTGCCTTTTCCTAAAAGTCACGTATATTTTACATGTAATATATTCTCATTTATACGATCATGTATGGATCCATTAGTTCCCAACTGTAGAAACTAGGATATTGGAACCTAGAGGACAAGATGATGCAATAATCAACCCTTCTTCAATGTTCCCCTTTTGCATACCTGTTCATACCCAAGGACTTTTGGGACTTCATGGTTCAGCTTTAGAAGATCTAATTGATGCTTACTAAATCAATTGCGTTGTCTTTTTCCGCAGTTAAATTGTCCCTTATAAATCAATTCCATAGTCTGAATGTGCTATAGCTAAGTGTCCAATAGTTGGATGGCATGCATGTTAGCCGCATCATGTAACATTGCACCAGATGCATTTCGGATCGAGACAACTGGAGAATTAAGGTTGTGAAGCCACATAAAAAGTGATGAGCGAAGAAACCCACACGAAAGACATCATTGTCTATGCGCATAGGAAATATACTACTCTCATTAGTAAATTACCCGTTCTGCTAATTGTCCTAAAATAGTCCTGTTGTACCAATATTGCCAGCTTTCTTCGATGAATTTTTAGTGTGTAATTCATATACCATTTTTTTTTTGCAAGTTCTCACATGAAAAATCTATGACAACAGAAATAAACCCTTCACTTTGAGAGTCCGCTATAAGGAAAAACCTTCTAATCGAAGGATTCTGGCTAAAACTTGGTCCAAGTTTTGACTACCAACATAAACAACCATAGGTGTGATTCAAGGAAGCGGGCGCTCATTCTTTATACTATTGTGCAGCTCCAATATAGCTCTCATTTCCGCAATCTGGAGTTTGCATTTATGATACCTAAGACATACCCAAGGTTTCCTTTCATCTTCATCTGGAGGTCCCTTCAGAAAGCTTGAATGAGGAGCACCCTGGGGGGATGTGCTAACAGAGAATGTGAATTCTGTAATCAGCACAGAAAATCAGAAACTGCCTATTAGCTTCTTAGTTAGCAACTTATCATAAAAACCATTCACTTCTTCCCACATGCTGTGTAGCAACTAGCAAGGGATCACAAGTGTAAATGGTTGGGTGTACTTTCCTCTTCTGGAATATCATGAATTTCCTTGGAATCCGAAGTCCTTAGTCTTCCTGTCTGTCAGTCTCATCATCCTTATGCACAATTCTTCCTAAACCTCTAATGTCAAAACTCTTGACTTTGACTTTGCCGTTTGCTAAATAAGATGTCTGTGTCTGGACTCTGGAGTTGTTCCAGCATGCTTTTCAGTACTATCACCATAGTCTTTAGGAAGATCTACAACTTCTACTTTGATCTCAACCAAGTCTGTTCCACCTTGGTCACGAGAGATAAAACCATTACTACTTCCATTTCCTGCTGGAATAGTAGTGTTGTCAGACATATCTATATGGATTGAAGCAATATAGTTCTCTGCCACATGCATGTTTACATCAGTCCAAGCAGTTAATCCTTGTGAAAGTTCAGCACCAGTAGACACATTTTCATGAACGAGGCTATCATTGCACTATTTTCCAAAATTTGTAGTGTACTAGGATATGAATGGGTTGAGAATATAGCTGGGAGGTAGAAGTTTTAAAGACCACTTGGCTCCTTTTAAGGAAAGCCTCAAAAGCCTTTTCCTGCAACCTTGCCTGCTAAATTGTTTGGTCAAAGTGGTAGGCCTAAATACCATGATAGACATCTTAATTTCTTCTTTCAGTCCATCTGTGAAACTTGAAAGAAAGTAGGCGTTATTGACGTGTTGTACTGCAGATCAGTCATCTGCACCCCAAGGCCTTCAAACTTCTCAAAGGTACACTTCAGCAGATCCCTTTTGAGCCAGCCTAATCAACTTTTCTTCAAGGTATCTATTGTGTGTGGTGGATGATCCTCTTCCCTACTTTAAACTTCATTTCTAAGCCTGTCATTTTAGACTAAGTTTCACGGACTGGGTGCGGTTATCCAACATGGTTGCGAATCTGATGGTCGGATTCGGCGAAATTTTAATTTTAAGATTCAGGTACAAATATAGGTTCTGGGATTCAACTAAAAGAATTCCAAAATTATTAAGTAGAGTTGTAAAGATCTTCTAGGTCGTCTTCACCAAATCCTCAACTTCTTCTTTCATGCTCTCTGGTTCTTCCCTCAAAAAAGAAAAAGAAAGTCATTCAAGCAAGGCCTTCCACCAGCTCTCCTTACAGATCATTGCTAGTGTCTTCCAGAAGTTAGAATACAACCGCTTGAATTCTTAGTTTCTCTTCGTTTGGCCTGAAACATGAAGCAACAAATATTGACAAAGAGGAAAAGCTAAAAAGGACTATAATATTGAAGGTATGCCATTTCATTCTGAAAGGGTAGTTCAAGTGGAAAGCTACCTCCACCTTCAACCTTGAGGTTGAGGGGTTGGGTTCGGTCAGGAAGGGAGCAAGTGAAGAGGGCCAATATTGACTCCGAAGGAGAGGGGTTGAGGTTGGTAGATGTAGGTTATCGTATTTAAAATAACAACAAAGAGAACTACCAAATTCAAGGTAATTGAACTGAAAAAGAAATAAACAGTAATGAAATTTGAACTTTGAACAACCAGATAAAGCTTTCAAATCTGCAGAACGAAAGGAAAGAAGCGAGAAGAGGAGAAAGGAATTCAGAAGAACGGTGTGAAGGATCCGGAATTCTACTATGCCTCTCTCTCTGCTTTAGCTAGATTGTTATATTAACTACCCTTAGATCTCCACCATTCAAGTTTCTTAAGCCAGAGGTAATCCTGACCGTCCACGTCTCCCAATGTTTTATTTGAAATTTCCCGGCTTGCTTAGTTGGTCTTGGTATCGAACCCTTTTGAGCCCATTACATATGGATGTAAATTTCTTCTGATAGAGGATTGGTAGCATGCGGTTTCAATTTGGTTATCGAACGAAACCGGCAAATTGGAGGTGTGAAATGAATATTGAAGATTAAGGAGTGTTATCAAAGGTGCTCGCCTTAGTGCCTTTTGGAGAGAGATGAGGAGTCGGTGTGTCACCTTTCGTTGTGGGGCGAGAGATATGAAAAGGGCGAGCGGAGGTGCTGAGGCTTTTTCTGGAAAAGAAAGAGACTACAGCTTTTAATACTTAAAATTTTATTTTTAGAGTTCTTTTCCACTTACCTCTTTTGAGTCGATTACGCGACTGTGTTCAACTTAGTTCTCCATCTTTGTCTTCAGACTTCAGCTGTGTGCAAAGGTACGCTTCTTCTCTTTTCTTCCTTCTCCTTTCTGCCAACTGGGTACTGGCAGATTCTTTTCTTCTTTCTTCCTCTTTTACTTTCTCCTCTGTTTCCAGCTCTTTCGTTTTCTTTTTTCTTCTTGCATATCTTCTTCTTTCCCTTTTTTTTTCTAATTTCTGCTAATCCGGTTTTTTCCTTTTCATTTGCTAGTCCATTTATTTTTATTTTCTACCCAATTGAGTTTAGTTTAATACTGATTAATACATTAATTTTTTTTTGATGAATTAAATATTCCATTGAAGAAGATGCAAATTAGTTACAAATGTAGAAGCAAAAACAGTAAGATGTTTTTGCCTATAAATAGTAAGATGTTATTGCTGTTGAGATTTAATGTATAATTGATACATTAATTTTTTGCCTATAAACATTAAGATGTTATTTTTATTTAGATTTTGGTTATTTATATATGCAATTAAATATTTTAACTTTTTGGTATTAATTGGCGCCTCACTTCTAAAAGGTGAGCGCCTTGCCTCTTGCCTCGGTGAGGAACGCCGTTGTCGTCTTACGTCTTCCAAAACACCTAATGACCATCTCCCCAACTAGCTTCAAAATAAATGTGTAGTAGTAGTTGTTGGTTCTGTATTGAATTTTTGTGTTAGGGTATTGCATTTAATATTTCTTTACTATAATGATCGTCTTACGTCTTCTAAAGGACTCTACTAGTCTTTGGGATCTCCCAATCATTTAGGGGCCTTCTAGAACTCATATTCCGTCCCTGCTTTGACCAAACTTCTGCCACGGTGCCCCTTTGTTGGCTTCGATATATGTAGCAAGTATACAGTCTGCTAATATGCTTTTAGTATCTACTTCTAAGCAACACAAGTGTTTCTTGATAAAAAGAACATCGGCATTTGGTTTACTTGATAACATGTTAACAAGGCAGTGAAAGTGAGGTGCTGCCCGGGAGGAGTGGATTAGTGGTTTGTTCAATGTGCAAGAACGCCCACATGAGCTGTTTGGCAAATAATAGAGGGGTAGTCCTAGTTTCGAAAAATGATTGTTTGGAAGATTTAGGTTGATGTTGGGATTGTTCGCATGATAATGCCAAACATGCTAACCAGGGAGGTGGGGTAATATCTTCTTTGGCTTGGCTTGGTTGTTAGTGCCATCAATTTAGAAACTGACTAGTAGAACGTGTACACTGCTGTTAGCCTCAAGTGTCTGGGATATTGAGGGGATAACTAAGGAGTTCTGAAGTAATTGCTTTGACTTGTGGGAAGCTCTTGTTAAACTATAGTGTACTAGTAGACCATTTAAAACTAAAAAGCTTGTTAAATGGGATGTGACATGAATTGACAAGTATATGTAAACCTAAGAGACACGAGGTCTTTTTTGTTGTTTTACAGTGTTCACTCTATCATAGTGTTCGACTTTGTACTAGTTGTACTTGAAAAGTTGCATTAGTATTTAGTATATACTGGAAAGATGTTGTGCCATTGGATTTTTCCCTTCTCTAAAGAAGAACACTAAAAATGTGAAGTGAGCTGGGTAAAGTGGGGCTTGTATGACTTGTTGAATGTAATATGTGATTTCACTTTCCTTGGGACATTAAGCTGTATTGATGTCATATCTTCTTTTTTTCTTTTGAGTGTGAAAGGTGTAAAAGTTTGGGCTTATGCGACTCTTTGTTGGATGTATTGTGTGGTTCCACCCTCCTTGAGACACACAGTTTTGCATGGAAGGAATATCTTCTTTTACCTGTGATTAATTTCTACTTCTGCATCATTTGTTACACGAAGATACTCCAACGCCTATCAAGTTGTTCACAATCGGTTAATTATCACTTCAAAATGTTCAAGATTGAGTTTAGAAGTGGTACACCGTTAGCACTCAGTGCTGAACTTCAGTTATATCTGCTTTTGCATCGGCATGTAACAATTTATCAAGCTGTCGGTGATAATTGTGGTGATCTAGCTTATTTTAACTTTGTGCTTGATAGGTCTGGAGGCAGATCACACGGTTCATTTAGTTCGAGGTTCTGCCCCAGCTCCCTCTGCAAACCCTGCATGTGCACCCAATGTTGGAGGTCCAAATACTGCTCAGAATGCACCAAGAAGTGCTGCTTCTGATGCAGGTGGACCATTTCCAGGATCAGGCCTTGGAGCTTCAATGTTTCCTGGTCTTGGAAGTGGCGGCGGCGGCGGTTTGTTTGGAGCTGGTCTTCCAGATTTTGAGCAGGTCCAGCAGCAGTTGACTCAAAACCCTGACATGATGAGAGATATG</genome_strand>
        <mrna_strand>TGCAATTTGCTTTCTTCAATTCAACTGAATTTTCACCTCCCAAAAATTGCAGCAATAAGGGAGGAGTATGAGTATGGGAGGCGGAGATGCTAGTGTTCCGGCGGGAGACAGCGGCGATTCAAACAAGGTGAGTAACACCGGCGCCGGCGGAGGTGTTACAATCAACATCCGATGTTCTAGTGGCTCGAAATTCTCTGTGCAGGTCAGCCTCGATTCTACCGTCGGATCGTTCAAGTCTATTCTTGCACAACAAGCCAACATTCCTGCTGAGCAACAGAGATTGATCTATAAAGGTCGGATCTTAAAGGATGAGCAAACACTAGAAAGCTACG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCTGGAGGCAGATCACACGGTTCATTTAGTTCGAGGTTCTGCCCCAGCTCCCTCTGCAAACCCTGCATGTGCACCCAATGTTGGAGGTCCAAATACTGCTCAGAATGCACCAAGAAGTGCTGCTTCTGATGCAGGTGGACCATTTCCAGGATCAGGCCTTGGAGCTTCAATGTTTCCTGGTCTTGGAAGTGGCGGCGGCGGCGGTTTGTTTGGAGCTGGTCTTCCAGATTATGAGCAGGTCCAGCAGCAGTTGACTCAAAACCCTGACATGATGAGAGATATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>111</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="1595" PGL_stop="2301"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="1595" e_stop="1604"/>
            <exon e_start="1720" e_stop="1855"/>
            <exon e_start="1977" e_stop="2301"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.989" e_score="1.000"/>
          <exon-intron don_prob="0.987" acc_prob="0.905" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="1595" e_stop="1604" e_length="10"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.989">
            <gDNA_intron_boundary i_start="1605" i_stop="1719" i_length="115"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="1720" e_stop="1855" e_length="136"/>
          </exon>
          <intron i_serial="2" don_prob="0.987" acc_prob="0.905">
            <gDNA_intron_boundary i_start="1856" i_stop="1976" i_length="121"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="1977" e_stop="2301" e_length="325"/>
          </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="1595" stop="1604"/>
              <exon start="1720" stop="1855"/>
              <exon start="1977" stop="2301"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E270240" 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>TATCATATCC : GTGGGCAATCAACACCAAGTATTATAATGCTGATGTTTCTGTTTGGATGGCCCATCTTCATGAGGACTTCTCCATTGGAGCCCTGCCAGCATATGATCAGCTTGTTGCATTGGTGATGGTCTTTGACGTTACTGAT : CTCTCATCTTTTGTTGCGCTTAAAGATTTTGTCTCCCGCACTGACATCCTCAAGTTTGAGATTTTGTTATGCATTGGCAACAAAGTGGACCTTCTTCCTGGTCATTCGGCTCATGTTGAATACAGGCAGCTCCTGTTGAAAAGTGCAGACTCCTCTGGTAGCCCTTATTCAGAAATGGATTCTGGAATTTCTGAAACAGAAGGAAGCAGTCTACTAGGAGATGATGACTCATCATTTGATGCTAAAAGGTCCTACTTGGAATGGTGCCTCGAACACAGCATAGAATATGTAGAAGCCTGTGCATCAAATGCTGAATTTGACAAAT</gDNA_template>
            <first_frame> Y  H  I   : R  G  Q  S  T  P  S  I  I  M  L  M  F  L  F  G  W  P  I  F  M  R  T  S  P  L  E  P  C  Q  H  M  I  S  L  L  H  W  *  W  S  L  T  L  L  I :   S  H  L  L  L  R  L  K  I  L  S  P  A  L  T  S  S  S  L  R  F  C  Y  A  L  A  T  K  W  T  F  F  L  V  I  R  L  M  L  N  T  G  S  S  C  *  K  V  Q  T  P  L  V  A  L  I  Q  K  W  I  L  E  F  L  K  Q  K  E  A  V  Y  *  E  M  M  T  H  H  L  M  L  K  G  P  T  W  N  G  A  S  N  T  A  *  N  M  *  K  P  V  H  Q  M  L  N  L  T  N </first_frame>
            <second_frame>  I  I  S  :  V  G  N  Q  H  Q  V  L  *  C  *  C  F  C  L  D  G  P  S  S  *  G  L  L  H  W  S  P  A  S  I  *  S  A  C  C  I  G  D  G  L  *  R  Y  *   : S  L  I  F  C  C  A  *  R  F  C  L  P  H  *  H  P  Q  V  *  D  F  V  M  H  W  Q  Q  S  G  P  S  S  W  S  F  G  S  C  *  I  Q  A  A  P  V  E  K  C  R  L  L  W  *  P  L  F  R  N  G  F  W  N  F  *  N  R  R  K  Q  S  T  R  R  *  *  L  I  I  *  C  *  K  V  L  L  G  M  V  P  R  T  Q  H  R  I  C  R  S  L  C  I  K  C  *  I  *  Q   </second_frame>
            <third_frame>   S  Y  P :   W  A  I  N  T  K  Y  Y  N  A  D  V  S  V  W  M  A  H  L  H  E  D  F  S  I  G  A  L  P  A  Y  D  Q  L  V  A  L  V  M  V  F  D  V  T  D  :  L  S  S  F  V  A  L  K  D  F  V  S  R  T  D  I  L  K  F  E  I  L  L  C  I  G  N  K  V  D  L  L  P  G  H  S  A  H  V  E  Y  R  Q  L  L  L  K  S  A  D  S  S  G  S  P  Y  S  E  M  D  S  G  I  S  E  T  E  G  S  S  L  L  G  D  D  D  S  S  F  D  A  K  R  S  Y  L  E  W  C  L  E  H  S  I  E  Y  V  E  A  C  A  S  N  A  E  F  D  K  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0176B05.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="1597" stop="1604"/>
                    <exon start="1720" stop="1855"/>
                    <exon start="1977" stop="2300"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>468</number_coding_nucleotides>
                  <number_encoded_amino_acids>156</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SYPWAINTKYYNADVSVWMAHLHEDFSIGALPAYDQLVALVMVFDVTDLSSFVALKDFVSRTDILKFEILLCIGNKVDLLPGHSAHVEYRQLLLKSADSSGSPYSEMDSGISETEGSSLLGDDDSSFDAKRSYLEWCLEHSIEYVEACASNAEFDK</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="3780" PGL_stop="4026"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="3780" e_stop="4026"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.984"/>
        </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="0.984">
            <gDNA_exon_boundary e_start="3780" e_stop="4026" e_length="247"/>
          </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="3780" stop="4026"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E290400" 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>TTTAAAGTCGATGATCACGAATGCCTCAGTTTCACTTCTTGTAGAGCTGATCATAGACTAAAGGAATCTCATAAGCACATTGTGCATTCATGTCAAGTGATATCGACAAGATATTTTATCAAAGATATCTGCTTTAAAATTTACGGATCTAATTGTGTTTATGATGCAAACGCAGCAGTATTTACAAGTCCTAACAGGTGATTGGTGATGATATAAATGATTTTAGCTTGTTCAGGCTTCTACAGAA</gDNA_template>
            <first_frame> F  K  V  D  D  H  E  C  L  S  F  T  S  C  R  A  D  H  R  L  K  E  S  H  K  H  I  V  H  S  C  Q  V  I  S  T  R  Y  F  I  K  D  I  C  F  K  I  Y  G  S  N  C  V  Y  D  A  N  A  A  V  F  T  S  P  N  R  *  L  V  M  I  *  M  I  L  A  C  S  G  F  Y  R  </first_frame>
            <second_frame>  L  K  S  M  I  T  N  A  S  V  S  L  L  V  E  L  I  I  D  *  R  N  L  I  S  T  L  C  I  H  V  K  *  Y  R  Q  D  I  L  S  K  I  S  A  L  K  F  T  D  L  I  V  F  M  M  Q  T  Q  Q  Y  L  Q  V  L  T  G  D  W  *  *  Y  K  *  F  *  L  V  Q  A  S  T  E </second_frame>
            <third_frame>   *  S  R  *  S  R  M  P  Q  F  H  F  L  *  S  *  S  *  T  K  G  I  S  *  A  H  C  A  F  M  S  S  D  I  D  K  I  F  Y  Q  R  Y  L  L  *  N  L  R  I  *  L  C  L  *  C  K  R  S  S  I  Y  K  S  *  Q  V  I  G  D  D  I  N  D  F  S  L  F  R  L  L  Q   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0176B05.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="3780" stop="3980"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>198</number_coding_nucleotides>
                  <number_encoded_amino_acids>66</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FKVDDHECLSFTSCRADHRLKESHKHIVHSCQVISTRYFIKDICFKIYGSNCVYDANAAVFTSPNR*</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="6829" PGL_stop="6107"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="6829" e_stop="6107"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="6829" e_stop="6107" e_length="723"/>
          </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="6829" stop="6107"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328731" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6829" stop="6190"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328573" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6829" stop="6236"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328615" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6815" stop="6255"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E252360" 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>TCAATTATTACTATCTCTTTCTAAACTATGACTCGCCGGTTTAGATTTCTGCTAACTTCGAACGCCTCCTCCACTTCGCCGGCGGCGGAAGAAGCGGAGCCACCGTCAGCCACGGCAGCGGAGTCCGACTTCATTGTTATACTTGCTGCTTTACTCTGTGCAGTAATCTGTGTTTCTGGACTCATCGTAGTAGCTCGTTGTACTTGGCTCCGGAGGGACCCGCCGGAAAATCCACCGCCGGTGAAGAATAAAGGATTGAAGAAGAAAGTTCTCAAGTATTTGCCGAAATTCAAGTATGATCCGTCGAGCGGTGAGCTGCCGTTTGCGGCGGAGTGCGCGATTTGTCTGGTGGAGTATGTAGAGGGAGATGAAATTCGAGTGTTGCCGAATTGTGGCCATCGGTTTCACCTCCAGTGTGTGGACACGTGGCTTTTGACGAACTCGTCGTGCCCTTCCTGCCGGCAGATTCTCGTAGTTGCTCGTGCTCGGTGCCGGAAGTGCGGGGAAGTTCCTGCAATTTCCGGCGAAGCCTCCGACGGAGGTCAAATTTTAACGGCGGTTTAGTCTACAACTTACGGTAAACGAGGTTAATATGAAAAAGTGGCCGGCCGGAGCATCGTGGTAAGTGTAAATTGGTAACGGTGTTGTTATTTTCCGGTGATGGAAATGGGCCCCGCATGAGGTCGAGGGATAAGGCATACTTTCCTTGTGATTATGATGGGA</gDNA_template>
            <first_frame> S  I  I  T  I  S  F  *  T  M  T  R  R  F  R  F  L  L  T  S  N  A  S  S  T  S  P  A  A  E  E  A  E  P  P  S  A  T  A  A  E  S  D  F  I  V  I  L  A  A  L  L  C  A  V  I  C  V  S  G  L  I  V  V  A  R  C  T  W  L  R  R  D  P  P  E  N  P  P  P  V  K  N  K  G  L  K  K  K  V  L  K  Y  L  P  K  F  K  Y  D  P  S  S  G  E  L  P  F  A  A  E  C  A  I  C  L  V  E  Y  V  E  G  D  E  I  R  V  L  P  N  C  G  H  R  F  H  L  Q  C  V  D  T  W  L  L  T  N  S  S  C  P  S  C  R  Q  I  L  V  V  A  R  A  R  C  R  K  C  G  E  V  P  A  I  S  G  E  A  S  D  G  G  Q  I  L  T  A  V  *  S  T  T  Y  G  K  R  G  *  Y  E  K  V  A  G  R  S  I  V  V  S  V  N  W  *  R  C  C  Y  F  P  V  M  E  M  G  P  A  *  G  R  G  I  R  H  T  F  L  V  I  M  M  G </first_frame>
            <second_frame>  Q  L  L  L  S  L  S  K  L  *  L  A  G  L  D  F  C  *  L  R  T  P  P  P  L  R  R  R  R  K  K  R  S  H  R  Q  P  R  Q  R  S  P  T  S  L  L  Y  L  L  L  Y  S  V  Q  *  S  V  F  L  D  S  S  *  *  L  V  V  L  G  S  G  G  T  R  R  K  I  H  R  R  *  R  I  K  D  *  R  R  K  F  S  S  I  C  R  N  S  S  M  I  R  R  A  V  S  C  R  L  R  R  S  A  R  F  V  W  W  S  M  *  R  E  M  K  F  E  C  C  R  I  V  A  I  G  F  T  S  S  V  W  T  R  G  F  *  R  T  R  R  A  L  P  A  G  R  F  S  *  L  L  V  L  G  A  G  S  A  G  K  F  L  Q  F  P  A  K  P  P  T  E  V  K  F  *  R  R  F  S  L  Q  L  T  V  N  E  V  N  M  K  K  W  P  A  G  A  S  W  *  V  *  I  G  N  G  V  V  I  F  R  *  W  K  W  A  P  H  E  V  E  G  *  G  I  L  S  L  *  L  *  W   </second_frame>
            <third_frame>   N  Y  Y  Y  L  F  L  N  Y  D  S  P  V  *  I  S  A  N  F  E  R  L  L  H  F  A  G  G  G  R  S  G  A  T  V  S  H  G  S  G  V  R  L  H  C  Y  T  C  C  F  T  L  C  S  N  L  C  F  W  T  H  R  S  S  S  L  Y  L  A  P  E  G  P  A  G  K  S  T  A  G  E  E  *  R  I  E  E  E  S  S  Q  V  F  A  E  I  Q  V  *  S  V  E  R  *  A  A  V  C  G  G  V  R  D  L  S  G  G  V  C  R  G  R  *  N  S  S  V  A  E  L  W  P  S  V  S  P  P  V  C  G  H  V  A  F  D  E  L  V  V  P  F  L  P  A  D  S  R  S  C  S  C  S  V  P  E  V  R  G  S  S  C  N  F  R  R  S  L  R  R  R  S  N  F  N  G  G  L  V  Y  N  L  R  *  T  R  L  I  *  K  S  G  R  P  E  H  R  G  K  C  K  L  V  T  V  L  L  F  S  G  D  G  N  G  P  R  M  R  S  R  D  K  A  Y  F  P  C  D  Y  D  G  </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="C03HBa0176B05.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="6805" stop="6266"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>537</number_coding_nucleotides>
                  <number_encoded_amino_acids>179</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TMTRRFRFLLTSNASSTSPAAEEAEPPSATAAESDFIVILAALLCAVICVSGLIVVARCTWLRRDPPENPPPVKNKGLKKKVLKYLPKFKYDPSSGELPFAAECAICLVEYVEGDEIRVLPNCGHRFHLQCVDTWLLTNSSCPSCRQILVVARARCRKCGEVPAISGEASDGGQILTAV*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="-" PGL_start="20567" PGL_stop="18389"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="20567" e_stop="20444"/>
            <exon e_start="19202" e_stop="18389"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.993" acc_prob="0.893" e_score="0.984"/>
          <exon-only e_score="0.996"/>
        </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="0.984">
            <gDNA_exon_boundary e_start="20567" e_stop="20444" e_length="124"/>
          </exon>
          <intron i_serial="1" don_prob="0.993" acc_prob="0.893">
            <gDNA_intron_boundary i_start="20443" i_stop="19203" i_length="1241"/>
          </intron>
          <exon e_serial="2" e_score="0.996">
            <gDNA_exon_boundary e_start="19202" e_stop="18389" e_length="814"/>
          </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="20567" stop="20444"/>
              <exon start="19202" stop="18529"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E705938" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="19105" stop="18389"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E549815" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="19104" stop="18804"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E244255" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="4" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CGAGGGATTATGATGCTATGGGACCTCAGACTAAGTTTGTACAATGTCCTGAAGGGGAGCTGCAGAAGCGCAAGGAGATTGTTCATTGCGTTACCCTTCACGAAATCGATGTCATAAATAGCAG : AACACAGGGATTTTTAGCACTATTTACGGGTGATACTGGTGAGATTCGTGCTGAAGTGAGAGAACAAATAGATACCAAGGTTGCTGAGTGGAGGGAGGAAGGGAAGGCAGAGATTGTGCCCGGTGTCCTCTTCATTGACGAAGTACATATGCTTGACATTGAGTGTTTCTCTTTCCTAAACCGAGCTCTGGAGAATGACATGGCACCTATATTGGTTGTTGCTACAAATAGAGGCATTACTACAATCCGGGGAACAAACTACAGATCCCCACACGGGATTCCAATTGACTTTCTTGATCGCCTGCTCATCATCTCTACACAACCTTACAAAGAGGAAGAAATTCGCAAAATCCTGGACATCAGATGCCAAGAGGAGGATGTAGAAATGTCTGAGGATGCAAAAGTTTTATTGACCAAGATCGGGGTTAATACTTCTTTGAGATACGCCATCCATCTTATCACTTCTGCAGCATTGGCCTGCCAAAAGCGCAAAGGGAAGGCTGTTGAAGTGGAAGATATTACTCGAGTCTATAATCTGTTTTATGATGTGAAGAGATCCACACAGTACTTGATGGAGTATCAGAGCCAGTATATGTTTAACGAAGTGCCAGCCGGAGAGGCCGAAGAAGATGAAACTGCTGCAATGGTGTCCTAAAACCTTCTCGACATGGGATTCAGGAGATTGCAACTTAGCTTTGGCCAAGTATTTAGTTACCTGGTTCTTGTTTGATGATTTCTTCTCTTTCATTTATGTTTTCTGACCTTTGTGTTACTTGAATATAGTTCCCTCCCCCGGTTTCTTTTTTCTCGTTTA</gDNA_template>
            <first_frame> R  G  I  M  M  L  W  D  L  R  L  S  L  Y  N  V  L  K  G  S  C  R  S  A  R  R  L  F  I  A  L  P  F  T  K  S  M  S  *  I  A   : E  H  R  D  F  *  H  Y  L  R  V  I  L  V  R  F  V  L  K  *  E  N  K  *  I  P  R  L  L  S  G  G  R  K  G  R  Q  R  L  C  P  V  S  S  S  L  T  K  Y  I  C  L  T  L  S  V  S  L  S  *  T  E  L  W  R  M  T  W  H  L  Y  W  L  L  L  Q  I  E  A  L  L  Q  S  G  E  Q  T  T  D  P  H  T  G  F  Q  L  T  F  L  I  A  C  S  S  S  L  H  N  L  T  K  R  K  K  F  A  K  S  W  T  S  D  A  K  R  R  M  *  K  C  L  R  M  Q  K  F  Y  *  P  R  S  G  L  I  L  L  *  D  T  P  S  I  L  S  L  L  Q  H  W  P  A  K  S  A  K  G  R  L  L  K  W  K  I  L  L  E  S  I  I  C  F  M  M  *  R  D  P  H  S  T  *  W  S  I  R  A  S  I  C  L  T  K  C  Q  P  E  R  P  K  K  M  K  L  L  Q  W  C  P  K  T  F  S  T  W  D  S  G  D  C  N  L  A  L  A  K  Y  L  V  T  W  F  L  F  D  D  F  F  S  F  I  Y  V  F  *  P  L  C  Y  L  N  I  V  P  S  P  G  F  F  F  L  V   </first_frame>
            <second_frame>  E  G  L  *  C  Y  G  T  S  D  *  V  C  T  M  S  *  R  G  A  A  E  A  Q  G  D  C  S  L  R  Y  P  S  R  N  R  C  H  K  *  Q  :  N  T  G  I  F  S  T  I  Y  G  *  Y  W  *  D  S  C  *  S  E  R  T  N  R  Y  Q  G  C  *  V  E  G  G  R  E  G  R  D  C  A  R  C  P  L  H  *  R  S  T  Y  A  *  H  *  V  F  L  F  P  K  P  S  S  G  E  *  H  G  T  Y  I  G  C  C  Y  K  *  R  H  Y  Y  N  P  G  N  K  L  Q  I  P  T  R  D  S  N  *  L  S  *  S  P  A  H  H  L  Y  T  T  L  Q  R  G  R  N  S  Q  N  P  G  H  Q  M  P  R  G  G  C  R  N  V  *  G  C  K  S  F  I  D  Q  D  R  G  *  Y  F  F  E  I  R  H  P  S  Y  H  F  C  S  I  G  L  P  K  A  Q  R  E  G  C  *  S  G  R  Y  Y  S  S  L  *  S  V  L  *  C  E  E  I  H  T  V  L  D  G  V  S  E  P  V  Y  V  *  R  S  A  S  R  R  G  R  R  R  *  N  C  C  N  G  V  L  K  P  S  R  H  G  I  Q  E  I  A  T  *  L  W  P  S  I  *  L  P  G  S  C  L  M  I  S  S  L  S  F  M  F  S  D  L  C  V  T  *  I  *  F  P  P  P  V  S  F  F  S  F  </second_frame>
            <third_frame>   R  D  Y  D  A  M  G  P  Q  T  K  F  V  Q  C  P  E  G  E  L  Q  K  R  K  E  I  V  H  C  V  T  L  H  E  I  D  V  I  N  S  R :   T  Q  G  F  L  A  L  F  T  G  D  T  G  E  I  R  A  E  V  R  E  Q  I  D  T  K  V  A  E  W  R  E  E  G  K  A  E  I  V  P  G  V  L  F  I  D  E  V  H  M  L  D  I  E  C  F  S  F  L  N  R  A  L  E  N  D  M  A  P  I  L  V  V  A  T  N  R  G  I  T  T  I  R  G  T  N  Y  R  S  P  H  G  I  P  I  D  F  L  D  R  L  L  I  I  S  T  Q  P  Y  K  E  E  E  I  R  K  I  L  D  I  R  C  Q  E  E  D  V  E  M  S  E  D  A  K  V  L  L  T  K  I  G  V  N  T  S  L  R  Y  A  I  H  L  I  T  S  A  A  L  A  C  Q  K  R  K  G  K  A  V  E  V  E  D  I  T  R  V  Y  N  L  F  Y  D  V  K  R  S  T  Q  Y  L  M  E  Y  Q  S  Q  Y  M  F  N  E  V  P  A  G  E  A  E  E  D  E  T  A  A  M  V  S  *  N  L  L  D  M  G  F  R  R  L  Q  L  S  F  G  Q  V  F  S  Y  L  V  L  V  *  *  F  L  L  F  H  L  C  F  L  T  F  V  L  L  E  Y  S  S  L  P  R  F  L  F  S  R  L </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0176B05.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="20565" stop="20444"/>
                    <exon start="19202" stop="18548"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>774</number_coding_nucleotides>
                  <number_encoded_amino_acids>258</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RDYDAMGPQTKFVQCPEGELQKRKEIVHCVTLHEIDVINSRTQGFLALFTGDTGEIRAEVREQIDTKVAEWREEGKAEIVPGVLFIDEVHMLDIECFSFLNRALENDMAPILVVATNRGITTIRGTNYRSPHGIPIDFLDRLLIISTQPYKEEEIRKILDIRCQEEDVEMSEDAKVLLTKIGVNTSLRYAIHLITSAALACQKRKGKAVEVEDITRVYNLFYDVKRSTQYLMEYQSQYMFNEVPAGEAEEDETAAMVS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="5" PGL_strand="-" PGL_start="21075" PGL_stop="20629"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="21075" e_stop="20629"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.998"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.998">
            <gDNA_exon_boundary e_start="21075" e_stop="20629" e_length="447"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21075" stop="20629"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E203571" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="5" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GAAGGTATGGTAGGTCAAATTCCAGCTCGAAAAGCTGCCGGAATCATTGTTAAAATGGTTCAACAAGGTAAAATTGCGGGTCGTGCACTGCTCCTTGCGGGTCAACCCGGAACTGGGAAGACAGCTATAGCTATGGGTATGGCTAAATCGTTAGGGCAAGAAACCCCTTTTGCTATGCTTGCTGGTAGCGAACTTTATTCACTTGATATGTCGAAAACTGAAGCGTTAATGCAGGCTTTTCGTAAAGCAATTGGTGTGAGAATTAAAGAAGAAGCTGAAGTTATTGAAGGTGAAGTTGTGGAAGTACATATTGATAGGCCGGCGGTAGCTGGAGCTGCGTCAAAAACAGGAAAACTGACGTTGAAGACTACTGATATGGAGACGGTTTATGATTTGGGGGCGAAGATGATTGAGGCTTTGGGGAAGGAGAAAGTACAGAGTGGGGAT</gDNA_template>
            <first_frame> E  G  M  V  G  Q  I  P  A  R  K  A  A  G  I  I  V  K  M  V  Q  Q  G  K  I  A  G  R  A  L  L  L  A  G  Q  P  G  T  G  K  T  A  I  A  M  G  M  A  K  S  L  G  Q  E  T  P  F  A  M  L  A  G  S  E  L  Y  S  L  D  M  S  K  T  E  A  L  M  Q  A  F  R  K  A  I  G  V  R  I  K  E  E  A  E  V  I  E  G  E  V  V  E  V  H  I  D  R  P  A  V  A  G  A  A  S  K  T  G  K  L  T  L  K  T  T  D  M  E  T  V  Y  D  L  G  A  K  M  I  E  A  L  G  K  E  K  V  Q  S  G  D </first_frame>
            <second_frame>  K  V  W  *  V  K  F  Q  L  E  K  L  P  E  S  L  L  K  W  F  N  K  V  K  L  R  V  V  H  C  S  L  R  V  N  P  E  L  G  R  Q  L  *  L  W  V  W  L  N  R  *  G  K  K  P  L  L  L  C  L  L  V  A  N  F  I  H  L  I  C  R  K  L  K  R  *  C  R  L  F  V  K  Q  L  V  *  E  L  K  K  K  L  K  L  L  K  V  K  L  W  K  Y  I  L  I  G  R  R  *  L  E  L  R  Q  K  Q  E  N  *  R  *  R  L  L  I  W  R  R  F  M  I  W  G  R  R  *  L  R  L  W  G  R  R  K  Y  R  V  G   </second_frame>
            <third_frame>   R  Y  G  R  S  N  S  S  S  K  S  C  R  N  H  C  *  N  G  S  T  R  *  N  C  G  S  C  T  A  P  C  G  S  T  R  N  W  E  D  S  Y  S  Y  G  Y  G  *  I  V  R  A  R  N  P  F  C  Y  A  C  W  *  R  T  L  F  T  *  Y  V  E  N  *  S  V  N  A  G  F  S  *  S  N  W  C  E  N  *  R  R  S  *  S  Y  *  R  *  S  C  G  S  T  Y  *  *  A  G  G  S  W  S  C  V  K  N  R  K  T  D  V  E  D  Y  *  Y  G  D  G  L  *  F  G  G  E  D  D  *  G  F  G  E  G  E  S  T  E  W  G  </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="C03HBa0176B05.1" strand="-"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="21075" stop="20629"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>447</number_coding_nucleotides>
                  <number_encoded_amino_acids>149</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EGMVGQIPARKAAGIIVKMVQQGKIAGRALLLAGQPGTGKTAIAMGMAKSLGQETPFAMLAGSELYSLDMSKTEALMQAFRKAIGVRIKEEAEVIEGEVVEVHIDRPAVAGAASKTGKLTLKTTDMETVYDLGAKMIEALGKEKVQSGD</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="6" PGL_strand="-" PGL_start="26169" PGL_stop="25780"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="26169" e_stop="25780"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.908"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.908">
            <gDNA_exon_boundary e_start="26169" e_stop="25780" e_length="390"/>
          </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="26169" stop="25780"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E242274" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="6" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TGAGACGACGGATCCCACGACGGACCGTTATGGGCACGACGGACCGTCAAGGGGGTCTCGTTCCAAAACACTTAGAATTCTGAAATTTGGGTACTGAAATCGATTCTCTGAACTTCGTGACGGAATGGCAGGACGGACCGTCACAGTCGTGACGGGCCGTCACAGATCCTTTAGTGAAATTTAGTCTCTGAACTTTGTGACGGAAGCAGCAGGACGGACCGTCGCAGGCACAACTGGCCGTCACAGACTGCGTAATCCCAGGCTGGGTCGGATTTCTGTTAAATGTTTTAAGGGGCATTTTGGACTATCCCTGCTATAATAATAAATTTAGTGGGTTAATGTTAATAATTTAATTACTTGGGGGTTAAAGGAGATAACCTTGAATTAATT</gDNA_template>
            <first_frame> *  D  D  G  S  H  D  G  P  L  W  A  R  R  T  V  K  G  V  S  F  Q  N  T  *  N  S  E  I  W  V  L  K  S  I  L  *  T  S  *  R  N  G  R  T  D  R  H  S  R  D  G  P  S  Q  I  L  *  *  N  L  V  S  E  L  C  D  G  S  S  R  T  D  R  R  R  H  N  W  P  S  Q  T  A  *  S  Q  A  G  S  D  F  C  *  M  F  *  G  A  F  W  T  I  P  A  I  I  I  N  L  V  G  *  C  *  *  F  N  Y  L  G  V  K  G  D  N  L  E  L  I </first_frame>
            <second_frame>  E  T  T  D  P  T  T  D  R  Y  G  H  D  G  P  S  R  G  S  R  S  K  T  L  R  I  L  K  F  G  Y  *  N  R  F  S  E  L  R  D  G  M  A  G  R  T  V  T  V  V  T  G  R  H  R  S  F  S  E  I  *  S  L  N  F  V  T  E  A  A  G  R  T  V  A  G  T  T  G  R  H  R  L  R  N  P  R  L  G  R  I  S  V  K  C  F  K  G  H  F  G  L  S  L  L  *  *  *  I  *  W  V  N  V  N  N  L  I  T  W  G  L  K  E  I  T  L  N  *   </second_frame>
            <third_frame>   R  R  R  I  P  R  R  T  V  M  G  T  T  D  R  Q  G  G  L  V  P  K  H  L  E  F  *  N  L  G  T  E  I  D  S  L  N  F  V  T  E  W  Q  D  G  P  S  Q  S  *  R  A  V  T  D  P  L  V  K  F  S  L  *  T  L  *  R  K  Q  Q  D  G  P  S  Q  A  Q  L  A  V  T  D  C  V  I  P  G  W  V  G  F  L  L  N  V  L  R  G  I  L  D  Y  P  C  Y  N  N  K  F  S  G  L  M  L  I  I  *  L  L  G  G  *  R  R  *  P  *  I  N  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C03HBa0176B05.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="7" PGL_strand="+" PGL_start="42306" PGL_stop="43263"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="42306" e_stop="43263"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.999"/>
        </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="0.999">
            <gDNA_exon_boundary e_start="42306" e_stop="43263" e_length="958"/>
          </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="42306" stop="42972"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E371935" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42306" stop="42801"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E286936" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42531" stop="43254"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733487" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42574" stop="43263"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E371934" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42734" stop="43261"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E275013" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42850" stop="43250"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E216999" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="7" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TTTTTCAATGGCTTTGATATCTCTATTGTATGGTGCTTTTGGTGTATTGGGATATTTTGCTTTTGGTGAAGATACAAAGGATATAATTACGACGAATCTTGGACAAGGATTACTTAGCAGCCTAGTTCAAATTGGTCTTTGCATAAACTTGTTCTTTACTTTCCCTCTGATGATGAATCCAGTTTACGAAGTAGTGGAAAGGAGGTTTTGTGAAGGGAGTTACTGTGTTTGGATAAGATGGATTATGGTTTTGGTAGTGACGTTTGTGGCATTGTTTGTGCCAAATTTTGCTGATTTCTTGTCATTGGTTGGGAGTAGTGTGTGCATAATTCTTGGCTTTGTGTTGCCTGCCTTGTTTCATCTGATTGTGTTCAAAGATGAGCTAAGATGGCATGGTTTGGCTTGTGATGGTGCAATTATTGTAGTGGCTGCTGTTTTTTCAGTCTATGGAACCTACTCTTCATTGCTGGAGATACTTTTTGGAGCCAAGGAATAAATTGTTTGTCTTCCTTTTTAATGTACAAGTTCAAGAGATGTTTATCTTGTATATCCATCAGACCTCCAAAGTTAAGCGTGTTTGGGCGAGAGTATACTAGGATGGCTGATCCTCGGATGTCCTGTTGCATCCCTCATTCGAAAACAGTCTTACTTTCACTAGGTAGGGATAAGGTCTGCATACACCAAATCCCCGCGGTGGATATAATATTATTGTTGTTGCTTATCGTGCATTATGGTTGTTCGTTTGTTTTTCATCCTTCCTACATTTGTAAATTTTCTTCCATCTATGGCCATTAATCATAGGTTTGGTACAACTGTGGAGGTTGTGTGAGGGACATGATCATGTCCACTTAGTATTCATTGCAAATGGTCATAATTTGCTCAAATGGCCATTTGGTTCTCTTCTTAGTACTATTTATATATAATAATACTATATTATGTTTTGAGATTTGTCCTAAAT</gDNA_template>
            <first_frame> F  F  N  G  F  D  I  S  I  V  W  C  F  W  C  I  G  I  F  C  F  W  *  R  Y  K  G  Y  N  Y  D  E  S  W  T  R  I  T  *  Q  P  S  S  N  W  S  L  H  K  L  V  L  Y  F  P  S  D  D  E  S  S  L  R  S  S  G  K  E  V  L  *  R  E  L  L  C  L  D  K  M  D  Y  G  F  G  S  D  V  C  G  I  V  C  A  K  F  C  *  F  L  V  I  G  W  E  *  C  V  H  N  S  W  L  C  V  A  C  L  V  S  S  D  C  V  Q  R  *  A  K  M  A  W  F  G  L  *  W  C  N  Y  C  S  G  C  C  F  F  S  L  W  N  L  L  F  I  A  G  D  T  F  W  S  Q  G  I  N  C  L  S  S  F  L  M  Y  K  F  K  R  C  L  S  C  I  S  I  R  P  P  K  L  S  V  F  G  R  E  Y  T  R  M  A  D  P  R  M  S  C  C  I  P  H  S  K  T  V  L  L  S  L  G  R  D  K  V  C  I  H  Q  I  P  A  V  D  I  I  L  L  L  L  L  I  V  H  Y  G  C  S  F  V  F  H  P  S  Y  I  C  K  F  S  S  I  Y  G  H  *  S  *  V  W  Y  N  C  G  G  C  V  R  D  M  I  M  S  T  *  Y  S  L  Q  M  V  I  I  C  S  N  G  H  L  V  L  F  L  V  L  F  I  Y  N  N  T  I  L  C  F  E  I  C  P  K  </first_frame>
            <second_frame>  F  S  M  A  L  I  S  L  L  Y  G  A  F  G  V  L  G  Y  F  A  F  G  E  D  T  K  D  I  I  T  T  N  L  G  Q  G  L  L  S  S  L  V  Q  I  G  L  C  I  N  L  F  F  T  F  P  L  M  M  N  P  V  Y  E  V  V  E  R  R  F  C  E  G  S  Y  C  V  W  I  R  W  I  M  V  L  V  V  T  F  V  A  L  F  V  P  N  F  A  D  F  L  S  L  V  G  S  S  V  C  I  I  L  G  F  V  L  P  A  L  F  H  L  I  V  F  K  D  E  L  R  W  H  G  L  A  C  D  G  A  I  I  V  V  A  A  V  F  S  V  Y  G  T  Y  S  S  L  L  E  I  L  F  G  A  K  E  *  I  V  C  L  P  F  *  C  T  S  S  R  D  V  Y  L  V  Y  P  S  D  L  Q  S  *  A  C  L  G  E  S  I  L  G  W  L  I  L  G  C  P  V  A  S  L  I  R  K  Q  S  Y  F  H  *  V  G  I  R  S  A  Y  T  K  S  P  R  W  I  *  Y  Y  C  C  C  L  S  C  I  M  V  V  R  L  F  F  I  L  P  T  F  V  N  F  L  P  S  M  A  I  N  H  R  F  G  T  T  V  E  V  V  *  G  T  *  S  C  P  L  S  I  H  C  K  W  S  *  F  A  Q  M  A  I  W  F  S  S  *  Y  Y  L  Y  I  I  I  L  Y  Y  V  L  R  F  V  L  N </second_frame>
            <third_frame>   F  Q  W  L  *  Y  L  Y  C  M  V  L  L  V  Y  W  D  I  L  L  L  V  K  I  Q  R  I  *  L  R  R  I  L  D  K  D  Y  L  A  A  *  F  K  L  V  F  A  *  T  C  S  L  L  S  L  *  *  *  I  Q  F  T  K  *  W  K  G  G  F  V  K  G  V  T  V  F  G  *  D  G  L  W  F  W  *  *  R  L  W  H  C  L  C  Q  I  L  L  I  S  C  H  W  L  G  V  V  C  A  *  F  L  A  L  C  C  L  P  C  F  I  *  L  C  S  K  M  S  *  D  G  M  V  W  L  V  M  V  Q  L  L  *  W  L  L  F  F  Q  S  M  E  P  T  L  H  C  W  R  Y  F  L  E  P  R  N  K  L  F  V  F  L  F  N  V  Q  V  Q  E  M  F  I  L  Y  I  H  Q  T  S  K  V  K  R  V  W  A  R  V  Y  *  D  G  *  S  S  D  V  L  L  H  P  S  F  E  N  S  L  T  F  T  R  *  G  *  G  L  H  T  P  N  P  R  G  G  Y  N  I  I  V  V  A  Y  R  A  L  W  L  F  V  C  F  S  S  F  L  H  L  *  I  F  F  H  L  W  P  L  I  I  G  L  V  Q  L  W  R  L  C  E  G  H  D  H  V  H  L  V  F  I  A  N  G  H  N  L  L  K  W  P  F  G  S  L  L  S  T  I  Y  I  *  *  Y  Y  I  M  F  *  D  L  S  *   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0176B05.1" strand="+"/>
                <serials PGL_serial="7" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="42307" stop="42801"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>492</number_coding_nucleotides>
                  <number_encoded_amino_acids>164</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FSMALISLLYGAFGVLGYFAFGEDTKDIITTNLGQGLLSSLVQIGLCINLFFTFPLMMNPVYEVVERRFCEGSYCVWIRWIMVLVVTFVALFVPNFADFLSLVGSSVCIILGFVLPALFHLIVFKDELRWHGLACDGAIIVVAAVFSVYGTYSSLLEILFGAKE*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="8" PGL_strand="-" PGL_start="46284" PGL_stop="45136"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="46284" e_stop="45909"/>
            <exon e_start="45329" e_stop="45136"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.949" acc_prob="0.829" e_score="0.987"/>
          <exon-only e_score="0.979"/>
        </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="0.987">
            <gDNA_exon_boundary e_start="46284" e_stop="45909" e_length="376"/>
          </exon>
          <intron i_serial="1" don_prob="0.949" acc_prob="0.829">
            <gDNA_intron_boundary i_start="45908" i_stop="45330" i_length="579"/>
          </intron>
          <exon e_serial="2" e_score="0.979">
            <gDNA_exon_boundary e_start="45329" e_stop="45136" e_length="194"/>
          </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="46284" stop="45909"/>
              <exon start="45329" stop="45136"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E389872" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="8" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GAAAGATGGAAAATGGCAAAGGAGAACCAATGAACTCAAAGGAGGAATTCGGGGAATCACCAAATGATATATGTAACGTTGACAAAAAGAAGGGGCGGATGAAACAGAAAATGTTACCCCTCAGTAATTGCAGTCTCAGGGATAAAGTGAACCCAAAAAGGACATGAATTTCAAAAAATTCATCGTCACCGGATAAGAAGATCAACAAAGTTACTGCTGCTATTAATGAGCCTATATTTCCAGTTGATAGGTCATCTACATTGAAGTGCCAAACTTTTAGGCATCCACTCGCGTTAAACAATAAGTTGATGCAATCACAGTCTTCGTATTTTAGTATCAAGTGAGGTGGCTACCATGATGGGACTTATAGTCCGAG : GTTTTTGTTAGCTTCTGGAGTTTCATTTCCAGGTACTTTTTGTTAGCAGGAGATGTCTGGAGTCATTGTCATTATTATTAACATTAGAAGTGTGACATTTGTTGTTAAAGGAAACTAATTTATATCTCTTCCTTCCATTAATCTCAATGTGTAAGATTATTTCTGATGTAGATATATCAATCCATTGTAAGCAT</gDNA_template>
            <first_frame> E  R  W  K  M  A  K  E  N  Q  *  T  Q  R  R  N  S  G  N  H  Q  M  I  Y  V  T  L  T  K  R  R  G  G  *  N  R  K  C  Y  P  S  V  I  A  V  S  G  I  K  *  T  Q  K  G  H  E  F  Q  K  I  H  R  H  R  I  R  R  S  T  K  L  L  L  L  L  M  S  L  Y  F  Q  L  I  G  H  L  H  *  S  A  K  L  L  G  I  H  S  R  *  T  I  S  *  C  N  H  S  L  R  I  L  V  S  S  E  V  A  T  M  M  G  L  I  V  R   : G  F  C  *  L  L  E  F  H  F  Q  V  L  F  V  S  R  R  C  L  E  S  L  S  L  L  L  T  L  E  V  *  H  L  L  L  K  E  T  N  L  Y  L  F  L  P  L  I  S  M  C  K  I  I  S  D  V  D  I  S  I  H  C  K  H </first_frame>
            <second_frame>  K  D  G  K  W  Q  R  R  T  N  E  L  K  G  G  I  R  G  I  T  K  *  Y  M  *  R  *  Q  K  E  G  A  D  E  T  E  N  V  T  P  Q  *  L  Q  S  Q  G  *  S  E  P  K  K  D  M  N  F  K  K  F  I  V  T  G  *  E  D  Q  Q  S  Y  C  C  Y  *  *  A  Y  I  S  S  *  *  V  I  Y  I  E  V  P  N  F  *  A  S  T  R  V  K  Q  *  V  D  A  I  T  V  F  V  F  *  Y  Q  V  R  W  L  P  *  W  D  L  *  S  E  :  V  F  V  S  F  W  S  F  I  S  R  Y  F  L  L  A  G  D  V  W  S  H  C  H  Y  Y  *  H  *  K  C  D  I  C  C  *  R  K  L  I  Y  I  S  S  F  H  *  S  Q  C  V  R  L  F  L  M  *  I  Y  Q  S  I  V  S   </second_frame>
            <third_frame>   K  M  E  N  G  K  G  E  P  M  N  S  K  E  E  F  G  E  S  P  N  D  I  C  N  V  D  K  K  K  G  R  M  K  Q  K  M  L  P  L  S  N  C  S  L  R  D  K  V  N  P  K  R  T  *  I  S  K  N  S  S  S  P  D  K  K  I  N  K  V  T  A  A  I  N  E  P  I  F  P  V  D  R  S  S  T  L  K  C  Q  T  F  R  H  P  L  A  L  N  N  K  L  M  Q  S  Q  S  S  Y  F  S  I  K  *  G  G  Y  H  D  G  T  Y  S  P  R :   F  L  L  A  S  G  V  S  F  P  G  T  F  C  *  Q  E  M  S  G  V  I  V  I  I  I  N  I  R  S  V  T  F  V  V  K  G  N  *  F  I  S  L  P  S  I  N  L  N  V  *  D  Y  F  *  C  R  Y  I  N  P  L  *  A  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C03HBa0176B05.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="9" PGL_strand="-" PGL_start="48093" PGL_stop="46743"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="48093" e_stop="48021"/>
            <exon e_start="47062" e_stop="46743"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.815" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="48093" e_stop="48021" e_length="73"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.815">
            <gDNA_intron_boundary i_start="48020" i_stop="47063" i_length="958"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="47062" e_stop="46743" e_length="320"/>
          </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="48093" stop="48021"/>
              <exon start="47062" stop="46743"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E231095" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="9" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GTAACCCTTCCCTTTTCTCTAAAAACCCTAATTTCAACTTTTTTTTTTGTATCCTCTAAGATGACAAGATCAG : TTTTAAGGGATTGTTGAAGCAATAAGCTTATGTGTAGATGTAAAGAAAAAGATGGAAGGAAATACATGTGACATCAATCACTTGGATTCAGATGTGCTTTTGCCTCCGCGAAAACGGCTTCTAGTAGGACTGAAAAAACAGAATTTCGATGATAATCCATGTAGTCCATCCTCTTCTACTGATGATGTTACAGAATTTGAGTTCGATATGCGTCTTAATAACCTGTTGAAGTTTCACTCGGATGATTGTAATCGTTCCATCGAGGAGATTGTCGAGGCCTCAAAAGTGGCAGCTCTAAAAGCTGTTGAGCTTGCAAAAGC</gDNA_template>
            <first_frame> V  T  L  P  F  S  L  K  T  L  I  S  T  F  F  F  V  S  S  K  M  T  R  S   : V  L  R  D  C  *  S  N  K  L  M  C  R  C  K  E  K  D  G  R  K  Y  M  *  H  Q  S  L  G  F  R  C  A  F  A  S  A  K  T  A  S  S  R  T  E  K  T  E  F  R  *  *  S  M  *  S  I  L  F  Y  *  *  C  Y  R  I  *  V  R  Y  A  S  *  *  P  V  E  V  S  L  G  *  L  *  S  F  H  R  G  D  C  R  G  L  K  S  G  S  S  K  S  C  *  A  C  K  S </first_frame>
            <second_frame>  *  P  F  P  F  L  *  K  P  *  F  Q  L  F  F  L  Y  P  L  R  *  Q  D  Q  :  F  *  G  I  V  E  A  I  S  L  C  V  D  V  K  K  K  M  E  G  N  T  C  D  I  N  H  L  D  S  D  V  L  L  P  P  R  K  R  L  L  V  G  L  K  K  Q  N  F  D  D  N  P  C  S  P  S  S  S  T  D  D  V  T  E  F  E  F  D  M  R  L  N  N  L  L  K  F  H  S  D  D  C  N  R  S  I  E  E  I  V  E  A  S  K  V  A  A  L  K  A  V  E  L  A  K   </second_frame>
            <third_frame>   N  P  S  L  F  S  K  N  P  N  F  N  F  F  F  C  I  L  *  D  D  K  I  S :   F  K  G  L  L  K  Q  *  A  Y  V  *  M  *  R  K  R  W  K  E  I  H  V  T  S  I  T  W  I  Q  M  C  F  C  L  R  E  N  G  F  *  *  D  *  K  N  R  I  S  M  I  I  H  V  V  H  P  L  L  L  M  M  L  Q  N  L  S  S  I  C  V  L  I  T  C  *  S  F  T  R  M  I  V  I  V  P  S  R  R  L  S  R  P  Q  K  W  Q  L  *  K  L  L  S  L  Q  K  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0176B05.1" strand="-"/>
                <serials PGL_serial="9" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="47056" stop="46745"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>312</number_coding_nucleotides>
                  <number_encoded_amino_acids>104</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GIVEAISLCVDVKKKMEGNTCDINHLDSDVLLPPRKRLLVGLKKQNFDDNPCSPSSSTDDVTEFEFDMRLNNLLKFHSDDCNRSIEEIVEASKVAALKAVELAK</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="10" PGL_strand="-" PGL_start="63176" PGL_stop="55834"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="63176" e_stop="63072"/>
            <exon e_start="62962" e_stop="62875"/>
            <exon e_start="62530" e_stop="62440"/>
            <exon e_start="58182" e_stop="58098"/>
            <exon e_start="57868" e_stop="57712"/>
            <exon e_start="56282" e_stop="56119"/>
            <exon e_start="56025" e_stop="55834"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.940" acc_prob="0.640" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.989" e_score="1.000"/>
          <exon-intron don_prob="0.611" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.995" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.000" 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="63176" e_stop="63072" e_length="105"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.998">
            <gDNA_intron_boundary i_start="63071" i_stop="62963" i_length="109"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="62962" e_stop="62875" e_length="88"/>
          </exon>
          <intron i_serial="2" don_prob="0.940" acc_prob="0.640">
            <gDNA_intron_boundary i_start="62874" i_stop="62531" i_length="344"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="62530" e_stop="62440" e_length="91"/>
          </exon>
          <intron i_serial="3" don_prob="1.000" acc_prob="0.989">
            <gDNA_intron_boundary i_start="62439" i_stop="58183" i_length="4257"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="58182" e_stop="58098" e_length="85"/>
          </exon>
          <intron i_serial="4" don_prob="0.611" acc_prob="0.998">
            <gDNA_intron_boundary i_start="58097" i_stop="57869" i_length="229"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="57868" e_stop="57712" e_length="157"/>
          </exon>
          <intron i_serial="5" don_prob="0.995" acc_prob="0.999">
            <gDNA_intron_boundary i_start="57711" i_stop="56283" i_length="1429"/>
          </intron>
          <exon e_serial="6" e_score="0.994">
            <gDNA_exon_boundary e_start="56282" e_stop="56119" e_length="164"/>
          </exon>
          <intron i_serial="6" don_prob="1.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="56118" i_stop="56026" i_length="93"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="56025" e_stop="55834" e_length="192"/>
          </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="63176" stop="63072"/>
              <exon start="62962" stop="62875"/>
              <exon start="62530" stop="62440"/>
              <exon start="58182" stop="58098"/>
              <exon start="57868" stop="57712"/>
              <exon start="56282" stop="56119"/>
              <exon start="56025" stop="55834"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E706719" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="10" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CCGGTTCCGAACCGTCTATAAACCATTAATTTTCCGGTGAGGGGAAAAAACTCCGGCAAGAAAATGGCAGCTGCCGGAAAATGCTTCCTTGTAACTGGCCCTGCT : GGTATTGGTAAGACAACTTTGATAGTCAGAGTACTTGAAACTCTCAGAAATTCAAATCCTAATTTGAAAGTTCAAGGGTTCTACACTC : GTGAGATTAGAGAAGGAACTGAGAGGATTGGATTTGAGGTTGTGACGCTTGATGGACGTACGGGGCTTCTTGCTTCTAACAAAATCTCGAG : CGCGCAGTCTCTTAGATGGCCCACCGTGGGAAGATACAGGGTAGATGTTGCATCATTTGAGTCGTTGGCATTACAAGAGTTGCAG : GTAAGGGAAGATACCGATCTCTTCATTATCGATGAAATTGGGAAGATGGAGCTCTACAGCTCCTCATTCTTTCCAGCTGTACTTAAGGTCCTTCAATCTAATATCCCACTCTTGGCTTCTATCCCCATTACAAAAGTAGGCCGAGATATACCTGGAG : TTGCGAGGATGAAGAATCATCCAGGAGCTAGAGTTTTTACACTTGATGCAAATAACAGGGATGCGATGAGAGAACAAATATGCTCCACGTTAGCAGATGTGCTGCAAAAGCCTTAGACGTCGAAGAGCATACTCTTCCAGCTAATGTTGTAATTGCTCCTCCTG : ATACACTACTCAAGAAGACAAGTCCCCTTAAAATCTCCAACACTTTGAAGACCACTTGGTGGCGTAGAATGCTCAGAACAATTGCTGAGAGAGGAATTTTGAAGACGAGAGAGGAAAAAAATGGAGCGATGTTTTTCTATAACGCGTTGCTGGTCAATTCTAACTTTTCTGAAGCTTCCTTTAATTTATTTT</gDNA_template>
            <first_frame> P  V  P  N  R  L  *  T  I  N  F  P  V  R  G  K  N  S  G  K  K  M  A  A  A  G  K  C  F  L  V  T  G  P  A  :  G  I  G  K  T  T  L  I  V  R  V  L  E  T  L  R  N  S  N  P  N  L  K  V  Q  G  F  Y  T   : R  E  I  R  E  G  T  E  R  I  G  F  E  V  V  T  L  D  G  R  T  G  L  L  A  S  N  K  I  S  S :   A  Q  S  L  R  W  P  T  V  G  R  Y  R  V  D  V  A  S  F  E  S  L  A  L  Q  E  L  Q  :  V  R  E  D  T  D  L  F  I  I  D  E  I  G  K  M  E  L  Y  S  S  S  F  F  P  A  V  L  K  V  L  Q  S  N  I  P  L  L  A  S  I  P  I  T  K  V  G  R  D  I  P  G   : V  A  R  M  K  N  H  P  G  A  R  V  F  T  L  D  A  N  N  R  D  A  M  R  E  Q  I  C  S  T  L  A  D  V  L  Q  K  P  *  T  S  K  S  I  L  F  Q  L  M  L  *  L  L  L  L  :  I  H  Y  S  R  R  Q  V  P  L  K  S  P  T  L  *  R  P  L  G  G  V  E  C  S  E  Q  L  L  R  E  E  F  *  R  R  E  R  K  K  M  E  R  C  F  S  I  T  R  C  W  S  I  L  T  F  L  K  L  P  L  I  Y  F </first_frame>
            <second_frame>  R  F  R  T  V  Y  K  P  L  I  F  R  *  G  E  K  T  P  A  R  K  W  Q  L  P  E  N  A  S  L  *  L  A  L  L :   V  L  V  R  Q  L  *  *  S  E  Y  L  K  L  S  E  I  Q  I  L  I  *  K  F  K  G  S  T  L  :  V  R  L  E  K  E  L  R  G  L  D  L  R  L  *  R  L  M  D  V  R  G  F  L  L  L  T  K  S  R   : A  R  S  L  L  D  G  P  P  W  E  D  T  G  *  M  L  H  H  L  S  R  W  H  Y  K  S  C  R :   *  G  K  I  P  I  S  S  L  S  M  K  L  G  R  W  S  S  T  A  P  H  S  F  Q  L  Y  L  R  S  F  N  L  I  S  H  S  W  L  L  S  P  L  Q  K  *  A  E  I  Y  L  E  :  L  R  G  *  R  I  I  Q  E  L  E  F  L  H  L  M  Q  I  T  G  M  R  *  E  N  K  Y  A  P  R  *  Q  M  C  C  K  S  L  R  R  R  R  A  Y  S  S  S  *  C  C  N  C  S  S  * :   Y  T  T  Q  E  D  K  S  P  *  N  L  Q  H  F  E  D  H  L  V  A  *  N  A  Q  N  N  C  *  E  R  N  F  E  D  E  R  G  K  K  W  S  D  V  F  L  *  R  V  A  G  Q  F  *  L  F  *  S  F  L  *  F  I   </second_frame>
            <third_frame>   G  S  E  P  S  I  N  H  *  F  S  G  E  G  K  K  L  R  Q  E  N  G  S  C  R  K  M  L  P  C  N  W  P  C   : W  Y  W  *  D  N  F  D  S  Q  S  T  *  N  S  Q  K  F  K  S  *  F  E  S  S  R  V  L  H  S :   *  D  *  R  R  N  *  E  D  W  I  *  G  C  D  A  *  W  T  Y  G  A  S  C  F  *  Q  N  L  E  :  R  A  V  S  *  M  A  H  R  G  K  I  Q  G  R  C  C  I  I  *  V  V  G  I  T  R  V  A   : G  K  G  R  Y  R  S  L  H  Y  R  *  N  W  E  D  G  A  L  Q  L  L  I  L  S  S  C  T  *  G  P  S  I  *  Y  P  T  L  G  F  Y  P  H  Y  K  S  R  P  R  Y  T  W  S :   C  E  D  E  E  S  S  R  S  *  S  F  Y  T  *  C  K  *  Q  G  C  D  E  R  T  N  M  L  H  V  S  R  C  A  A  K  A  L  D  V  E  E  H  T  L  P  A  N  V  V  I  A  P  P   : D  T  L  L  K  K  T  S  P  L  K  I  S  N  T  L  K  T  T  W  W  R  R  M  L  R  T  I  A  E  R  G  I  L  K  T  R  E  E  K  N  G  A  M  F  F  Y  N  A  L  L  V  N  S  N  F  S  E  A  S  F  N  L  F  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0176B05.1" strand="-"/>
                <serials PGL_serial="10" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="63155" stop="63072"/>
                    <exon start="62962" stop="62875"/>
                    <exon start="62530" stop="62440"/>
                    <exon start="58182" stop="58098"/>
                    <exon start="57868" stop="57712"/>
                    <exon start="56282" stop="56167"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>618</number_coding_nucleotides>
                  <number_encoded_amino_acids>206</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TINFPVRGKNSGKKMAAAGKCFLVTGPAGIGKTTLIVRVLETLRNSNPNLKVQGFYTREIREGTERIGFEVVTLDGRTGLLASNKISSAQSLRWPTVGRYRVDVASFESLALQELQVREDTDLFIIDEIGKMELYSSSFFPAVLKVLQSNIPLLASIPITKVGRDIPGVARMKNHPGARVFTLDANNRDAMREQICSTLADVLQKP*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="11" PGL_strand="-" PGL_start="69260" PGL_stop="66771"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="69260" e_stop="69128"/>
            <exon e_start="69027" e_stop="68977"/>
            <exon e_start="68086" e_stop="67985"/>
            <exon e_start="67889" e_stop="67832"/>
            <exon e_start="67730" e_stop="67686"/>
            <exon e_start="67556" e_stop="67476"/>
            <exon e_start="67384" e_stop="67310"/>
            <exon e_start="67225" e_stop="66771"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.980" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.930" acc_prob="0.965" e_score="1.000"/>
          <exon-intron don_prob="0.979" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.996" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.995" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="1.000" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="69260" e_stop="69128" e_length="133"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.997">
            <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="69027" e_stop="68977" e_length="51"/>
          </exon>
          <intron i_serial="2" don_prob="0.980" acc_prob="1.000">
            <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="68086" e_stop="67985" e_length="102"/>
          </exon>
          <intron i_serial="3" don_prob="0.930" acc_prob="0.965">
            <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="67889" e_stop="67832" e_length="58"/>
          </exon>
          <intron i_serial="4" don_prob="0.979" acc_prob="1.000">
            <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="67730" e_stop="67686" e_length="45"/>
          </exon>
          <intron i_serial="5" don_prob="0.996" acc_prob="1.000">
            <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="67556" e_stop="67476" e_length="81"/>
          </exon>
          <intron i_serial="6" don_prob="0.995" acc_prob="1.000">
            <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="67384" e_stop="67310" e_length="75"/>
          </exon>
          <intron i_serial="7" don_prob="0.997" acc_prob="1.000">
            <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="67225" e_stop="66771" e_length="455"/>
          </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="69260" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66968"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E723034" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69259" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66967"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E723052" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69251" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66964"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E718309" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69235" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67096"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344467" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69231" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E747327" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69230" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67054"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E369216" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69230" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67175"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E246803" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69229" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67063"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E326571" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69228" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67195"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E319615" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69227" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E337142" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69226" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67168"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E341739" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69224" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67489"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E338741" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69223" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67173"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E338645" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69218" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67099"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E362465" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69218" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67478"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E361844" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69212" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E727380" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69206" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67493"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E321773" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69192" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66880"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E720983" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69188" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67096"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E245828" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69185" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66875"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E719117" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69171" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66899"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E555456" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69167" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67339"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324547" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69165" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67125"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293251" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69164" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67125"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E300686" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69164" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67194"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295679" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69163" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295093" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69160" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67128"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324785" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69151" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67039"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E718063" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69024" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67122"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E304478" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69013" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67000"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E342712" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69010" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66840"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E703618" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69004" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67017"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E355107" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67186"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E206665" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68031" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67120"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E299321" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67887" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66971"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E349200" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67887" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66971"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E349601" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67887" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67075"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E349147" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67867" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66910"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E254970" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67846" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E369215" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67518" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E541070" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67517" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66967"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294799" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67370" stop="67310"/>
              <exon start="67225" stop="66771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E541067" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67365" stop="67310"/>
              <exon start="67225" stop="66771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E250568" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67353" stop="67310"/>
              <exon start="67225" stop="66969"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340014" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67202" stop="66771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E235143" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67165" stop="66771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E352367" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67137" stop="66875"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E720640" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67127" stop="66771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E228636" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="11" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GATGGAAAAAATTTCTTTTGAGTCCCTCACCAAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG : TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA : GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT : GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT : GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT : GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG : GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG : GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</gDNA_template>
            <first_frame> D  G  K  N  F  F  *  V  P  H  Q  S  P  F  L  S  S  L  H  N  T  H  T  I  H  N  S  S  Q  R  A  K  N  I  S  L  F  F  S  L  S  T  L  E   : V  F  F  *  S  *  K  E  V  N  P  R  G  K  Q  I  T   : S  W  E  *  R  R  V  L  P  R  L  K  K  R  R  M  L  P  R  I  Q  T  S  L  R  G  Q  Q  V  L  S  S  F  S   : W  R  T  S  G  S  S  T  R  K  S  I  Q  A  T  N  L  L  L  L :   L  A  K  L  V  V  T  S  G  N  T  *  L  M  L :   R  R  L  L  T  S  L  R  L  R  N  E  R  L  I  M  R  S  *  W  T  L  T  T  E  N  R :   L  V  K  L  R  K  M  R  N  L  T  S  Q  S  L  R  L  M  R  K  M  E  A  M  R :   K  K  R  M  M  T  E  V  L  M  G  G  S  K  L  V  G  K  L  C  N  T  L  D  I  S  L  Y  D  D  S  L  L  F  P  V  K  Y  L  A  L  F  F  S  L  F  W  G  F  L  G  M  G  K  R  *  I  R  *  E  L  S  L  K  L  S  G  L  C  T  F  Y  S  D  A  G  V  A  *  *  *  C  N  F  L  G  N  L  S  F  F  F  Y  I  C  V  E  L  I  V  C  F  Y  *  N  A  L  F  F  S  L  F  W  G  F  L  G  M  G  K  R  *  I  R  *  E  L  S  L  K  L  S  G  L  C  T  F  Y  S  D  A  G  V  A  *  *  *  C  N  F  L  </first_frame>
            <second_frame>  M  E  K  I  S  F  E  S  L  T  K  A  P  S  Y  P  L  F  T  T  H  T  Q  Y  T  I  H  L  K  G  Q  K  I  S  L  C  F  F  L  S  Q  P  *  K  :  F  F  F  N  H  E  R  R  *  I  Q  G  E  S  R  *  Q  :  A  G  S  E  E  E  C  C  P  D  *  K  R  E  E  C  C  Q  G  S  K  Q  A  *  E  A  S  K  C  F  L  R  F  H  :  G  G  L  Q  E  A  V  Q  G  K  A  S  R  Q  Q  I  C  C  C   : C  W  Q  S  W  W  *  Q  V  E  T  L  D  *  C   : *  E  G  S  L  H  R  *  G  *  E  T  K  G  *  L  *  E  A  N  G  R  L  Q  Q  K  T   : G  W  *  S  *  G  R  *  G  I  *  Q  V  K  V  *  G  *  *  G  R  W  K  R  *   : G  R  R  G  *  *  L  K  C  *  W  E  G  V  N  W  W  G  S  C  V  I  P  *  I  F  L  Y  M  M  T  P  Y  F  S  P  L  N  T  W  L  F  F  L  V  Y  F  G  V  S  *  V  W  E  K  D  E  L  D  E  S  Y  L  *  S  S  V  A  Y  V  L  F  I  L  M  L  V  L  L  N  D  N  A  T  F  *  A  I  C  L  S  F  S  I  F  V  *  S  L  L  F  V  S  I  R  T  L  F  F  L  V  Y  F  G  V  S  *  V  W  E  K  D  E  L  D  E  S  Y  L  *  S  S  V  A  Y  V  L  F  I  L  M  L  V  L  L  N  D  N  A  T  F  * </second_frame>
            <third_frame>   W  K  K  F  L  L  S  P  S  P  K  P  L  L  I  L  S  S  Q  H  T  H  N  T  Q  F  I  S  K  G  K  K  Y  L  F  V  F  F  S  L  N  P  R  S :   F  F  L  I  M  K  G  G  K  S  K  G  K  A  D  N  K :   L  G  V  K  K  S  A  A  Q  T  K  K  E  K  N  A  A  K  D  P  N  K  P  K  R  P  A  S  A  F  F  V  F  M :   E  D  F  R  K  Q  Y  K  E  K  H  P  G  N  K  S  V  A  A  :  V  G  K  A  G  G  D  K  W  K  H  L  T  D  A  :  E  K  A  P  Y  I  A  K  A  E  K  R  K  A  D  Y  E  K  L  M  D  A  Y  N  R  K  Q  :  A  G  E  A  E  E  D  E  E  S  D  K  S  K  S  E  V  D  E  E  D  G  S  D  E  :  E  E  E  D  D  D  *  S  A  N  G  R  E  *  I  G  G  E  A  V  *  Y  L  R  Y  F  S  I  *  *  L  L  T  F  P  R  *  I  L  G  S  F  F  *  F  I  L  G  F  L  R  Y  G  K  K  M  N  *  M  R  A  I  F  K  A  Q  W  L  M  Y  F  L  F  *  C  W  C  C  L  M  I  M  Q  L  F  R  Q  F  V  F  L  F  L  Y  L  C  R  A  Y  C  L  F  L  L  E  R  S  F  F  *  F  I  L  G  F  L  R  Y  G  K  K  M  N  *  M  R  A  I  F  K  A  Q  W  L  M  Y  F  L  F  *  C  W  C  C  L  M  I  M  Q  L  F   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0176B05.1" strand="-"/>
                <serials PGL_serial="11" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="69258" stop="69128"/>
                    <exon start="69027" stop="68977"/>
                    <exon start="68086" stop="67985"/>
                    <exon start="67889" stop="67832"/>
                    <exon start="67730" stop="67686"/>
                    <exon start="67556" stop="67476"/>
                    <exon start="67384" stop="67310"/>
                    <exon start="67225" stop="67205"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>561</number_coding_nucleotides>
                  <number_encoded_amino_acids>187</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>WKKFLLSPSPKPLLILSSQHTHNTQFISKGKKYLFVFFSLNPRSFFLIMKGGKSKGKADNKLGVKKSAAQTKKEKNAAKDPNKPKRPASAFFVFMEDFRKQYKEKHPGNKSVAAVGKAGGDKWKHLTDAEKAPYIAKAEKRKADYEKLMDAYNRKQAGEAEEDEESDKSKSEVDEEDGSDEEEEDDD*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="69235" e_stop="69128"/>
            <exon e_start="69027" e_stop="68977"/>
            <exon e_start="68086" e_stop="67985"/>
            <exon e_start="67889" e_stop="67832"/>
            <exon e_start="67730" e_stop="67686"/>
            <exon e_start="67556" e_stop="67476"/>
            <exon e_start="67384" e_stop="67310"/>
            <exon e_start="67225" e_stop="66969"/>
            <exon e_start="66875" e_stop="66863"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.980" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.930" acc_prob="0.965" e_score="1.000"/>
          <exon-intron don_prob="0.979" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.996" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.995" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.245" acc_prob="0.996" e_score="1.000"/>
          <exon-only e_score="0.583"/>
        </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="69235" e_stop="69128" e_length="108"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.997">
            <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="69027" e_stop="68977" e_length="51"/>
          </exon>
          <intron i_serial="2" don_prob="0.980" acc_prob="1.000">
            <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="68086" e_stop="67985" e_length="102"/>
          </exon>
          <intron i_serial="3" don_prob="0.930" acc_prob="0.965">
            <gDNA_intron_boundary i_start="67984" i_stop="67890" i_length="95"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="67889" e_stop="67832" e_length="58"/>
          </exon>
          <intron i_serial="4" don_prob="0.979" acc_prob="1.000">
            <gDNA_intron_boundary i_start="67831" i_stop="67731" i_length="101"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="67730" e_stop="67686" e_length="45"/>
          </exon>
          <intron i_serial="5" don_prob="0.996" acc_prob="1.000">
            <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="67556" e_stop="67476" e_length="81"/>
          </exon>
          <intron i_serial="6" don_prob="0.995" acc_prob="1.000">
            <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="67384" e_stop="67310" e_length="75"/>
          </exon>
          <intron i_serial="7" don_prob="0.997" acc_prob="1.000">
            <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="67225" e_stop="66969" e_length="257"/>
          </exon>
          <intron i_serial="8" don_prob="0.245" acc_prob="0.996">
            <gDNA_intron_boundary i_start="66968" i_stop="66876" i_length="93"/>
          </intron>
          <exon e_serial="9" e_score="0.583">
            <gDNA_exon_boundary e_start="66875" e_stop="66863" e_length="13"/>
          </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="69235" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67096"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344467" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69230" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67054"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E369216" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69230" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67175"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E246803" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69229" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67063"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E326571" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69228" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67195"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E319615" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69227" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E337142" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69226" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67168"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E341739" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69224" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67489"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E338741" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69223" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67173"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E338645" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69218" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67099"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E362465" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69218" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67478"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E361844" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69206" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67493"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E321773" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69188" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67096"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E245828" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69167" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67339"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324547" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69165" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67125"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293251" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69164" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67125"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E300686" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69164" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67194"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295679" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69163" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295093" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69160" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67128"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324785" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69151" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67039"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E718063" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69024" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67122"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E304478" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69013" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67000"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E342712" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69004" stop="68977"/>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67017"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E355107" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68086" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67186"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E206665" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68031" stop="67985"/>
              <exon start="67889" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67120"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E299321" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67887" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66971"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E349200" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67887" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66971"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E349601" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67887" stop="67832"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67075"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E349147" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67484" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66969"/>
              <exon start="66875" stop="66864"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E306492" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67353" stop="67310"/>
              <exon start="67225" stop="66969"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340014" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67119" stop="66969"/>
              <exon start="66875" stop="66863"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E307546" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="11" AGS_serial="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CTCACCAAAGCCCCTTCTTATCCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG : TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA : GCTGGGAGTGAAGAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCAT : GGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCT : GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT : GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG : GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG : GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG : GTATGGGAAAAAG</gDNA_template>
            <first_frame> L  T  K  A  P  S  Y  P  L  F  T  T  H  T  Q  Y  T  I  H  L  K  G  Q  K  I  S  L  C  F  F  L  S  Q  P  *  K  :  F  F  F  N  H  E  R  R  *  I  Q  G  E  S  R  *  Q  :  A  G  S  E  E  E  C  C  P  D  *  K  R  E  E  C  C  Q  G  S  K  Q  A  *  E  A  S  K  C  F  L  R  F  H  :  G  G  L  Q  E  A  V  Q  G  K  A  S  R  Q  Q  I  C  C  C   : C  W  Q  S  W  W  *  Q  V  E  T  L  D  *  C   : *  E  G  S  L  H  R  *  G  *  E  T  K  G  *  L  *  E  A  N  G  R  L  Q  Q  K  T   : G  W  *  S  *  G  R  *  G  I  *  Q  V  K  V  *  G  *  *  G  R  W  K  R  *   : G  R  R  G  *  *  L  K  C  *  W  E  G  V  N  W  W  G  S  C  V  I  P  *  I  F  L  Y  M  M  T  P  Y  F  S  P  L  N  T  W  L  F  F  L  V  Y  F  G  V  S  *  V  W  E  K  D  E  L  D  E  S  Y  L  *  S  S  V  A  Y  V  L  F  I  L  M  L  V  L  L  N  D  N  A  T  F  *  :  V  W  E  K  </first_frame>
            <second_frame>  S  P  K  P  L  L  I  L  S  S  Q  H  T  H  N  T  Q  F  I  S  K  G  K  K  Y  L  F  V  F  F  S  L  N  P  R  S :   F  F  L  I  M  K  G  G  K  S  K  G  K  A  D  N  K :   L  G  V  K  K  S  A  A  Q  T  K  K  E  K  N  A  A  K  D  P  N  K  P  K  R  P  A  S  A  F  F  V  F  M :   E  D  F  R  K  Q  Y  K  E  K  H  P  G  N  K  S  V  A  A  :  V  G  K  A  G  G  D  K  W  K  H  L  T  D  A  :  E  K  A  P  Y  I  A  K  A  E  K  R  K  A  D  Y  E  K  L  M  D  A  Y  N  R  K  Q  :  A  G  E  A  E  E  D  E  E  S  D  K  S  K  S  E  V  D  E  E  D  G  S  D  E  :  E  E  E  D  D  D  *  S  A  N  G  R  E  *  I  G  G  E  A  V  *  Y  L  R  Y  F  S  I  *  *  L  L  T  F  P  R  *  I  L  G  S  F  F  *  F  I  L  G  F  L  R  Y  G  K  K  M  N  *  M  R  A  I  F  K  A  Q  W  L  M  Y  F  L  F  *  C  W  C  C  L  M  I  M  Q  L  F  R :   Y  G  K  K </second_frame>
            <third_frame>   H  Q  S  P  F  L  S  S  L  H  N  T  H  T  I  H  N  S  S  Q  R  A  K  N  I  S  L  F  F  S  L  S  T  L  E   : V  F  F  *  S  *  K  E  V  N  P  R  G  K  Q  I  T   : S  W  E  *  R  R  V  L  P  R  L  K  K  R  R  M  L  P  R  I  Q  T  S  L  R  G  Q  Q  V  L  S  S  F  S   : W  R  T  S  G  S  S  T  R  K  S  I  Q  A  T  N  L  L  L  L :   L  A  K  L  V  V  T  S  G  N  T  *  L  M  L :   R  R  L  L  T  S  L  R  L  R  N  E  R  L  I  M  R  S  *  W  T  L  T  T  E  N  R :   L  V  K  L  R  K  M  R  N  L  T  S  Q  S  L  R  L  M  R  K  M  E  A  M  R :   K  K  R  M  M  T  E  V  L  M  G  G  S  K  L  V  G  K  L  C  N  T  L  D  I  S  L  Y  D  D  S  L  L  F  P  V  K  Y  L  A  L  F  F  S  L  F  W  G  F  L  G  M  G  K  R  *  I  R  *  E  L  S  L  K  L  S  G  L  C  T  F  Y  S  D  A  G  V  A  *  *  *  C  N  F  L   : G  M  G  K   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0176B05.1" strand="-"/>
                <serials PGL_serial="11" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="69234" stop="69128"/>
                    <exon start="69027" stop="68977"/>
                    <exon start="68086" stop="67985"/>
                    <exon start="67889" stop="67832"/>
                    <exon start="67730" stop="67686"/>
                    <exon start="67556" stop="67476"/>
                    <exon start="67384" stop="67310"/>
                    <exon start="67225" stop="67205"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>537</number_coding_nucleotides>
                  <number_encoded_amino_acids>179</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SPKPLLILSSQHTHNTQFISKGKKYLFVFFSLNPRSFFLIMKGGKSKGKADNKLGVKKSAAQTKKEKNAAKDPNKPKRPASAFFVFMEDFRKQYKEKHPGNKSVAAVGKAGGDKWKHLTDAEKAPYIAKAEKRKADYEKLMDAYNRKQAGEAEEDEESDKSKSEVDEEDGSDEEEEDDD*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="69214" e_stop="69128"/>
            <exon e_start="69027" e_stop="68977"/>
            <exon e_start="68086" e_stop="68065"/>
            <exon e_start="67730" e_stop="67686"/>
            <exon e_start="67556" e_stop="67476"/>
            <exon e_start="67384" e_stop="67310"/>
            <exon e_start="67225" e_stop="66771"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.980" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.000" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.996" acc_prob="1.000" e_score="0.911"/>
          <exon-intron don_prob="0.995" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="1.000" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="69214" e_stop="69128" e_length="87"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.997">
            <gDNA_intron_boundary i_start="69127" i_stop="69028" i_length="100"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="69027" e_stop="68977" e_length="51"/>
          </exon>
          <intron i_serial="2" don_prob="0.980" acc_prob="1.000">
            <gDNA_intron_boundary i_start="68976" i_stop="68087" i_length="890"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="68086" e_stop="68065" e_length="22"/>
          </exon>
          <intron i_serial="3" don_prob="0.000" acc_prob="1.000">
            <gDNA_intron_boundary i_start="68064" i_stop="67731" i_length="334"/>
          </intron>
          <exon e_serial="4" e_score="0.911">
            <gDNA_exon_boundary e_start="67730" e_stop="67686" e_length="45"/>
          </exon>
          <intron i_serial="4" don_prob="0.996" acc_prob="1.000">
            <gDNA_intron_boundary i_start="67685" i_stop="67557" i_length="129"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="67556" e_stop="67476" e_length="81"/>
          </exon>
          <intron i_serial="5" don_prob="0.995" acc_prob="1.000">
            <gDNA_intron_boundary i_start="67475" i_stop="67385" i_length="91"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="67384" e_stop="67310" e_length="75"/>
          </exon>
          <intron i_serial="6" don_prob="0.997" acc_prob="1.000">
            <gDNA_intron_boundary i_start="67309" i_stop="67226" i_length="84"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="67225" e_stop="66771" e_length="455"/>
          </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="69214" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="68065"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66969"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E688158" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="69213" stop="69128"/>
              <exon start="69027" stop="68977"/>
              <exon start="68086" stop="68065"/>
              <exon start="67730" stop="67686"/>
              <exon start="67556" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="67137"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E335855" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67518" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E541070" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67517" stop="67476"/>
              <exon start="67384" stop="67310"/>
              <exon start="67225" stop="66967"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294799" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67370" stop="67310"/>
              <exon start="67225" stop="66771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E541067" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67365" stop="67310"/>
              <exon start="67225" stop="66771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E250568" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67353" stop="67310"/>
              <exon start="67225" stop="66969"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340014" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67202" stop="66771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E235143" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67165" stop="66771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E352367" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67137" stop="66875"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E720640" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67127" stop="66771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E228636" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="11" AGS_serial="3" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CCTCTCTTCACAACACACACACAATACACAATTCATCTCAAAGGGCAAAAAATATCTCTTTGTTTTTTTCTCTCTCAACCCTAGAAG : TTTTTTTTTAATCATGAAAGGAGGTAAATCCAAGGGGAAAGCAGATAACAA : GCTGGGAGTGAAGAAGAGTGCT : GTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCT : GAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAG : GCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAG : GAAGAAGAGGATGATGACTGAAGTGCTAATGGGAGGGAGTAAATTGGTGGGGAAGCTGTGTAATACCTTAGATATTTCTCTATATGATGACTCCTTACTTTTCCCCGTTAAATACTTGGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAGGCAATTTGTCTTTCTTTTTCTATATTTGTGTAGAGCTTATTGTTTGTTTCTATTAGAACGCTCTTTTTTTTAGTTTATTTTGGGGTTTCTTAGGTATGGGAAAAAGATGAATTAGATGAGAGCTATCTTTAAAGCTCAGTGGCTTATGTACTTTTTATTCTGATGCTGGTGTTGCTTAATGATAATGCAACTTTTTAG</gDNA_template>
            <first_frame> P  L  F  T  T  H  T  Q  Y  T  I  H  L  K  G  Q  K  I  S  L  C  F  F  L  S  Q  P  *  K  :  F  F  F  N  H  E  R  R  *  I  Q  G  E  S  R  *  Q  :  A  G  S  E  E  E  C   : C  W  Q  S  W  W  *  Q  V  E  T  L  D  *  C   : *  E  G  S  L  H  R  *  G  *  E  T  K  G  *  L  *  E  A  N  G  R  L  Q  Q  K  T   : G  W  *  S  *  G  R  *  G  I  *  Q  V  K  V  *  G  *  *  G  R  W  K  R  *   : G  R  R  G  *  *  L  K  C  *  W  E  G  V  N  W  W  G  S  C  V  I  P  *  I  F  L  Y  M  M  T  P  Y  F  S  P  L  N  T  W  L  F  F  L  V  Y  F  G  V  S  *  V  W  E  K  D  E  L  D  E  S  Y  L  *  S  S  V  A  Y  V  L  F  I  L  M  L  V  L  L  N  D  N  A  T  F  *  A  I  C  L  S  F  S  I  F  V  *  S  L  L  F  V  S  I  R  T  L  F  F  L  V  Y  F  G  V  S  *  V  W  E  K  D  E  L  D  E  S  Y  L  *  S  S  V  A  Y  V  L  F  I  L  M  L  V  L  L  N  D  N  A  T  F  * </first_frame>
            <second_frame>  L  S  S  Q  H  T  H  N  T  Q  F  I  S  K  G  K  K  Y  L  F  V  F  F  S  L  N  P  R  S :   F  F  L  I  M  K  G  G  K  S  K  G  K  A  D  N  K :   L  G  V  K  K  S  A  :  V  G  K  A  G  G  D  K  W  K  H  L  T  D  A  :  E  K  A  P  Y  I  A  K  A  E  K  R  K  A  D  Y  E  K  L  M  D  A  Y  N  R  K  Q  :  A  G  E  A  E  E  D  E  E  S  D  K  S  K  S  E  V  D  E  E  D  G  S  D  E  :  E  E  E  D  D  D  *  S  A  N  G  R  E  *  I  G  G  E  A  V  *  Y  L  R  Y  F  S  I  *  *  L  L  T  F  P  R  *  I  L  G  S  F  F  *  F  I  L  G  F  L  R  Y  G  K  K  M  N  *  M  R  A  I  F  K  A  Q  W  L  M  Y  F  L  F  *  C  W  C  C  L  M  I  M  Q  L  F  R  Q  F  V  F  L  F  L  Y  L  C  R  A  Y  C  L  F  L  L  E  R  S  F  F  *  F  I  L  G  F  L  R  Y  G  K  K  M  N  *  M  R  A  I  F  K  A  Q  W  L  M  Y  F  L  F  *  C  W  C  C  L  M  I  M  Q  L  F   </second_frame>
            <third_frame>   S  L  H  N  T  H  T  I  H  N  S  S  Q  R  A  K  N  I  S  L  F  F  S  L  S  T  L  E   : V  F  F  *  S  *  K  E  V  N  P  R  G  K  Q  I  T   : S  W  E  *  R  R  V  L :   L  A  K  L  V  V  T  S  G  N  T  *  L  M  L :   R  R  L  L  T  S  L  R  L  R  N  E  R  L  I  M  R  S  *  W  T  L  T  T  E  N  R :   L  V  K  L  R  K  M  R  N  L  T  S  Q  S  L  R  L  M  R  K  M  E  A  M  R :   K  K  R  M  M  T  E  V  L  M  G  G  S  K  L  V  G  K  L  C  N  T  L  D  I  S  L  Y  D  D  S  L  L  F  P  V  K  Y  L  A  L  F  F  S  L  F  W  G  F  L  G  M  G  K  R  *  I  R  *  E  L  S  L  K  L  S  G  L  C  T  F  Y  S  D  A  G  V  A  *  *  *  C  N  F  L  G  N  L  S  F  F  F  Y  I  C  V  E  L  I  V  C  F  Y  *  N  A  L  F  F  S  L  F  W  G  F  L  G  M  G  K  R  *  I  R  *  E  L  S  L  K  L  S  G  L  C  T  F  Y  S  D  A  G  V  A  *  *  *  C  N  F  L  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0176B05.1" strand="-"/>
                <serials PGL_serial="11" AGS_serial="3" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="69213" stop="69128"/>
                    <exon start="69027" stop="68977"/>
                    <exon start="68086" stop="68065"/>
                    <exon start="67730" stop="67686"/>
                    <exon start="67556" stop="67476"/>
                    <exon start="67384" stop="67310"/>
                    <exon start="67225" stop="67205"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>378</number_coding_nucleotides>
                  <number_encoded_amino_acids>126</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LSSQHTHNTQFISKGKKYLFVFFSLNPRSFFLIMKGGKSKGKADNKLGVKKSAVGKAGGDKWKHLTDAEKAPYIAKAEKRKADYEKLMDAYNRKQAGEAEEDEESDKSKSEVDEEDGSDEEEEDDD*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="4">
          <exon_coordinates>
            <exon e_start="68074" e_stop="67227"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.996"/>
        </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="0.996">
            <gDNA_exon_boundary e_start="68074" e_stop="67227" e_length="848"/>
          </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="68074" stop="67227"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E689154" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68073" stop="67582"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324683" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="11" AGS_serial="4" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GAAGAGTGCTGCCCAGACTAAAAAAGAGAAGAATGCTGCCAAGGATCCAAACAAGCCTAAGAGGCCAGCAAGTGCTTTCTTCGTTTTCATGTACACATCAGAACTCTGTTCTTAAGATTTATGGTGACACTCAGCTTCGTAAATCCTGATTTAATAATGTTATTTTCGTGGCTTGGTATATTAAGGGAGGACTTCAGGAAGCAGTACAAGGAAAAGCATCCAGGCAACAAATCTGTTGCTGCTGTGAGTATTTTCTCTTGTCAGACCTGAAGCCGAGACTGATTTTGTGCTTGAAACTGGTATTTGATTGAGAGCTGTTTTCTCTTTGATTAATCAATCTATAGGTTGGCAAAGCTGGTGGTGACAAGTGGAAACACTTGACTGATGCTGTAAGTATCTGTGTTTTAGCTATTTTTAAAATGCTGTATCGAGACTTAGTGATGTTGCAGTCTTGTTTTAGTCATCGAGTTTTGTTCTATTGATATTGAATTTTGTGTTGTTTGAAATCATGAATACAGGAGAAGGCTCCTTACATCGCTAAGGCTGAGAAACGAAAGGCTGATTATGAGAAGCTAATGGACGCTTACAACAGAAAACAGGTGATGAAATATCTGCAAATTGTACATGCTTATCTTTTTTTTCCTGATTGGTTATTTGTGCTAAAGAAACTCCATATCTTCTGCTGTATAGGCTGGTGAAGCTGAGGAAGATGAGGAATCTGACAAGTCAAAGTCTGAGGTTGATGAGGAAGATGGAAGCGATGAGGTTTGTAATGGGCAATGATCAATATCTTGTTTTGTCTGTTTAACTTTAGGTCTTGTATTGATGATTTTACTTTGATTAACACA</gDNA_template>
            <first_frame> E  E  C  C  P  D  *  K  R  E  E  C  C  Q  G  S  K  Q  A  *  E  A  S  K  C  F  L  R  F  H  V  H  I  R  T  L  F  L  R  F  M  V  T  L  S  F  V  N  P  D  L  I  M  L  F  S  W  L  G  I  L  R  E  D  F  R  K  Q  Y  K  E  K  H  P  G  N  K  S  V  A  A  V  S  I  F  S  C  Q  T  *  S  R  D  *  F  C  A  *  N  W  Y  L  I  E  S  C  F  L  F  D  *  S  I  Y  R  L  A  K  L  V  V  T  S  G  N  T  *  L  M  L  *  V  S  V  F  *  L  F  L  K  C  C  I  E  T  *  *  C  C  S  L  V  L  V  I  E  F  C  S  I  D  I  E  F  C  V  V  *  N  H  E  Y  R  R  R  L  L  T  S  L  R  L  R  N  E  R  L  I  M  R  S  *  W  T  L  T  T  E  N  R  *  *  N  I  C  K  L  Y  M  L  I  F  F  F  L  I  G  Y  L  C  *  R  N  S  I  S  S  A  V  *  A  G  E  A  E  E  D  E  E  S  D  K  S  K  S  E  V  D  E  E  D  G  S  D  E  V  C  N  G  Q  *  S  I  S  C  F  V  C  L  T  L  G  L  V  L  M  I  L  L  *  L  T   </first_frame>
            <second_frame>  K  S  A  A  Q  T  K  K  E  K  N  A  A  K  D  P  N  K  P  K  R  P  A  S  A  F  F  V  F  M  Y  T  S  E  L  C  S  *  D  L  W  *  H  S  A  S  *  I  L  I  *  *  C  Y  F  R  G  L  V  Y  *  G  R  T  S  G  S  S  T  R  K  S  I  Q  A  T  N  L  L  L  L  *  V  F  S  L  V  R  P  E  A  E  T  D  F  V  L  E  T  G  I  *  L  R  A  V  F  S  L  I  N  Q  S  I  G  W  Q  S  W  W  *  Q  V  E  T  L  D  *  C  C  K  Y  L  C  F  S  Y  F  *  N  A  V  S  R  L  S  D  V  A  V  L  F  *  S  S  S  F  V  L  L  I  L  N  F  V  L  F  E  I  M  N  T  G  E  G  S  L  H  R  *  G  *  E  T  K  G  *  L  *  E  A  N  G  R  L  Q  Q  K  T  G  D  E  I  S  A  N  C  T  C  L  S  F  F  S  *  L  V  I  C  A  K  E  T  P  Y  L  L  L  Y  R  L  V  K  L  R  K  M  R  N  L  T  S  Q  S  L  R  L  M  R  K  M  E  A  M  R  F  V  M  G  N  D  Q  Y  L  V  L  S  V  *  L  *  V  L  Y  *  *  F  Y  F  D  *  H  </second_frame>
            <third_frame>   R  V  L  P  R  L  K  K  R  R  M  L  P  R  I  Q  T  S  L  R  G  Q  Q  V  L  S  S  F  S  C  T  H  Q  N  S  V  L  K  I  Y  G  D  T  Q  L  R  K  S  *  F  N  N  V  I  F  V  A  W  Y  I  K  G  G  L  Q  E  A  V  Q  G  K  A  S  R  Q  Q  I  C  C  C  C  E  Y  F  L  L  S  D  L  K  P  R  L  I  L  C  L  K  L  V  F  D  *  E  L  F  S  L  *  L  I  N  L  *  V  G  K  A  G  G  D  K  W  K  H  L  T  D  A  V  S  I  C  V  L  A  I  F  K  M  L  Y  R  D  L  V  M  L  Q  S  C  F  S  H  R  V  L  F  Y  *  Y  *  I  L  C  C  L  K  S  *  I  Q  E  K  A  P  Y  I  A  K  A  E  K  R  K  A  D  Y  E  K  L  M  D  A  Y  N  R  K  Q  V  M  K  Y  L  Q  I  V  H  A  Y  L  F  F  P  D  W  L  F  V  L  K  K  L  H  I  F  C  C  I  G  W  *  S  *  G  R  *  G  I  *  Q  V  K  V  *  G  *  *  G  R  W  K  R  *  G  L  *  W  A  M  I  N  I  L  F  C  L  F  N  F  R  S  C  I  D  D  F  T  L  I  N  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="C03HBa0176B05.1" strand="-"/>
                <serials PGL_serial="11" AGS_serial="4" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="68014" stop="67805"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>207</number_coding_nucleotides>
                  <number_encoded_amino_acids>69</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EASKCFLRFHVHIRTLFLRFMVTLSFVNPDLIMLFSWLGILREDFRKQYKEKHPGNKSVAAVSIFSCQT*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="12" PGL_strand="+" PGL_start="76501" PGL_stop="76975"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="76501" e_stop="76975"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.996"/>
        </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="0.996">
            <gDNA_exon_boundary e_start="76501" e_stop="76975" e_length="475"/>
          </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="76501" stop="76975"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324246" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="12" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>CCGGAGCTTCAAATTGAGCCAATTGATTGAATTTTTCAGATTTTTCAGTGAATTTCTAATAGCTATGTACGGATCAAGAAGGTAAGTTTACCTAATTCCCTTTGGTTTGATAAAATTTAATGCTTTGTTGAAGAGGTGAATTGGGCGTTTTGTTCTGTTGATGTGTTTTTCCGCCTTATTTCCCCGATTTCATTTGTTTTAATTGATATTTTTTGTTGATTTTGATGCGCAATTACTGAATTGCTTGATTATTTGTTCAACCTCTGCTTGATTTAAGCCGAGTTGTGGAGAATCTTCACTTTTGATGCCTCACCTGTGTCGGAGTTTCCTAAATTACACTACTTTTGGAGAATTCGTCAACACAAGTTGACATTTTTGAAGAGTTAGAGCAACATGGTATTTAAAGAACCACGCAGGAGAAATTATGGATGTAGTCATTATTGGTTAACACTTTTGTAGAACAAAGGATTGATTT</gDNA_template>
            <first_frame> P  E  L  Q  I  E  P  I  D  *  I  F  Q  I  F  Q  *  I  S  N  S  Y  V  R  I  K  K  V  S  L  P  N  S  L  W  F  D  K  I  *  C  F  V  E  E  V  N  W  A  F  C  S  V  D  V  F  F  R  L  I  S  P  I  S  F  V  L  I  D  I  F  C  *  F  *  C  A  I  T  E  L  L  D  Y  L  F  N  L  C  L  I  *  A  E  L  W  R  I  F  T  F  D  A  S  P  V  S  E  F  P  K  L  H  Y  F  W  R  I  R  Q  H  K  L  T  F  L  K  S  *  S  N  M  V  F  K  E  P  R  R  R  N  Y  G  C  S  H  Y  W  L  T  L  L  *  N  K  G  L  I  </first_frame>
            <second_frame>  R  S  F  K  L  S  Q  L  I  E  F  F  R  F  F  S  E  F  L  I  A  M  Y  G  S  R  R  *  V  Y  L  I  P  F  G  L  I  K  F  N  A  L  L  K  R  *  I  G  R  F  V  L  L  M  C  F  S  A  L  F  P  R  F  H  L  F  *  L  I  F  F  V  D  F  D  A  Q  L  L  N  C  L  I  I  C  S  T  S  A  *  F  K  P  S  C  G  E  S  S  L  L  M  P  H  L  C  R  S  F  L  N  Y  T  T  F  G  E  F  V  N  T  S  *  H  F  *  R  V  R  A  T  W  Y  L  K  N  H  A  G  E  I  M  D  V  V  I  I  G  *  H  F  C  R  T  K  D  *  F </second_frame>
            <third_frame>   G  A  S  N  *  A  N  *  L  N  F  S  D  F  S  V  N  F  *  *  L  C  T  D  Q  E  G  K  F  T  *  F  P  L  V  *  *  N  L  M  L  C  *  R  G  E  L  G  V  L  F  C  *  C  V  F  P  P  Y  F  P  D  F  I  C  F  N  *  Y  F  L  L  I  L  M  R  N  Y  *  I  A  *  L  F  V  Q  P  L  L  D  L  S  R  V  V  E  N  L  H  F  *  C  L  T  C  V  G  V  S  *  I  T  L  L  L  E  N  S  S  T  Q  V  D  I  F  E  E  L  E  Q  H  G  I  *  R  T  T  Q  E  K  L  W  M  *  S  L  L  V  N  T  F  V  E  Q  R  I  D   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C03HBa0176B05.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="13" PGL_strand="+" PGL_start="77141" PGL_stop="77765"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="77141" e_stop="77765"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.998"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.998">
            <gDNA_exon_boundary e_start="77141" e_stop="77765" e_length="625"/>
          </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="77141" stop="77765"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E245713" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="13" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TGCATCATCCCAGAGTATAAAAGAATGCATTTGGCCGCCCAAAAAGTTGTCTCGACATGGATTTCTCGGACATAAAAAAGAAGAAGATCAGACCATCAACAGTTTGAAATTGTGATTTTAGAGTTAATTGATTGACCAAAAGAAGAAGATCATACCATAAACTGCTACTAGTTTGGAATTGTGATTTGAGAGTTTATTGATTGACCGAATTTAAACCTGCATGTAAGGCTGTAACCGAACCCCTCTGACCAAACGAAAAAAGAAGACCTTTCTATTTGGTGGAACGGGAAGCATTTGAGCTTTAAGATTCCTTAATACAAGGTATTACTTCATCAAATAATACCTCGTCTTAAGATTCCTTTTTTTCTTTTTGACCTAAGAAGTGTAAAAACAAAACCTTTGACTTTTTTTCAGTTCCCGTTGTTATCCGACCTTTAAGGGGTTGTTGATAGAGTAACAACAATTTCTTAAAGGGAGATTCTCTATCTCAACATAAGAACCTTATAAGTGAAATGTTTGAACTTTTAAGTTCACATAGTTATCACGTTTTTAGGTTATGGTAACCAATGCAAATTTCTTGATCACAGGATAGCTTAAGTCTTTAAGATACCATATTAGTTATCTA</gDNA_template>
            <first_frame> C  I  I  P  E  Y  K  R  M  H  L  A  A  Q  K  V  V  S  T  W  I  S  R  T  *  K  R  R  R  S  D  H  Q  Q  F  E  I  V  I  L  E  L  I  D  *  P  K  E  E  D  H  T  I  N  C  Y  *  F  G  I  V  I  *  E  F  I  D  *  P  N  L  N  L  H  V  R  L  *  P  N  P  S  D  Q  T  K  K  E  D  L  S  I  W  W  N  G  K  H  L  S  F  K  I  P  *  Y  K  V  L  L  H  Q  I  I  P  R  L  K  I  P  F  F  L  F  D  L  R  S  V  K  T  K  P  L  T  F  F  Q  F  P  L  L  S  D  L  *  G  V  V  D  R  V  T  T  I  S  *  R  E  I  L  Y  L  N  I  R  T  L  *  V  K  C  L  N  F  *  V  H  I  V  I  T  F  L  G  Y  G  N  Q  C  K  F  L  D  H  R  I  A  *  V  F  K  I  P  Y  *  L  S  </first_frame>
            <second_frame>  A  S  S  Q  S  I  K  E  C  I  W  P  P  K  K  L  S  R  H  G  F  L  G  H  K  K  E  E  D  Q  T  I  N  S  L  K  L  *  F  *  S  *  L  I  D  Q  K  K  K  I  I  P  *  T  A  T  S  L  E  L  *  F  E  S  L  L  I  D  R  I  *  T  C  M  *  G  C  N  R  T  P  L  T  K  R  K  K  K  T  F  L  F  G  G  T  G  S  I  *  A  L  R  F  L  N  T  R  Y  Y  F  I  K  *  Y  L  V  L  R  F  L  F  F  F  L  T  *  E  V  *  K  Q  N  L  *  L  F  F  S  S  R  C  Y  P  T  F  K  G  L  L  I  E  *  Q  Q  F  L  K  G  R  F  S  I  S  T  *  E  P  Y  K  *  N  V  *  T  F  K  F  T  *  L  S  R  F  *  V  M  V  T  N  A  N  F  L  I  T  G  *  L  K  S  L  R  Y  H  I  S  Y  L </second_frame>
            <third_frame>   H  H  P  R  V  *  K  N  A  F  G  R  P  K  S  C  L  D  M  D  F  S  D  I  K  K  K  K  I  R  P  S  T  V  *  N  C  D  F  R  V  N  *  L  T  K  R  R  R  S  Y  H  K  L  L  L  V  W  N  C  D  L  R  V  Y  *  L  T  E  F  K  P  A  C  K  A  V  T  E  P  L  *  P  N  E  K  R  R  P  F  Y  L  V  E  R  E  A  F  E  L  *  D  S  L  I  Q  G  I  T  S  S  N  N  T  S  S  *  D  S  F  F  S  F  *  P  K  K  C  K  N  K  T  F  D  F  F  S  V  P  V  V  I  R  P  L  R  G  C  *  *  S  N  N  N  F  L  K  G  D  S  L  S  Q  H  K  N  L  I  S  E  M  F  E  L  L  S  S  H  S  Y  H  V  F  R  L  W  *  P  M  Q  I  S  *  S  Q  D  S  L  S  L  *  D  T  I  L  V  I   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C03HBa0176B05.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="14" PGL_strand="+" PGL_start="78452" PGL_stop="79520"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="78452" e_stop="79520"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="78452" e_stop="79520" e_length="1069"/>
          </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="78452" stop="79057"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E731168" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="78822" stop="79520"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E578034" strand="-"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="14" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GTGGGGGATTTTTTTCCTTTTTGGGTATCATAATTGAAGGGCAATGTTGGGGAGCGGGGGGGTTTCGGACGGGTACGAGAATGGCTCAAAGAGACCAAGAATGATGGAATCAAATCCCTGCTTCGCAGTGAGCAGCGGTTCAAGCGGTTATCACCAGCCTTATGGCTATGGCAGCGGCAGATTTCAGCCCTCTGGATTTCCTGTTGTTCGTTTGAGGGGTCTTCCGTTCAACTGCACTGAAATTGACATTCACAAGTTCTTTGCTGGCCTGGATATTGTGGATGTTTTCCTGGTCAACAAGGATGGACGGTTCGTTGGGGAGGCTTTTGTTGTCTTTGCTGGTCATATGCAAGTTGATTATGCTCTTCAAAGGGACAGACAGAACATGGGGAGGAGATATGTGGAAGTTTTCAGCTGTAAGAAAGAAGAGTATTACCAAGCTGTAGCTGCTGAGGTGAAGGAAGGAGGTAAGGATAATGAATATCGTTCCCCTCCTCTATCTCGACCAAAGAGGTCAGTGAACAAAGATGATATGGAGTACTCTGTGATACTGAAATTGCGAGGTCTCCCATACAGTGTTAGAAAAACAGATATTGGCAGGTTTTTCGGTGAGGAATTTAATGTTAAACCTGACAAGGTACACATTGCATACCGCTCTGATGGAAAAGCTACTGGAGAGGCTTATGTGGAATTCGCCTCTACTGAAGAAGCCAAGAAAGCTATGTGCAAGGACAATATGAAGATTGGATCTAGGTATATTGAACTATTTCCTTCTCATCCAGATGAAGCTAGACGAGCCGAGTCAAGGTCACAACACTGATGCCAAATACTTTGCAATGTGAAGCATTTTTAAGCATCACATGTTTTCTATACCTGTTTCTACTGTGGATTAGTCTTGCACTTGTTAAACATTGTCTTCTCTGATTACTGTCATTACTGTATGATGATGATTATATCCCCGTAAGTATGCATTTTGAGACATTAATAGGAACAGGTTTATAGTCTCTGGTTCTCACTCTTGGCTATTTCTTTAGTTTTGGTTTTTGCTTAATTCACTTTGATTAGTGTC</gDNA_template>
            <first_frame> V  G  D  F  F  P  F  W  V  S  *  L  K  G  N  V  G  E  R  G  G  F  G  R  V  R  E  W  L  K  E  T  K  N  D  G  I  K  S  L  L  R  S  E  Q  R  F  K  R  L  S  P  A  L  W  L  W  Q  R  Q  I  S  A  L  W  I  S  C  C  S  F  E  G  S  S  V  Q  L  H  *  N  *  H  S  Q  V  L  C  W  P  G  Y  C  G  C  F  P  G  Q  Q  G  W  T  V  R  W  G  G  F  C  C  L  C  W  S  Y  A  S  *  L  C  S  S  K  G  Q  T  E  H  G  E  E  I  C  G  S  F  Q  L  *  E  R  R  V  L  P  S  C  S  C  *  G  E  G  R  R  *  G  *  *  I  S  F  P  S  S  I  S  T  K  E  V  S  E  Q  R  *  Y  G  V  L  C  D  T  E  I  A  R  S  P  I  Q  C  *  K  N  R  Y  W  Q  V  F  R  *  G  I  *  C  *  T  *  Q  G  T  H  C  I  P  L  *  W  K  S  Y  W  R  G  L  C  G  I  R  L  Y  *  R  S  Q  E  S  Y  V  Q  G  Q  Y  E  D  W  I  *  V  Y  *  T  I  S  F  S  S  R  *  S  *  T  S  R  V  K  V  T  T  L  M  P  N  T  L  Q  C  E  A  F  L  S  I  T  C  F  L  Y  L  F  L  L  W  I  S  L  A  L  V  K  H  C  L  L  *  L  L  S  L  L  Y  D  D  D  Y  I  P  V  S  M  H  F  E  T  L  I  G  T  G  L  *  S  L  V  L  T  L  G  Y  F  F  S  F  G  F  C  L  I  H  F  D  *  C  </first_frame>
            <second_frame>  W  G  I  F  F  L  F  G  Y  H  N  *  R  A  M  L  G  S  G  G  V  S  D  G  Y  E  N  G  S  K  R  P  R  M  M  E  S  N  P  C  F  A  V  S  S  G  S  S  G  Y  H  Q  P  Y  G  Y  G  S  G  R  F  Q  P  S  G  F  P  V  V  R  L  R  G  L  P  F  N  C  T  E  I  D  I  H  K  F  F  A  G  L  D  I  V  D  V  F  L  V  N  K  D  G  R  F  V  G  E  A  F  V  V  F  A  G  H  M  Q  V  D  Y  A  L  Q  R  D  R  Q  N  M  G  R  R  Y  V  E  V  F  S  C  K  K  E  E  Y  Y  Q  A  V  A  A  E  V  K  E  G  G  K  D  N  E  Y  R  S  P  P  L  S  R  P  K  R  S  V  N  K  D  D  M  E  Y  S  V  I  L  K  L  R  G  L  P  Y  S  V  R  K  T  D  I  G  R  F  F  G  E  E  F  N  V  K  P  D  K  V  H  I  A  Y  R  S  D  G  K  A  T  G  E  A  Y  V  E  F  A  S  T  E  E  A  K  K  A  M  C  K  D  N  M  K  I  G  S  R  Y  I  E  L  F  P  S  H  P  D  E  A  R  R  A  E  S  R  S  Q  H  *  C  Q  I  L  C  N  V  K  H  F  *  A  S  H  V  F  Y  T  C  F  Y  C  G  L  V  L  H  L  L  N  I  V  F  S  D  Y  C  H  Y  C  M  M  M  I  I  S  P  *  V  C  I  L  R  H  *  *  E  Q  V  Y  S  L  W  F  S  L  L  A  I  S  L  V  L  V  F  A  *  F  T  L  I  S  V </second_frame>
            <third_frame>   G  G  F  F  S  F  L  G  I  I  I  E  G  Q  C  W  G  A  G  G  F  R  T  G  T  R  M  A  Q  R  D  Q  E  *  W  N  Q  I  P  A  S  Q  *  A  A  V  Q  A  V  I  T  S  L  M  A  M  A  A  A  D  F  S  P  L  D  F  L  L  F  V  *  G  V  F  R  S  T  A  L  K  L  T  F  T  S  S  L  L  A  W  I  L  W  M  F  S  W  S  T  R  M  D  G  S  L  G  R  L  L  L  S  L  L  V  I  C  K  L  I  M  L  F  K  G  T  D  R  T  W  G  G  D  M  W  K  F  S  A  V  R  K  K  S  I  T  K  L  *  L  L  R  *  R  K  E  V  R  I  M  N  I  V  P  L  L  Y  L  D  Q  R  G  Q  *  T  K  M  I  W  S  T  L  *  Y  *  N  C  E  V  S  H  T  V  L  E  K  Q  I  L  A  G  F  S  V  R  N  L  M  L  N  L  T  R  Y  T  L  H  T  A  L  M  E  K  L  L  E  R  L  M  W  N  S  P  L  L  K  K  P  R  K  L  C  A  R  T  I  *  R  L  D  L  G  I  L  N  Y  F  L  L  I  Q  M  K  L  D  E  P  S  Q  G  H  N  T  D  A  K  Y  F  A  M  *  S  I  F  K  H  H  M  F  S  I  P  V  S  T  V  D  *  S  C  T  C  *  T  L  S  S  L  I  T  V  I  T  V  *  *  *  L  Y  P  R  K  Y  A  F  *  D  I  N  R  N  R  F  I  V  S  G  S  H  S  W  L  F  L  *  F  W  F  L  L  N  S  L  *  L  V   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0176B05.1" strand="+"/>
                <serials PGL_serial="14" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="78489" stop="79271"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>780</number_coding_nucleotides>
                  <number_encoded_amino_acids>260</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RAMLGSGGVSDGYENGSKRPRMMESNPCFAVSSGSSGYHQPYGYGSGRFQPSGFPVVRLRGLPFNCTEIDIHKFFAGLDIVDVFLVNKDGRFVGEAFVVFAGHMQVDYALQRDRQNMGRRYVEVFSCKKEEYYQAVAAEVKEGGKDNEYRSPPLSRPKRSVNKDDMEYSVILKLRGLPYSVRKTDIGRFFGEEFNVKPDKVHIAYRSDGKATGEAYVEFASTEEAKKAMCKDNMKIGSRYIELFPSHPDEARRAESRSQH*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="15" PGL_strand="+" PGL_start="83422" PGL_stop="83864"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="83422" e_stop="83864"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.930"/>
        </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="0.930">
            <gDNA_exon_boundary e_start="83422" e_stop="83864" e_length="443"/>
          </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="83422" stop="83746"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E393076" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="83422" stop="83729"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E393075" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="83422" stop="83574"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E392727" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="83423" stop="83864"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E200845" 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="15" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TAAAATGTATGTATATTGCATAATTATAAGTGTATAACAAGAAGATATATGTTTTTCTCTCGCTCTATACAAAAACAGAAACACAATATATACACATCTGTTGTATAAAGCTAGAGAAAATTGTATTTCACTGCAATTATATAATTCGCAATTGTATAATTCGTTGGCCTTTTTCTCTGTAATATTTGAAGTAAAATGTTTGTAAATTGTATAATTAAGTGTGTAACACGAAGATATATATTTTTGCATGTGTTTATACAATTTTCTCTCGCTTTATATAAAACAGAAACAGAATTTATACACTTCTGTGTATAAAGTGAGAGAGGTGAGCGAGAATGGAGAGTGGGCGAGCGAGATTTTTGGGAGGAAGTCGTCTGGCAAACTTTAGCTAACGTTTGCTATGGAGTACAATTAAATCAAACCCTAGTTACTCCATTATTTAG</gDNA_template>
            <first_frame> *  N  V  C  I  L  H  N  Y  K  C  I  T  R  R  Y  M  F  F  S  R  S  I  Q  K  Q  K  H  N  I  Y  T  S  V  V  *  S  *  R  K  L  Y  F  T  A  I  I  *  F  A  I  V  *  F  V  G  L  F  L  C  N  I  *  S  K  M  F  V  N  C  I  I  K  C  V  T  R  R  Y  I  F  L  H  V  F  I  Q  F  S  L  A  L  Y  K  T  E  T  E  F  I  H  F  C  V  *  S  E  R  G  E  R  E  W  R  V  G  E  R  D  F  W  E  E  V  V  W  Q  T  L  A  N  V  C  Y  G  V  Q  L  N  Q  T  L  V  T  P  L  F   </first_frame>
            <second_frame>  K  M  Y  V  Y  C  I  I  I  S  V  *  Q  E  D  I  C  F  S  L  A  L  Y  K  N  R  N  T  I  Y  T  H  L  L  Y  K  A  R  E  N  C  I  S  L  Q  L  Y  N  S  Q  L  Y  N  S  L  A  F  F  S  V  I  F  E  V  K  C  L  *  I  V  *  L  S  V  *  H  E  D  I  Y  F  C  M  C  L  Y  N  F  L  S  L  Y  I  K  Q  K  Q  N  L  Y  T  S  V  Y  K  V  R  E  V  S  E  N  G  E  W  A  S  E  I  F  G  R  K  S  S  G  K  L  *  L  T  F  A  M  E  Y  N  *  I  K  P  *  L  L  H  Y  L  </second_frame>
            <third_frame>   K  C  M  Y  I  A  *  L  *  V  Y  N  K  K  I  Y  V  F  L  S  L  Y  T  K  T  E  T  Q  Y  I  H  I  C  C  I  K  L  E  K  I  V  F  H  C  N  Y  I  I  R  N  C  I  I  R  W  P  F  S  L  *  Y  L  K  *  N  V  C  K  L  Y  N  *  V  C  N  T  K  I  Y  I  F  A  C  V  Y  T  I  F  S  R  F  I  *  N  R  N  R  I  Y  T  L  L  C  I  K  *  E  R  *  A  R  M  E  S  G  R  A  R  F  L  G  G  S  R  L  A  N  F  S  *  R  L  L  W  S  T  I  K  S  N  P  S  Y  S  I  I  * </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C03HBa0176B05.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="16" PGL_strand="+" PGL_start="85135" PGL_stop="90437"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="85135" e_stop="85356"/>
            <exon e_start="86717" e_stop="87048"/>
            <exon e_start="88006" e_stop="88141"/>
            <exon e_start="88226" e_stop="88368"/>
            <exon e_start="88777" e_stop="88900"/>
            <exon e_start="89809" e_stop="90437"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.992" acc_prob="0.956" e_score="0.937"/>
          <exon-intron don_prob="0.999" acc_prob="0.828" e_score="1.000"/>
          <exon-intron don_prob="0.835" acc_prob="0.892" e_score="1.000"/>
          <exon-intron don_prob="0.990" acc_prob="0.971" e_score="1.000"/>
          <exon-intron don_prob="0.992" acc_prob="0.955" e_score="1.000"/>
          <exon-only e_score="0.996"/>
        </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="0.937">
            <gDNA_exon_boundary e_start="85135" e_stop="85356" e_length="222"/>
          </exon>
          <intron i_serial="1" don_prob="0.992" acc_prob="0.956">
            <gDNA_intron_boundary i_start="85357" i_stop="86716" i_length="1360"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="86717" e_stop="87048" e_length="332"/>
          </exon>
          <intron i_serial="2" don_prob="0.999" acc_prob="0.828">
            <gDNA_intron_boundary i_start="87049" i_stop="88005" i_length="957"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="88006" e_stop="88141" e_length="136"/>
          </exon>
          <intron i_serial="3" don_prob="0.835" acc_prob="0.892">
            <gDNA_intron_boundary i_start="88142" i_stop="88225" i_length="84"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="88226" e_stop="88368" e_length="143"/>
          </exon>
          <intron i_serial="4" don_prob="0.990" acc_prob="0.971">
            <gDNA_intron_boundary i_start="88369" i_stop="88776" i_length="408"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="88777" e_stop="88900" e_length="124"/>
          </exon>
          <intron i_serial="5" don_prob="0.992" acc_prob="0.955">
            <gDNA_intron_boundary i_start="88901" i_stop="89808" i_length="908"/>
          </intron>
          <exon e_serial="6" e_score="0.996">
            <gDNA_exon_boundary e_start="89809" e_stop="90437" e_length="629"/>
          </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="85135" stop="85356"/>
              <exon start="86717" stop="87048"/>
              <exon start="88006" stop="88141"/>
              <exon start="88226" stop="88334"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E722343" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="85181" stop="85356"/>
              <exon start="86717" stop="87048"/>
              <exon start="88006" stop="88141"/>
              <exon start="88226" stop="88368"/>
              <exon start="88777" stop="88808"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E698012" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="85197" stop="85356"/>
              <exon start="86717" stop="87048"/>
              <exon start="88006" stop="88141"/>
              <exon start="88226" stop="88263"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E718005" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="86756" stop="87048"/>
              <exon start="88006" stop="88141"/>
              <exon start="88226" stop="88256"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E243055" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="87024" stop="87048"/>
              <exon start="88006" stop="88141"/>
              <exon start="88226" stop="88368"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E248575" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="88065" stop="88141"/>
              <exon start="88226" stop="88368"/>
              <exon start="88777" stop="88900"/>
              <exon start="89809" stop="90257"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E698727" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="90104" stop="90437"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E396964" 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="16" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TTTCTTCTTGCTTTCAATTTCCATTCATTTTCTTTGTTCCTTTGAACTCTTTACCCACACAAACTTTTTCAATTTAGTTATGTTACTAATATTATTGAAGTGAAAGGGAAAATTAAATTTTAAGTGTAGAATTTTTGATGGGGAATTGTTTTGGAGCTAAGCTTTCTAACTCTAAATCTAGTAGTACTTACCCTAGCTTCTCAGCTAGACCATCTACTCCAG : ATACATCAAAGAGCTACAGCACTGGTGTTGGCTACTCGGCCACGAGTGGCAGTATTGGATGTAGTAATTTCTCAGCAGCTGCAAGTGAAGATATATGTTTGAACGGAGAGATATTGCCAATTCCAAATTTAAAGATTTATAGTTTTTCTGATTTGAAGTTGTCCACGAAGAATTTCAAGTCTGACTCAGTTTTGGGGATTGGCGGTTTTGGGACCGTGTATAAAGGATGGGTTGATGAGAAGACGCTTGCTCCGACTAAAGCTGGCACTGGAATGATTGTTGCCATCAAGAAGTTGAACTCTGAGAGCACTCAAGGATTTGAAGAGTGGCAG : TCAGAAGTGAACTTTTTAGGAAGGCTTTCGCATCCTAACCTTGTTAAACTACTGGGATATTGTCATGAGGACAAGGAACTGTTACTCGTTTACGAATTTATGCCCAAGGGGAGCTTGGAAAACCATCTTTTTAGAA : GGAGTGCTGCTATTGAACCGCTTTCTTGGGACTTGCGGCTCAAAATTGCCATAGGAGCAGCACGGGGCTTAGCGTTCTTACATACTTCAGAAAAGAAAGTTATTTACAGAGACTTCAAAGCCTCAAACATACTGCTTGATGGG : AATTACAATGCAAAAATATCAGATTTTGGCTTAGCTAAGTTGGGGCCTTCCGGTAGTAACTCACACGTAACTACTCGTGTGATGGGCACATATGGTTATGCTGCTCCAGAATATGTTGAAACTG : GTCATCTATATGTAAAAAGTGATGTTTACGGATTTGGAGTGGTCGTGCTTGAGTTGCTGACTGGTTTACGAGCCCTCGACACCAAAAGACCAAACAGACAAGAGAAATTGGTGGACTGGGTGAAACCGATGCTGTCTAACAAAAGGAAGCTGAAGTCCATTATGGATGCTCGGATGGAAGGCCAATATTCTTCAAAAGCAGCAACCCTTGCTGCTCAGATTACTCTAAAATGTCTAGAGGTAGACCCAAAGAATCGACCTTCAATGAAAGAAGTAATGAACGTGTTGGAACAGATCGAAGCCATGAAGGAGAATCCAAAAGAATCGAAAAGCAAATCCGAGCATTCTTCATCTCATCGTCACAGACAATCTCCAAGAAGTCGACAATCACCTCGTCAGACAAACGGCCAAGGATTCAGGTCAGGATCTGGAAAATGACAAGTAGAAATTGGCCTTTTATAGCTATGTGTGTATAAATTTCATTCTTTTCTCATTTAGTACAAGATCAAGTTAATATTGTTCATCATAATTTTTTCATCTACAATTTTGTATTGTATGTCACTTCTGTGTATTGCATGGCACCACTGTTATTGTAATTTATCAAAGGTATCCATACACTCATTTAGCTAC</gDNA_template>
            <first_frame> F  L  L  A  F  N  F  H  S  F  S  L  F  L  *  T  L  Y  P  H  K  L  F  Q  F  S  Y  V  T  N  I  I  E  V  K  G  K  I  K  F  *  V  *  N  F  *  W  G  I  V  L  E  L  S  F  L  T  L  N  L  V  V  L  T  L  A  S  Q  L  D  H  L  L  Q  :  I  H  Q  R  A  T  A  L  V  L  A  T  R  P  R  V  A  V  L  D  V  V  I  S  Q  Q  L  Q  V  K  I  Y  V  *  T  E  R  Y  C  Q  F  Q  I  *  R  F  I  V  F  L  I  *  S  C  P  R  R  I  S  S  L  T  Q  F  W  G  L  A  V  L  G  P  C  I  K  D  G  L  M  R  R  R  L  L  R  L  K  L  A  L  E  *  L  L  P  S  R  S  *  T  L  R  A  L  K  D  L  K  S  G  S :   Q  K  *  T  F  *  E  G  F  R  I  L  T  L  L  N  Y  W  D  I  V  M  R  T  R  N  C  Y  S  F  T  N  L  C  P  R  G  A  W  K  T  I  F  L  E  :  G  V  L  L  L  N  R  F  L  G  T  C  G  S  K  L  P  *  E  Q  H  G  A  *  R  S  Y  I  L  Q  K  R  K  L  F  T  E  T  S  K  P  Q  T  Y  C  L  M  G :   I  T  M  Q  K  Y  Q  I  L  A  *  L  S  W  G  L  P  V  V  T  H  T  *  L  L  V  *  W  A  H  M  V  M  L  L  Q  N  M  L  K  L  :  V  I  Y  M  *  K  V  M  F  T  D  L  E  W  S  C  L  S  C  *  L  V  Y  E  P  S  T  P  K  D  Q  T  D  K  R  N  W  W  T  G  *  N  R  C  C  L  T  K  G  S  *  S  P  L  W  M  L  G  W  K  A  N  I  L  Q  K  Q  Q  P  L  L  L  R  L  L  *  N  V  *  R  *  T  Q  R  I  D  L  Q  *  K  K  *  *  T  C  W  N  R  S  K  P  *  R  R  I  Q  K  N  R  K  A  N  P  S  I  L  H  L  I  V  T  D  N  L  Q  E  V  D  N  H  L  V  R  Q  T  A  K  D  S  G  Q  D  L  E  N  D  K  *  K  L  A  F  Y  S  Y  V  C  I  N  F  I  L  F  S  F  S  T  R  S  S  *  Y  C  S  S  *  F  F  H  L  Q  F  C  I  V  C  H  F  C  V  L  H  G  T  T  V  I  V  I  Y  Q  R  Y  P  Y  T  H  L  A   </first_frame>
            <second_frame>  F  F  L  L  S  I  S  I  H  F  L  C  S  F  E  L  F  T  H  T  N  F  F  N  L  V  M  L  L  I  L  L  K  *  K  G  K  L  N  F  K  C  R  I  F  D  G  E  L  F  W  S  *  A  F  *  L  *  I  *  *  Y  L  P  *  L  L  S  *  T  I  Y  S  R :   Y  I  K  E  L  Q  H  W  C  W  L  L  G  H  E  W  Q  Y  W  M  *  *  F  L  S  S  C  K  *  R  Y  M  F  E  R  R  D  I  A  N  S  K  F  K  D  L  *  F  F  *  F  E  V  V  H  E  E  F  Q  V  *  L  S  F  G  D  W  R  F  W  D  R  V  *  R  M  G  *  *  E  D  A  C  S  D  *  S  W  H  W  N  D  C  C  H  Q  E  V  E  L  *  E  H  S  R  I  *  R  V  A   : V  R  S  E  L  F  R  K  A  F  A  S  *  P  C  *  T  T  G  I  L  S  *  G  Q  G  T  V  T  R  L  R  I  Y  A  Q  G  E  L  G  K  P  S  F  *  K :   E  C  C  Y  *  T  A  F  L  G  L  A  A  Q  N  C  H  R  S  S  T  G  L  S  V  L  T  Y  F  R  K  E  S  Y  L  Q  R  L  Q  S  L  K  H  T  A  *  W   : E  L  Q  C  K  N  I  R  F  W  L  S  *  V  G  A  F  R  *  *  L  T  R  N  Y  S  C  D  G  H  I  W  L  C  C  S  R  I  C  *  N  W :   S  S  I  C  K  K  *  C  L  R  I  W  S  G  R  A  *  V  A  D  W  F  T  S  P  R  H  Q  K  T  K  Q  T  R  E  I  G  G  L  G  E  T  D  A  V  *  Q  K  E  A  E  V  H  Y  G  C  S  D  G  R  P  I  F  F  K  S  S  N  P  C  C  S  D  Y  S  K  M  S  R  G  R  P  K  E  S  T  F  N  E  R  S  N  E  R  V  G  T  D  R  S  H  E  G  E  S  K  R  I  E  K  Q  I  R  A  F  F  I  S  S  S  Q  T  I  S  K  K  S  T  I  T  S  S  D  K  R  P  R  I  Q  V  R  I  W  K  M  T  S  R  N  W  P  F  I  A  M  C  V  *  I  S  F  F  S  H  L  V  Q  D  Q  V  N  I  V  H  H  N  F  F  I  Y  N  F  V  L  Y  V  T  S  V  Y  C  M  A  P  L  L  L  *  F  I  K  G  I  H  T  L  I  *  L  </second_frame>
            <third_frame>   S  S  C  F  Q  F  P  F  I  F  F  V  P  L  N  S  L  P  T  Q  T  F  S  I  *  L  C  Y  *  Y  Y  *  S  E  R  E  N  *  I  L  S  V  E  F  L  M  G  N  C  F  G  A  K  L  S  N  S  K  S  S  S  T  Y  P  S  F  S  A  R  P  S  T  P   : D  T  S  K  S  Y  S  T  G  V  G  Y  S  A  T  S  G  S  I  G  C  S  N  F  S  A  A  A  S  E  D  I  C  L  N  G  E  I  L  P  I  P  N  L  K  I  Y  S  F  S  D  L  K  L  S  T  K  N  F  K  S  D  S  V  L  G  I  G  G  F  G  T  V  Y  K  G  W  V  D  E  K  T  L  A  P  T  K  A  G  T  G  M  I  V  A  I  K  K  L  N  S  E  S  T  Q  G  F  E  E  W  Q  :  S  E  V  N  F  L  G  R  L  S  H  P  N  L  V  K  L  L  G  Y  C  H  E  D  K  E  L  L  L  V  Y  E  F  M  P  K  G  S  L  E  N  H  L  F  R   : R  S  A  A  I  E  P  L  S  W  D  L  R  L  K  I  A  I  G  A  A  R  G  L  A  F  L  H  T  S  E  K  K  V  I  Y  R  D  F  K  A  S  N  I  L  L  D  G  :  N  Y  N  A  K  I  S  D  F  G  L  A  K  L  G  P  S  G  S  N  S  H  V  T  T  R  V  M  G  T  Y  G  Y  A  A  P  E  Y  V  E  T   : G  H  L  Y  V  K  S  D  V  Y  G  F  G  V  V  V  L  E  L  L  T  G  L  R  A  L  D  T  K  R  P  N  R  Q  E  K  L  V  D  W  V  K  P  M  L  S  N  K  R  K  L  K  S  I  M  D  A  R  M  E  G  Q  Y  S  S  K  A  A  T  L  A  A  Q  I  T  L  K  C  L  E  V  D  P  K  N  R  P  S  M  K  E  V  M  N  V  L  E  Q  I  E  A  M  K  E  N  P  K  E  S  K  S  K  S  E  H  S  S  S  H  R  H  R  Q  S  P  R  S  R  Q  S  P  R  Q  T  N  G  Q  G  F  R  S  G  S  G  K  *  Q  V  E  I  G  L  L  *  L  C  V  Y  K  F  H  S  F  L  I  *  Y  K  I  K  L  I  L  F  I  I  I  F  S  S  T  I  L  Y  C  M  S  L  L  C  I  A  W  H  H  C  Y  C  N  L  S  K  V  S  I  H  S  F  S  Y </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0176B05.1" strand="+"/>
                <serials PGL_serial="16" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="85251" stop="85356"/>
                    <exon start="86717" stop="87048"/>
                    <exon start="88006" stop="88141"/>
                    <exon start="88226" stop="88368"/>
                    <exon start="88777" stop="88900"/>
                    <exon start="89809" stop="90245"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>1275</number_coding_nucleotides>
                  <number_encoded_amino_acids>425</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>ILSVEFLMGNCFGAKLSNSKSSSTYPSFSARPSTPDTSKSYSTGVGYSATSGSIGCSNFSAAASEDICLNGEILPIPNLKIYSFSDLKLSTKNFKSDSVLGIGGFGTVYKGWVDEKTLAPTKAGTGMIVAIKKLNSESTQGFEEWQSEVNFLGRLSHPNLVKLLGYCHEDKELLLVYEFMPKGSLENHLFRRSAAIEPLSWDLRLKIAIGAARGLAFLHTSEKKVIYRDFKASNILLDGNYNAKISDFGLAKLGPSGSNSHVTTRVMGTYGYAAPEYVETGHLYVKSDVYGFGVVVLELLTGLRALDTKRPNRQEKLVDWVKPMLSNKRKLKSIMDARMEGQYSSKAATLAAQITLKCLEVDPKNRPSMKEVMNVLEQIEAMKENPKESKSKSEHSSSHRHRQSPRSRQSPRQTNGQGFRSGSGK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="88220" e_stop="88368"/>
            <exon e_start="88777" e_stop="88900"/>
            <exon e_start="89809" e_stop="90437"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.990" acc_prob="0.971" e_score="1.000"/>
          <exon-intron don_prob="0.992" acc_prob="0.955" e_score="1.000"/>
          <exon-only e_score="0.970"/>
        </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="88220" e_stop="88368" e_length="149"/>
          </exon>
          <intron i_serial="1" don_prob="0.990" acc_prob="0.971">
            <gDNA_intron_boundary i_start="88369" i_stop="88776" i_length="408"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="88777" e_stop="88900" e_length="124"/>
          </exon>
          <intron i_serial="2" don_prob="0.992" acc_prob="0.955">
            <gDNA_intron_boundary i_start="88901" i_stop="89808" i_length="908"/>
          </intron>
          <exon e_serial="3" e_score="0.970">
            <gDNA_exon_boundary e_start="89809" e_stop="90437" e_length="629"/>
          </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="88220" stop="88368"/>
              <exon start="88777" stop="88900"/>
              <exon start="89809" stop="89848"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E396965" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="88221" stop="88368"/>
              <exon start="88777" stop="88900"/>
              <exon start="89809" stop="90106"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279686" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="90104" stop="90437"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E396964" 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="16" AGS_serial="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TTGTAGGGAGTGCTGCTATTGAACCGCTTTCTTGGGACTTGCGGCTCAAAATTGCCATAGGAGCAGCACGGGGCTTAGCGTTCTTACATACTTCAGAAAAGAAAGTTATTTACAGAGACTTCAAAGCCTCAAACATACTGCTTGATGGG : AATTACAATGCAAAAATATCAGATTTTGGCTTAGCTAAGTTGGGGCCTTCCGGTAGTAACTCACACGTAACTACTCGTGTGATGGGCACATATGGTTATGCTGCTCCAGAATATGTTGAAACTG : GTCATCTATATGTAAAAAGTGATGTTTACGGATTTGGAGTGGTCGTGCTTGAGTTGCTGACTGGTTTACGAGCCCTCGACACCAAAAGACCAAACAGACAAGAGAAATTGGTGGACTGGGTGAAACCGATGCTGTCTAACAAAAGGAAGCTGAAGTCCATTATGGATGCTCGGATGGAAGGCCAATATTCTTCAAAAGCAGCAACCCTTGCTGCTCAGATTACTCTAAAATGTCTAGAGGTAGACCCAAAGAATCGACCTTCAATGAAAGAAGTAATGAACGTGTTGGAACAGATCGAAGCCATGAAGGAGAATCCAAAAGAATCGAAAAGCAAATCCGAGCATTCTTCATCTCATCGTCACAGACAATCTCCAAGAAGTCGACAATCACCTCGTCAGACAAACGGCCAAGGATTCAGGTCAGGATCTGGAAAATGACAAGTAGAAATTGGCCTTTTATAGCTATGTGTGTATAAATTTCATTCTTTTCTCATTTAGTACAAGATCAAGTTAATATTGTTCATCATAATTTTTTCATCTACAATTTTGTATTGTATGTCACTTCTGTGTATTGCATGGCACCACTGTTATTGTAATTTATCAAAGGTATCCATACACTCATTTAGCTAC</gDNA_template>
            <first_frame> L  *  G  V  L  L  L  N  R  F  L  G  T  C  G  S  K  L  P  *  E  Q  H  G  A  *  R  S  Y  I  L  Q  K  R  K  L  F  T  E  T  S  K  P  Q  T  Y  C  L  M  G :   I  T  M  Q  K  Y  Q  I  L  A  *  L  S  W  G  L  P  V  V  T  H  T  *  L  L  V  *  W  A  H  M  V  M  L  L  Q  N  M  L  K  L  :  V  I  Y  M  *  K  V  M  F  T  D  L  E  W  S  C  L  S  C  *  L  V  Y  E  P  S  T  P  K  D  Q  T  D  K  R  N  W  W  T  G  *  N  R  C  C  L  T  K  G  S  *  S  P  L  W  M  L  G  W  K  A  N  I  L  Q  K  Q  Q  P  L  L  L  R  L  L  *  N  V  *  R  *  T  Q  R  I  D  L  Q  *  K  K  *  *  T  C  W  N  R  S  K  P  *  R  R  I  Q  K  N  R  K  A  N  P  S  I  L  H  L  I  V  T  D  N  L  Q  E  V  D  N  H  L  V  R  Q  T  A  K  D  S  G  Q  D  L  E  N  D  K  *  K  L  A  F  Y  S  Y  V  C  I  N  F  I  L  F  S  F  S  T  R  S  S  *  Y  C  S  S  *  F  F  H  L  Q  F  C  I  V  C  H  F  C  V  L  H  G  T  T  V  I  V  I  Y  Q  R  Y  P  Y  T  H  L  A   </first_frame>
            <second_frame>  C  R  E  C  C  Y  *  T  A  F  L  G  L  A  A  Q  N  C  H  R  S  S  T  G  L  S  V  L  T  Y  F  R  K  E  S  Y  L  Q  R  L  Q  S  L  K  H  T  A  *  W   : E  L  Q  C  K  N  I  R  F  W  L  S  *  V  G  A  F  R  *  *  L  T  R  N  Y  S  C  D  G  H  I  W  L  C  C  S  R  I  C  *  N  W :   S  S  I  C  K  K  *  C  L  R  I  W  S  G  R  A  *  V  A  D  W  F  T  S  P  R  H  Q  K  T  K  Q  T  R  E  I  G  G  L  G  E  T  D  A  V  *  Q  K  E  A  E  V  H  Y  G  C  S  D  G  R  P  I  F  F  K  S  S  N  P  C  C  S  D  Y  S  K  M  S  R  G  R  P  K  E  S  T  F  N  E  R  S  N  E  R  V  G  T  D  R  S  H  E  G  E  S  K  R  I  E  K  Q  I  R  A  F  F  I  S  S  S  Q  T  I  S  K  K  S  T  I  T  S  S  D  K  R  P  R  I  Q  V  R  I  W  K  M  T  S  R  N  W  P  F  I  A  M  C  V  *  I  S  F  F  S  H  L  V  Q  D  Q  V  N  I  V  H  H  N  F  F  I  Y  N  F  V  L  Y  V  T  S  V  Y  C  M  A  P  L  L  L  *  F  I  K  G  I  H  T  L  I  *  L  </second_frame>
            <third_frame>   V  G  S  A  A  I  E  P  L  S  W  D  L  R  L  K  I  A  I  G  A  A  R  G  L  A  F  L  H  T  S  E  K  K  V  I  Y  R  D  F  K  A  S  N  I  L  L  D  G  :  N  Y  N  A  K  I  S  D  F  G  L  A  K  L  G  P  S  G  S  N  S  H  V  T  T  R  V  M  G  T  Y  G  Y  A  A  P  E  Y  V  E  T   : G  H  L  Y  V  K  S  D  V  Y  G  F  G  V  V  V  L  E  L  L  T  G  L  R  A  L  D  T  K  R  P  N  R  Q  E  K  L  V  D  W  V  K  P  M  L  S  N  K  R  K  L  K  S  I  M  D  A  R  M  E  G  Q  Y  S  S  K  A  A  T  L  A  A  Q  I  T  L  K  C  L  E  V  D  P  K  N  R  P  S  M  K  E  V  M  N  V  L  E  Q  I  E  A  M  K  E  N  P  K  E  S  K  S  K  S  E  H  S  S  S  H  R  H  R  Q  S  P  R  S  R  Q  S  P  R  Q  T  N  G  Q  G  F  R  S  G  S  G  K  *  Q  V  E  I  G  L  L  *  L  C  V  Y  K  F  H  S  F  L  I  *  Y  K  I  K  L  I  L  F  I  I  I  F  S  S  T  I  L  Y  C  M  S  L  L  C  I  A  W  H  H  C  Y  C  N  L  S  K  V  S  I  H  S  F  S  Y </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0176B05.1" strand="+"/>
                <serials PGL_serial="16" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="88222" stop="88368"/>
                    <exon start="88777" stop="88900"/>
                    <exon start="89809" stop="90245"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>705</number_coding_nucleotides>
                  <number_encoded_amino_acids>235</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VGSAAIEPLSWDLRLKIAIGAARGLAFLHTSEKKVIYRDFKASNILLDGNYNAKISDFGLAKLGPSGSNSHVTTRVMGTYGYAAPEYVETGHLYVKSDVYGFGVVVLELLTGLRALDTKRPNRQEKLVDWVKPMLSNKRKLKSIMDARMEGQYSSKAATLAAQITLKCLEVDPKNRPSMKEVMNVLEQIEAMKENPKESKSKSEHSSSHRHRQSPRSRQSPRQTNGQGFRSGSGK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="17" PGL_strand="-" PGL_start="101021" PGL_stop="90806"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="101021" e_stop="100671"/>
            <exon e_start="94992" e_stop="94234"/>
            <exon e_start="93395" e_stop="93184"/>
            <exon e_start="93061" e_stop="92948"/>
            <exon e_start="92384" e_stop="92326"/>
            <exon e_start="92096" e_stop="92068"/>
            <exon e_start="91550" e_stop="91464"/>
            <exon e_start="91369" e_stop="90888"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.982" acc_prob="0.986" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.998" e_score="0.998"/>
          <exon-intron don_prob="0.999" acc_prob="0.982" e_score="1.000"/>
          <exon-intron don_prob="0.976" acc_prob="0.988" e_score="1.000"/>
          <exon-intron don_prob="0.974" acc_prob="0.993" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.989" e_score="1.000"/>
          <exon-intron don_prob="0.988" acc_prob="0.993" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="101021" e_stop="100671" e_length="351"/>
          </exon>
          <intron i_serial="1" don_prob="0.982" acc_prob="0.986">
            <gDNA_intron_boundary i_start="100670" i_stop="94993" i_length="5678"/>
          </intron>
          <exon e_serial="2" e_score="0.998">
            <gDNA_exon_boundary e_start="94992" e_stop="94234" e_length="759"/>
          </exon>
          <intron i_serial="2" don_prob="0.999" acc_prob="0.998">
            <gDNA_intron_boundary i_start="94233" i_stop="93396" i_length="838"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="93395" e_stop="93184" e_length="212"/>
          </exon>
          <intron i_serial="3" don_prob="0.999" acc_prob="0.982">
            <gDNA_intron_boundary i_start="93183" i_stop="93062" i_length="122"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="93061" e_stop="92948" e_length="114"/>
          </exon>
          <intron i_serial="4" don_prob="0.976" acc_prob="0.988">
            <gDNA_intron_boundary i_start="92947" i_stop="92385" i_length="563"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="92384" e_stop="92326" e_length="59"/>
          </exon>
          <intron i_serial="5" don_prob="0.974" acc_prob="0.993">
            <gDNA_intron_boundary i_start="92325" i_stop="92097" i_length="229"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="92096" e_stop="92068" e_length="29"/>
          </exon>
          <intron i_serial="6" don_prob="1.000" acc_prob="0.989">
            <gDNA_intron_boundary i_start="92067" i_stop="91551" i_length="517"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="91550" e_stop="91464" e_length="87"/>
          </exon>
          <intron i_serial="7" don_prob="0.988" acc_prob="0.993">
            <gDNA_intron_boundary i_start="91463" i_stop="91370" i_length="94"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="91369" e_stop="90888" e_length="482"/>
          </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="101021" stop="100671"/>
              <exon start="94992" stop="94544"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E719310" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="101003" stop="100671"/>
              <exon start="94992" stop="94571"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E540573" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="101002" stop="100671"/>
              <exon start="94992" stop="94709"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291206" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94635" stop="94234"/>
              <exon start="93395" stop="93184"/>
              <exon start="93061" stop="92948"/>
              <exon start="92384" stop="92326"/>
              <exon start="92096" stop="92080"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E263539" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94403" stop="94234"/>
              <exon start="93395" stop="93184"/>
              <exon start="93061" stop="92948"/>
              <exon start="92384" stop="92326"/>
              <exon start="92096" stop="92068"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E257319" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94401" stop="94234"/>
              <exon start="93395" stop="93184"/>
              <exon start="93061" stop="92948"/>
              <exon start="92384" stop="92326"/>
              <exon start="92096" stop="92068"/>
              <exon start="91550" stop="91464"/>
              <exon start="91369" stop="91344"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E261984" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94385" stop="94234"/>
              <exon start="93395" stop="93184"/>
              <exon start="93061" stop="92948"/>
              <exon start="92384" stop="92326"/>
              <exon start="92096" stop="92089"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E322785" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94347" stop="94234"/>
              <exon start="93395" stop="93184"/>
              <exon start="93061" stop="92948"/>
              <exon start="92384" stop="92326"/>
              <exon start="92096" stop="92068"/>
              <exon start="91550" stop="91519"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E726057" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="93193" stop="93184"/>
              <exon start="93061" stop="92948"/>
              <exon start="92384" stop="92326"/>
              <exon start="92096" stop="92068"/>
              <exon start="91550" stop="91464"/>
              <exon start="91369" stop="90901"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E540571" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="92994" stop="92948"/>
              <exon start="92384" stop="92326"/>
              <exon start="92096" stop="92068"/>
              <exon start="91550" stop="91464"/>
              <exon start="91369" stop="90889"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733299" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="92988" stop="92948"/>
              <exon start="92384" stop="92326"/>
              <exon start="92096" stop="92068"/>
              <exon start="91550" stop="91464"/>
              <exon start="91369" stop="90895"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E374275" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="92987" stop="92948"/>
              <exon start="92384" stop="92326"/>
              <exon start="92096" stop="92068"/>
              <exon start="91550" stop="91464"/>
              <exon start="91369" stop="90891"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E374276" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="92987" stop="92948"/>
              <exon start="92384" stop="92326"/>
              <exon start="92096" stop="92068"/>
              <exon start="91550" stop="91464"/>
              <exon start="91369" stop="91068"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E300597" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="92333" stop="92326"/>
              <exon start="92096" stop="92068"/>
              <exon start="91550" stop="91464"/>
              <exon start="91369" stop="90888"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E732992" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="91550" stop="91464"/>
              <exon start="91369" stop="90910"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E252278" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="91484" stop="91464"/>
              <exon start="91369" stop="90888"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E303167" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="91190" stop="90909"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E225811" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="91171" stop="90901"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E309681" 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="17" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>ATAGGGCTTTTACTTTCTTTGCAATTTGCTTTCTTCAATTCAACTGAATTTTCACCTCCCAAAAATTGCAGCAATAAGGGAGGAGTATGAGTATGGGAGGCGGAGATGCTAGTGTTCCGGCGGGAGACAGCGGCGATTCAAACAAGGTGAGTAACACCGGCGCCGGCGGAGGTGTTACAATCAACATCCGATGTTCTAGTGGCTCGAAATTCTCTGTGCAGGTCAGCCTCGATTCTACCGTCGGATCGTTCAAGTCTATTCTTGCACAACAAGCCAACATTCCTGCTGAGCAACAGAGATTGATCTATAAAGGTCGGATCTTAAAGGATGAGCAAACACTAGAAAGCTACG : GTCTGGAGGCAGATCACACGGTTCATTTAGTTCGAGGTTCTGCCCCAGCTCCCTCTGCAAACCCTGCATGTGCACCCAATGTTGGAGGTCCAAATACTGCTCAGAATGCACCAAGAAGTGCTGCTTCTGATGCAGGTGGACCATTTCCAGGATCAGGCCTTGGAGCTTCAATGTTTCCTGGTCTTGGAAGTGGCGGCGGCGGCGGTTTGTTTGGAGCTGGTCTTCCAGATTTTGAGCAGGTCCAGCAGCAGTTGACTCAAAACCCTGACATGATGAGAGATATGATGAATATGCCTCTGGTTCAGAATTTAATGAATAACCCTGAAACCATCCGTAACTTGATCATGAACAATCCCCAAATGCGAGAGATCATGGATCGTAATCCGGAGCTTGCTCACGTACTCAATGATCCTGCTACTCTTCGACAGACAATGGAGGCTGCACGAAACCCTGAACTTATGCGTGAGATGATGCGCAATACAGACAGGGCCATGAGCAATATTGAATCTTCTCCTGAGGGATTTAACATGCTGAGGCGTATGTATGAAAATGTTCAGGAGCCATTCCTAAATGCATCAACATTGTCTGGAGATACGCGAAATGATGCGGGGTCTAACCCGTTTGCAGCTCTTTTGGGAGCACAAGGTGGACTAGGCAGACAGCAGGCAAATAATCCTCCAACTGCTGGTTCTGAGACTACTGATAATCTGCCTGCCCCAAATACTAATCCACTTCCGAATCCTTGGGCATCTGCAGGCA : CTGGAGCTGCCCAAGCCAATACCGCTGCTAGGTCAAATACTGCTGGGGATACCAGGGGTGCACCACTTGGCCTAGGTGGGCTTGGTTCCCCAGGTTTGGAGCAAATGCTAGGCGGCATGCCTGATACTACTTCGCTAAATCAAATGATGCAGAACCCTGCCATCTCACAGATGATGCAGTCTCTCCTTTCAAATCCACAGTACATGAACCAG : GTTTTAGGGATGAACCCACAGCTTAGAAGCATGCTTGATTCCAATCCACAGCTCAGAGAAATGATGCAAAATCCTGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAG : CAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCA : ACAGCCGGGCCAAAATGCTGGTGGAGCAG : CACTTGACAACTCGGGAATGGAAATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCTAACAGATCTAATG : TGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTCAAAAGCTTGCATAATGT</gDNA_template>
            <first_frame> I  G  L  L  L  S  L  Q  F  A  F  F  N  S  T  E  F  S  P  P  K  N  C  S  N  K  G  G  V  *  V  W  E  A  E  M  L  V  F  R  R  E  T  A  A  I  Q  T  R  *  V  T  P  A  P  A  E  V  L  Q  S  T  S  D  V  L  V  A  R  N  S  L  C  R  S  A  S  I  L  P  S  D  R  S  S  L  F  L  H  N  K  P  T  F  L  L  S  N  R  D  *  S  I  K  V  G  S  *  R  M  S  K  H  *  K  A  T  :  V  W  R  Q  I  T  R  F  I  *  F  E  V  L  P  Q  L  P  L  Q  T  L  H  V  H  P  M  L  E  V  Q  I  L  L  R  M  H  Q  E  V  L  L  L  M  Q  V  D  H  F  Q  D  Q  A  L  E  L  Q  C  F  L  V  L  E  V  A  A  A  A  V  C  L  E  L  V  F  Q  I  L  S  R  S  S  S  S  *  L  K  T  L  T  *  *  E  I  *  *  I  C  L  W  F  R  I  *  *  I  T  L  K  P  S  V  T  *  S  *  T  I  P  K  C  E  R  S  W  I  V  I  R  S  L  L  T  Y  S  M  I  L  L  L  F  D  R  Q  W  R  L  H  E  T  L  N  L  C  V  R  *  C  A  I  Q  T  G  P  *  A  I  L  N  L  L  L  R  D  L  T  C  *  G  V  C  M  K  M  F  R  S  H  S  *  M  H  Q  H  C  L  E  I  R  E  M  M  R  G  L  T  R  L  Q  L  F  W  E  H  K  V  D  *  A  D  S  R  Q  I  I  L  Q  L  L  V  L  R  L  L  I  I  C  L  P  Q  I  L  I  H  F  R  I  L  G  H  L  Q  A  :  L  E  L  P  K  P  I  P  L  L  G  Q  I  L  L  G  I  P  G  V  H  H  L  A  *  V  G  L  V  P  Q  V  W  S  K  C  *  A  A  C  L  I  L  L  R  *  I  K  *  C  R  T  L  P  S  H  R  *  C  S  L  S  F  Q  I  H  S  T  *  T  R :   F  *  G  *  T  H  S  L  E  A  C  L  I  P  I  H  S  S  E  K  *  C  K  I  L  N  L  F  V  N  *  H  R  L  R  Q  C  S :   N  L  *  L  S  S  K  D  L  H  L  N  L  G  V  S  K  Q  T   : N  S  R  A  K  M  L  V  E  Q  :  H  L  T  T  R  E  W  K  C  L  *  T  C  L  V  D  L  G  P  G  A  W  V  S  L  T  D  L  M  :  C  P  Q  R  N  Y  M  L  L  S  *  R  S  Y  K  K  W  V  S  L  T  L  K  K  I  S  G  H  *  L  P  P  V  A  M  F  M  L  L  *  S  D  F  L  E  I  L  D  N  S  V  S  L  L  F  Y  K  T  T  L  L  M  G  S  D  E  I  D  *  F  W  T  Q  G  A  S  A  S  N  L  V  *  N  K  Y  *  R  F  Q  F  L  S  *  R  L  V  F  C  P  P  L  F  C  F  H  L  D  *  S  K  L  M  E  D  L  V  V  E  L  S  V  H  T  M  L  K  A  V  T  L  Y  G  P  Q  E  I  F  W  T  L  S  *  F  S  V  I  Y  H  N  S  L  K  L  L  F  K  S  L  H  N   </first_frame>
            <second_frame>  *  G  F  Y  F  L  C  N  L  L  S  S  I  Q  L  N  F  H  L  P  K  I  A  A  I  R  E  E  Y  E  Y  G  R  R  R  C  *  C  S  G  G  R  Q  R  R  F  K  Q  G  E  *  H  R  R  R  R  R  C  Y  N  Q  H  P  M  F  *  W  L  E  I  L  C  A  G  Q  P  R  F  Y  R  R  I  V  Q  V  Y  S  C  T  T  S  Q  H  S  C  *  A  T  E  I  D  L  *  R  S  D  L  K  G  *  A  N  T  R  K  L  R :   S  G  G  R  S  H  G  S  F  S  S  R  F  C  P  S  S  L  C  K  P  C  M  C  T  Q  C  W  R  S  K  Y  C  S  E  C  T  K  K  C  C  F  *  C  R  W  T  I  S  R  I  R  P  W  S  F  N  V  S  W  S  W  K  W  R  R  R  R  F  V  W  S  W  S  S  R  F  *  A  G  P  A  A  V  D  S  K  P  *  H  D  E  R  Y  D  E  Y  A  S  G  S  E  F  N  E  *  P  *  N  H  P  *  L  D  H  E  Q  S  P  N  A  R  D  H  G  S  *  S  G  A  C  S  R  T  Q  *  S  C  Y  S  S  T  D  N  G  G  C  T  K  P  *  T  Y  A  *  D  D  A  Q  Y  R  Q  G  H  E  Q  Y  *  I  F  S  *  G  I  *  H  A  E  A  Y  V  *  K  C  S  G  A  I  P  K  C  I  N  I  V  W  R  Y  A  K  *  C  G  V  *  P  V  C  S  S  F  G  S  T  R  W  T  R  Q  T  A  G  K  *  S  S  N  C  W  F  *  D  Y  *  *  S  A  C  P  K  Y  *  S  T  S  E  S  L  G  I  C  R  H :   W  S  C  P  S  Q  Y  R  C  *  V  K  Y  C  W  G  Y  Q  G  C  T  T  W  P  R  W  A  W  F  P  R  F  G  A  N  A  R  R  H  A  *  Y  Y  F  A  K  S  N  D  A  E  P  C  H  L  T  D  D  A  V  S  P  F  K  S  T  V  H  E  P   : G  F  R  D  E  P  T  A  *  K  H  A  *  F  Q  S  T  A  Q  R  N  D  A  K  S  *  I  Y  S  S  I  D  I  A  *  D  S  A   : A  T  Y  D  F  P  A  R  T  C  I  S  T  W  A  S  A  N  K  P  :  T  A  G  P  K  C  W  W  S  S :   T  *  Q  L  G  N  G  N  A  Y  E  H  V  W  W  T  W  D  R  G  L  G  C  P  *  Q  I  *  C :   A  P  R  G  I  I  C  Y  S  A  N  A  V  T  R  N  G  F  L  *  H  S  R  K  Y  P  G  T  D  C  L  R  W  Q  C  S  C  C  C  R  A  T  S  W  K  S  W  T  I  V  L  V  F  S  S  I  R  Q  H  Y  *  W  G  L  M  K  L  I  D  F  G  H  K  E  R  Q  R  Q  I  L  F  E  I  N  I  K  D  F  N  F  *  A  N  V  S  S  F  V  P  P  Y  S  V  F  T  W  T  K  V  N  *  W  K  I  *  L  L  S  C  L  Y  I  Q  C  *  K  R  L  H  Y  M  G  R  K  R  F  S  G  R  *  V  N  F  Q  L  Y  I  T  T  H  *  S  Y  Y  S  K  A  C  I  M  </second_frame>
            <third_frame>   R  A  F  T  F  F  A  I  C  F  L  Q  F  N  *  I  F  T  S  Q  K  L  Q  Q  *  G  R  S  M  S  M  G  G  G  D  A  S  V  P  A  G  D  S  G  D  S  N  K  V  S  N  T  G  A  G  G  G  V  T  I  N  I  R  C  S  S  G  S  K  F  S  V  Q  V  S  L  D  S  T  V  G  S  F  K  S  I  L  A  Q  Q  A  N  I  P  A  E  Q  Q  R  L  I  Y  K  G  R  I  L  K  D  E  Q  T  L  E  S  Y   : G  L  E  A  D  H  T  V  H  L  V  R  G  S  A  P  A  P  S  A  N  P  A  C  A  P  N  V  G  G  P  N  T  A  Q  N  A  P  R  S  A  A  S  D  A  G  G  P  F  P  G  S  G  L  G  A  S  M  F  P  G  L  G  S  G  G  G  G  G  L  F  G  A  G  L  P  D  F  E  Q  V  Q  Q  Q  L  T  Q  N  P  D  M  M  R  D  M  M  N  M  P  L  V  Q  N  L  M  N  N  P  E  T  I  R  N  L  I  M  N  N  P  Q  M  R  E  I  M  D  R  N  P  E  L  A  H  V  L  N  D  P  A  T  L  R  Q  T  M  E  A  A  R  N  P  E  L  M  R  E  M  M  R  N  T  D  R  A  M  S  N  I  E  S  S  P  E  G  F  N  M  L  R  R  M  Y  E  N  V  Q  E  P  F  L  N  A  S  T  L  S  G  D  T  R  N  D  A  G  S  N  P  F  A  A  L  L  G  A  Q  G  G  L  G  R  Q  Q  A  N  N  P  P  T  A  G  S  E  T  T  D  N  L  P  A  P  N  T  N  P  L  P  N  P  W  A  S  A  G   : T  G  A  A  Q  A  N  T  A  A  R  S  N  T  A  G  D  T  R  G  A  P  L  G  L  G  G  L  G  S  P  G  L  E  Q  M  L  G  G  M  P  D  T  T  S  L  N  Q  M  M  Q  N  P  A  I  S  Q  M  M  Q  S  L  L  S  N  P  Q  Y  M  N  Q  :  V  L  G  M  N  P  Q  L  R  S  M  L  D  S  N  P  Q  L  R  E  M  M  Q  N  P  E  F  I  R  Q  L  T  S  P  E  T  V  Q  :  Q  L  M  T  F  Q  Q  G  L  A  S  Q  L  G  R  Q  Q  T  N  Q :   Q  P  G  Q  N  A  G  G  A   : A  L  D  N  S  G  M  E  M  L  M  N  M  F  G  G  L  G  T  G  G  L  G  V  P  N  R  S  N   : V  P  P  E  E  L  Y  A  T  Q  L  T  Q  L  Q  E  M  G  F  F  D  T  Q  E  N  I  R  A  L  T  A  S  G  G  N  V  H  A  A  V  E  R  L  L  G  N  L  G  Q  *  C  *  S  S  L  L  *  D  N  T  T  D  G  V  *  *  N  *  L  I  L  D  T  R  S  V  S  V  K  S  C  L  K  *  I  L  K  I  S  I  F  E  L  T  S  R  L  L  S  P  P  I  L  F  S  L  G  L  K  *  T  D  G  R  S  S  C  *  V  V  C  T  Y  N  V  K  S  G  Y  I  I  W  A  A  R  D  F  L  D  V  K  L  I  F  S  Y  I  S  Q  L  T  E  V  I  I  Q  K  L  A  *  C </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0176B05.1" strand="-"/>
                <serials PGL_serial="17" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="100944" stop="100671"/>
                    <exon start="94992" stop="94234"/>
                    <exon start="93395" stop="93184"/>
                    <exon start="93061" stop="92948"/>
                    <exon start="92384" stop="92326"/>
                    <exon start="92096" stop="92068"/>
                    <exon start="91550" stop="91464"/>
                    <exon start="91369" stop="91221"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>1680</number_coding_nucleotides>
                  <number_encoded_amino_acids>560</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GRSMSMGGGDASVPAGDSGDSNKVSNTGAGGGVTINIRCSSGSKFSVQVSLDSTVGSFKSILAQQANIPAEQQRLIYKGRILKDEQTLESYGLEADHTVHLVRGSAPAPSANPACAPNVGGPNTAQNAPRSAASDAGGPFPGSGLGASMFPGLGSGGGGGLFGAGLPDFEQVQQQLTQNPDMMRDMMNMPLVQNLMNNPETIRNLIMNNPQMREIMDRNPELAHVLNDPATLRQTMEAARNPELMREMMRNTDRAMSNIESSPEGFNMLRRMYENVQEPFLNASTLSGDTRNDAGSNPFAALLGAQGGLGRQQANNPPTAGSETTDNLPAPNTNPLPNPWASAGTGAAQANTAARSNTAGDTRGAPLGLGGLGSPGLEQMLGGMPDTTSLNQMMQNPAISQMMQSLLSNPQYMNQVLGMNPQLRSMLDSNPQLREMMQNPEFIRQLTSPETVQQLMTFQQGLASQLGRQQTNQQPGQNAGGAALDNSGMEMLMNMFGGLGTGGLGVPNRSNVPPEELYATQLTQLQEMGFFDTQENIRALTASGGNVHAAVERLLGNLGQ*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="101021" e_stop="100671"/>
            <exon e_start="94992" e_stop="94234"/>
            <exon e_start="93395" e_stop="93184"/>
            <exon e_start="93061" e_stop="92948"/>
            <exon e_start="92384" e_stop="92326"/>
            <exon e_start="92096" e_stop="92068"/>
            <exon e_start="91550" e_stop="91464"/>
            <exon e_start="91369" e_stop="90901"/>
            <exon e_start="90820" e_stop="90806"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.982" acc_prob="0.986" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.998" e_score="0.998"/>
          <exon-intron don_prob="0.999" acc_prob="0.982" e_score="1.000"/>
          <exon-intron don_prob="0.976" acc_prob="0.988" e_score="1.000"/>
          <exon-intron don_prob="0.974" acc_prob="0.993" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.989" e_score="1.000"/>
          <exon-intron don_prob="0.988" acc_prob="0.993" e_score="1.000"/>
          <exon-intron don_prob="0.000" acc_prob="0.898" e_score="1.000"/>
          <exon-only e_score="0.533"/>
        </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="101021" e_stop="100671" e_length="351"/>
          </exon>
          <intron i_serial="1" don_prob="0.982" acc_prob="0.986">
            <gDNA_intron_boundary i_start="100670" i_stop="94993" i_length="5678"/>
          </intron>
          <exon e_serial="2" e_score="0.998">
            <gDNA_exon_boundary e_start="94992" e_stop="94234" e_length="759"/>
          </exon>
          <intron i_serial="2" don_prob="0.999" acc_prob="0.998">
            <gDNA_intron_boundary i_start="94233" i_stop="93396" i_length="838"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="93395" e_stop="93184" e_length="212"/>
          </exon>
          <intron i_serial="3" don_prob="0.999" acc_prob="0.982">
            <gDNA_intron_boundary i_start="93183" i_stop="93062" i_length="122"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="93061" e_stop="92948" e_length="114"/>
          </exon>
          <intron i_serial="4" don_prob="0.976" acc_prob="0.988">
            <gDNA_intron_boundary i_start="92947" i_stop="92385" i_length="563"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="92384" e_stop="92326" e_length="59"/>
          </exon>
          <intron i_serial="5" don_prob="0.974" acc_prob="0.993">
            <gDNA_intron_boundary i_start="92325" i_stop="92097" i_length="229"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="92096" e_stop="92068" e_length="29"/>
          </exon>
          <intron i_serial="6" don_prob="1.000" acc_prob="0.989">
            <gDNA_intron_boundary i_start="92067" i_stop="91551" i_length="517"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="91550" e_stop="91464" e_length="87"/>
          </exon>
          <intron i_serial="7" don_prob="0.988" acc_prob="0.993">
            <gDNA_intron_boundary i_start="91463" i_stop="91370" i_length="94"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="91369" e_stop="90901" e_length="469"/>
          </exon>
          <intron i_serial="8" don_prob="0.000" acc_prob="0.898">
            <gDNA_intron_boundary i_start="90900" i_stop="90821" i_length="80"/>
          </intron>
          <exon e_serial="9" e_score="0.533">
            <gDNA_exon_boundary e_start="90820" e_stop="90806" e_length="15"/>
          </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="101021" stop="100671"/>
              <exon start="94992" stop="94544"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E719310" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="101003" stop="100671"/>
              <exon start="94992" stop="94571"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E540573" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="101002" stop="100671"/>
              <exon start="94992" stop="94709"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291206" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94635" stop="94234"/>
              <exon start="93395" stop="93184"/>
              <exon start="93061" stop="92948"/>
              <exon start="92384" stop="92326"/>
              <exon start="92096" stop="92080"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E263539" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94403" stop="94234"/>
              <exon start="93395" stop="93184"/>
              <exon start="93061" stop="92948"/>
              <exon start="92384" stop="92326"/>
              <exon start="92096" stop="92068"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E257319" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94401" stop="94234"/>
              <exon start="93395" stop="93184"/>
              <exon start="93061" stop="92948"/>
              <exon start="92384" stop="92326"/>
              <exon start="92096" stop="92068"/>
              <exon start="91550" stop="91464"/>
              <exon start="91369" stop="91344"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E261984" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94385" stop="94234"/>
              <exon start="93395" stop="93184"/>
              <exon start="93061" stop="92948"/>
              <exon start="92384" stop="92326"/>
              <exon start="92096" stop="92089"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E322785" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94347" stop="94234"/>
              <exon start="93395" stop="93184"/>
              <exon start="93061" stop="92948"/>
              <exon start="92384" stop="92326"/>
              <exon start="92096" stop="92068"/>
              <exon start="91550" stop="91519"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E726057" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="93193" stop="93184"/>
              <exon start="93061" stop="92948"/>
              <exon start="92384" stop="92326"/>
              <exon start="92096" stop="92068"/>
              <exon start="91550" stop="91464"/>
              <exon start="91369" stop="90901"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E540571" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="92987" stop="92948"/>
              <exon start="92384" stop="92326"/>
              <exon start="92096" stop="92068"/>
              <exon start="91550" stop="91464"/>
              <exon start="91369" stop="91068"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E300597" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="91550" stop="91464"/>
              <exon start="91369" stop="90910"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E252278" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="91466" stop="91464"/>
              <exon start="91369" stop="90901"/>
              <exon start="90820" stop="90806"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E225343" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="91190" stop="90909"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E225811" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="91171" stop="90901"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E309681" 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="17" AGS_serial="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>ATAGGGCTTTTACTTTCTTTGCAATTTGCTTTCTTCAATTCAACTGAATTTTCACCTCCCAAAAATTGCAGCAATAAGGGAGGAGTATGAGTATGGGAGGCGGAGATGCTAGTGTTCCGGCGGGAGACAGCGGCGATTCAAACAAGGTGAGTAACACCGGCGCCGGCGGAGGTGTTACAATCAACATCCGATGTTCTAGTGGCTCGAAATTCTCTGTGCAGGTCAGCCTCGATTCTACCGTCGGATCGTTCAAGTCTATTCTTGCACAACAAGCCAACATTCCTGCTGAGCAACAGAGATTGATCTATAAAGGTCGGATCTTAAAGGATGAGCAAACACTAGAAAGCTACG : GTCTGGAGGCAGATCACACGGTTCATTTAGTTCGAGGTTCTGCCCCAGCTCCCTCTGCAAACCCTGCATGTGCACCCAATGTTGGAGGTCCAAATACTGCTCAGAATGCACCAAGAAGTGCTGCTTCTGATGCAGGTGGACCATTTCCAGGATCAGGCCTTGGAGCTTCAATGTTTCCTGGTCTTGGAAGTGGCGGCGGCGGCGGTTTGTTTGGAGCTGGTCTTCCAGATTTTGAGCAGGTCCAGCAGCAGTTGACTCAAAACCCTGACATGATGAGAGATATGATGAATATGCCTCTGGTTCAGAATTTAATGAATAACCCTGAAACCATCCGTAACTTGATCATGAACAATCCCCAAATGCGAGAGATCATGGATCGTAATCCGGAGCTTGCTCACGTACTCAATGATCCTGCTACTCTTCGACAGACAATGGAGGCTGCACGAAACCCTGAACTTATGCGTGAGATGATGCGCAATACAGACAGGGCCATGAGCAATATTGAATCTTCTCCTGAGGGATTTAACATGCTGAGGCGTATGTATGAAAATGTTCAGGAGCCATTCCTAAATGCATCAACATTGTCTGGAGATACGCGAAATGATGCGGGGTCTAACCCGTTTGCAGCTCTTTTGGGAGCACAAGGTGGACTAGGCAGACAGCAGGCAAATAATCCTCCAACTGCTGGTTCTGAGACTACTGATAATCTGCCTGCCCCAAATACTAATCCACTTCCGAATCCTTGGGCATCTGCAGGCA : CTGGAGCTGCCCAAGCCAATACCGCTGCTAGGTCAAATACTGCTGGGGATACCAGGGGTGCACCACTTGGCCTAGGTGGGCTTGGTTCCCCAGGTTTGGAGCAAATGCTAGGCGGCATGCCTGATACTACTTCGCTAAATCAAATGATGCAGAACCCTGCCATCTCACAGATGATGCAGTCTCTCCTTTCAAATCCACAGTACATGAACCAG : GTTTTAGGGATGAACCCACAGCTTAGAAGCATGCTTGATTCCAATCCACAGCTCAGAGAAATGATGCAAAATCCTGAATTTATTCGTCAATTGACATCGCCTGAGACAGTGCAG : CAACTTATGACTTTCCAGCAAGGACTTGCATCTCAACTTGGGCGTCAGCAAACAAACCA : ACAGCCGGGCCAAAATGCTGGTGGAGCAG : CACTTGACAACTCGGGAATGGAAATGCTTATGAACATGTTTGGTGGACTTGGGACCGGGGGCTTGGGTGTCCCTAACAGATCTAATG : TGCCCCCAGAGGAATTATATGCTACTCAGCTAACGCAGTTACAAGAAATGGGTTTCTTTGACACTCAAGAAAATATCCGGGCACTGACTGCCTCCGGTGGCAATGTTCATGCTGCTGTAGAGCGACTTCTTGGAAATCTTGGACAATAGTGTTAGTCTTCTCTTCTATAAGACAACACTACTGATGGGGTCTGATGAAATTGATTGATTTTGGACACAAGGAGCGTCAGCGTCAAATCTTGTTTGAAATAAATATTAAAGATTTCAATTTTTGAGCTAACGTCTCGTCTTTTGTCCCCCCCTATTCTGTTTTCACTTGGACTAAAGTAAACTGATGGAAGATCTAGTTGTTGAGTTGTCTGTACATACAATGTTAAAAGCGGTTACATTATATGGGCCGCAAGAGATTTTCTGGACGTTAAGTTAATTTTCAGTTATATATCACAACTCACTGAAGTTATTATTCAAAA : TTGAAATGAAATGTA</gDNA_template>
            <first_frame> I  G  L  L  L  S  L  Q  F  A  F  F  N  S  T  E  F  S  P  P  K  N  C  S  N  K  G  G  V  *  V  W  E  A  E  M  L  V  F  R  R  E  T  A  A  I  Q  T  R  *  V  T  P  A  P  A  E  V  L  Q  S  T  S  D  V  L  V  A  R  N  S  L  C  R  S  A  S  I  L  P  S  D  R  S  S  L  F  L  H  N  K  P  T  F  L  L  S  N  R  D  *  S  I  K  V  G  S  *  R  M  S  K  H  *  K  A  T  :  V  W  R  Q  I  T  R  F  I  *  F  E  V  L  P  Q  L  P  L  Q  T  L  H  V  H  P  M  L  E  V  Q  I  L  L  R  M  H  Q  E  V  L  L  L  M  Q  V  D  H  F  Q  D  Q  A  L  E  L  Q  C  F  L  V  L  E  V  A  A  A  A  V  C  L  E  L  V  F  Q  I  L  S  R  S  S  S  S  *  L  K  T  L  T  *  *  E  I  *  *  I  C  L  W  F  R  I  *  *  I  T  L  K  P  S  V  T  *  S  *  T  I  P  K  C  E  R  S  W  I  V  I  R  S  L  L  T  Y  S  M  I  L  L  L  F  D  R  Q  W  R  L  H  E  T  L  N  L  C  V  R  *  C  A  I  Q  T  G  P  *  A  I  L  N  L  L  L  R  D  L  T  C  *  G  V  C  M  K  M  F  R  S  H  S  *  M  H  Q  H  C  L  E  I  R  E  M  M  R  G  L  T  R  L  Q  L  F  W  E  H  K  V  D  *  A  D  S  R  Q  I  I  L  Q  L  L  V  L  R  L  L  I  I  C  L  P  Q  I  L  I  H  F  R  I  L  G  H  L  Q  A  :  L  E  L  P  K  P  I  P  L  L  G  Q  I  L  L  G  I  P  G  V  H  H  L  A  *  V  G  L  V  P  Q  V  W  S  K  C  *  A  A  C  L  I  L  L  R  *  I  K  *  C  R  T  L  P  S  H  R  *  C  S  L  S  F  Q  I  H  S  T  *  T  R :   F  *  G  *  T  H  S  L  E  A  C  L  I  P  I  H  S  S  E  K  *  C  K  I  L  N  L  F  V  N  *  H  R  L  R  Q  C  S :   N  L  *  L  S  S  K  D  L  H  L  N  L  G  V  S  K  Q  T   : N  S  R  A  K  M  L  V  E  Q  :  H  L  T  T  R  E  W  K  C  L  *  T  C  L  V  D  L  G  P  G  A  W  V  S  L  T  D  L  M  :  C  P  Q  R  N  Y  M  L  L  S  *  R  S  Y  K  K  W  V  S  L  T  L  K  K  I  S  G  H  *  L  P  P  V  A  M  F  M  L  L  *  S  D  F  L  E  I  L  D  N  S  V  S  L  L  F  Y  K  T  T  L  L  M  G  S  D  E  I  D  *  F  W  T  Q  G  A  S  A  S  N  L  V  *  N  K  Y  *  R  F  Q  F  L  S  *  R  L  V  F  C  P  P  L  F  C  F  H  L  D  *  S  K  L  M  E  D  L  V  V  E  L  S  V  H  T  M  L  K  A  V  T  L  Y  G  P  Q  E  I  F  W  T  L  S  *  F  S  V  I  Y  H  N  S  L  K  L  L  F  K   : I  E  M  K  C  </first_frame>
            <second_frame>  *  G  F  Y  F  L  C  N  L  L  S  S  I  Q  L  N  F  H  L  P  K  I  A  A  I  R  E  E  Y  E  Y  G  R  R  R  C  *  C  S  G  G  R  Q  R  R  F  K  Q  G  E  *  H  R  R  R  R  R  C  Y  N  Q  H  P  M  F  *  W  L  E  I  L  C  A  G  Q  P  R  F  Y  R  R  I  V  Q  V  Y  S  C  T  T  S  Q  H  S  C  *  A  T  E  I  D  L  *  R  S  D  L  K  G  *  A  N  T  R  K  L  R :   S  G  G  R  S  H  G  S  F  S  S  R  F  C  P  S  S  L  C  K  P  C  M  C  T  Q  C  W  R  S  K  Y  C  S  E  C  T  K  K  C  C  F  *  C  R  W  T  I  S  R  I  R  P  W  S  F  N  V  S  W  S  W  K  W  R  R  R  R  F  V  W  S  W  S  S  R  F  *  A  G  P  A  A  V  D  S  K  P  *  H  D  E  R  Y  D  E  Y  A  S  G  S  E  F  N  E  *  P  *  N  H  P  *  L  D  H  E  Q  S  P  N  A  R  D  H  G  S  *  S  G  A  C  S  R  T  Q  *  S  C  Y  S  S  T  D  N  G  G  C  T  K  P  *  T  Y  A  *  D  D  A  Q  Y  R  Q  G  H  E  Q  Y  *  I  F  S  *  G  I  *  H  A  E  A  Y  V  *  K  C  S  G  A  I  P  K  C  I  N  I  V  W  R  Y  A  K  *  C  G  V  *  P  V  C  S  S  F  G  S  T  R  W  T  R  Q  T  A  G  K  *  S  S  N  C  W  F  *  D  Y  *  *  S  A  C  P  K  Y  *  S  T  S  E  S  L  G  I  C  R  H :   W  S  C  P  S  Q  Y  R  C  *  V  K  Y  C  W  G  Y  Q  G  C  T  T  W  P  R  W  A  W  F  P  R  F  G  A  N  A  R  R  H  A  *  Y  Y  F  A  K  S  N  D  A  E  P  C  H  L  T  D  D  A  V  S  P  F  K  S  T  V  H  E  P   : G  F  R  D  E  P  T  A  *  K  H  A  *  F  Q  S  T  A  Q  R  N  D  A  K  S  *  I  Y  S  S  I  D  I  A  *  D  S  A   : A  T  Y  D  F  P  A  R  T  C  I  S  T  W  A  S  A  N  K  P  :  T  A  G  P  K  C  W  W  S  S :   T  *  Q  L  G  N  G  N  A  Y  E  H  V  W  W  T  W  D  R  G  L  G  C  P  *  Q  I  *  C :   A  P  R  G  I  I  C  Y  S  A  N  A  V  T  R  N  G  F  L  *  H  S  R  K  Y  P  G  T  D  C  L  R  W  Q  C  S  C  C  C  R  A  T  S  W  K  S  W  T  I  V  L  V  F  S  S  I  R  Q  H  Y  *  W  G  L  M  K  L  I  D  F  G  H  K  E  R  Q  R  Q  I  L  F  E  I  N  I  K  D  F  N  F  *  A  N  V  S  S  F  V  P  P  Y  S  V  F  T  W  T  K  V  N  *  W  K  I  *  L  L  S  C  L  Y  I  Q  C  *  K  R  L  H  Y  M  G  R  K  R  F  S  G  R  *  V  N  F  Q  L  Y  I  T  T  H  *  S  Y  Y  S  K  :  L  K  *  N  V </second_frame>
            <third_frame>   R  A  F  T  F  F  A  I  C  F  L  Q  F  N  *  I  F  T  S  Q  K  L  Q  Q  *  G  R  S  M  S  M  G  G  G  D  A  S  V  P  A  G  D  S  G  D  S  N  K  V  S  N  T  G  A  G  G  G  V  T  I  N  I  R  C  S  S  G  S  K  F  S  V  Q  V  S  L  D  S  T  V  G  S  F  K  S  I  L  A  Q  Q  A  N  I  P  A  E  Q  Q  R  L  I  Y  K  G  R  I  L  K  D  E  Q  T  L  E  S  Y   : G  L  E  A  D  H  T  V  H  L  V  R  G  S  A  P  A  P  S  A  N  P  A  C  A  P  N  V  G  G  P  N  T  A  Q  N  A  P  R  S  A  A  S  D  A  G  G  P  F  P  G  S  G  L  G  A  S  M  F  P  G  L  G  S  G  G  G  G  G  L  F  G  A  G  L  P  D  F  E  Q  V  Q  Q  Q  L  T  Q  N  P  D  M  M  R  D  M  M  N  M  P  L  V  Q  N  L  M  N  N  P  E  T  I  R  N  L  I  M  N  N  P  Q  M  R  E  I  M  D  R  N  P  E  L  A  H  V  L  N  D  P  A  T  L  R  Q  T  M  E  A  A  R  N  P  E  L  M  R  E  M  M  R  N  T  D  R  A  M  S  N  I  E  S  S  P  E  G  F  N  M  L  R  R  M  Y  E  N  V  Q  E  P  F  L  N  A  S  T  L  S  G  D  T  R  N  D  A  G  S  N  P  F  A  A  L  L  G  A  Q  G  G  L  G  R  Q  Q  A  N  N  P  P  T  A  G  S  E  T  T  D  N  L  P  A  P  N  T  N  P  L  P  N  P  W  A  S  A  G   : T  G  A  A  Q  A  N  T  A  A  R  S  N  T  A  G  D  T  R  G  A  P  L  G  L  G  G  L  G  S  P  G  L  E  Q  M  L  G  G  M  P  D  T  T  S  L  N  Q  M  M  Q  N  P  A  I  S  Q  M  M  Q  S  L  L  S  N  P  Q  Y  M  N  Q  :  V  L  G  M  N  P  Q  L  R  S  M  L  D  S  N  P  Q  L  R  E  M  M  Q  N  P  E  F  I  R  Q  L  T  S  P  E  T  V  Q  :  Q  L  M  T  F  Q  Q  G  L  A  S  Q  L  G  R  Q  Q  T  N  Q :   Q  P  G  Q  N  A  G  G  A   : A  L  D  N  S  G  M  E  M  L  M  N  M  F  G  G  L  G  T  G  G  L  G  V  P  N  R  S  N   : V  P  P  E  E  L  Y  A  T  Q  L  T  Q  L  Q  E  M  G  F  F  D  T  Q  E  N  I  R  A  L  T  A  S  G  G  N  V  H  A  A  V  E  R  L  L  G  N  L  G  Q  *  C  *  S  S  L  L  *  D  N  T  T  D  G  V  *  *  N  *  L  I  L  D  T  R  S  V  S  V  K  S  C  L  K  *  I  L  K  I  S  I  F  E  L  T  S  R  L  L  S  P  P  I  L  F  S  L  G  L  K  *  T  D  G  R  S  S  C  *  V  V  C  T  Y  N  V  K  S  G  Y  I  I  W  A  A  R  D  F  L  D  V  K  L  I  F  S  Y  I  S  Q  L  T  E  V  I  I  Q  N :   *  N  E  M   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0176B05.1" strand="-"/>
                <serials PGL_serial="17" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="100944" stop="100671"/>
                    <exon start="94992" stop="94234"/>
                    <exon start="93395" stop="93184"/>
                    <exon start="93061" stop="92948"/>
                    <exon start="92384" stop="92326"/>
                    <exon start="92096" stop="92068"/>
                    <exon start="91550" stop="91464"/>
                    <exon start="91369" stop="91221"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>1680</number_coding_nucleotides>
                  <number_encoded_amino_acids>560</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GRSMSMGGGDASVPAGDSGDSNKVSNTGAGGGVTINIRCSSGSKFSVQVSLDSTVGSFKSILAQQANIPAEQQRLIYKGRILKDEQTLESYGLEADHTVHLVRGSAPAPSANPACAPNVGGPNTAQNAPRSAASDAGGPFPGSGLGASMFPGLGSGGGGGLFGAGLPDFEQVQQQLTQNPDMMRDMMNMPLVQNLMNNPETIRNLIMNNPQMREIMDRNPELAHVLNDPATLRQTMEAARNPELMREMMRNTDRAMSNIESSPEGFNMLRRMYENVQEPFLNASTLSGDTRNDAGSNPFAALLGAQGGLGRQQANNPPTAGSETTDNLPAPNTNPLPNPWASAGTGAAQANTAARSNTAGDTRGAPLGLGGLGSPGLEQMLGGMPDTTSLNQMMQNPAISQMMQSLLSNPQYMNQVLGMNPQLRSMLDSNPQLREMMQNPEFIRQLTSPETVQQLMTFQQGLASQLGRQQTNQQPGQNAGGAALDNSGMEMLMNMFGGLGTGGLGVPNRSNVPPEELYATQLTQLQEMGFFDTQENIRALTASGGNVHAAVERLLGNLGQ*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="94355" e_stop="94237"/>
            <exon e_start="93395" e_stop="93312"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.985" acc_prob="0.998" e_score="1.000"/>
          <exon-only e_score="0.988"/>
        </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="94355" e_stop="94237" e_length="119"/>
          </exon>
          <intron i_serial="1" don_prob="0.985" acc_prob="0.998">
            <gDNA_intron_boundary i_start="94236" i_stop="93396" i_length="841"/>
          </intron>
          <exon e_serial="2" e_score="0.988">
            <gDNA_exon_boundary e_start="93395" e_stop="93312" e_length="84"/>
          </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="94355" stop="94237"/>
              <exon start="93395" stop="93312"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E290020" 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="17" AGS_serial="3" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AGCACAAGGTGGACTAGGCAGACAGCAGGCAAATAATCCTCCAACTGCTGGTTCTGAGACTACTGATAATCTGCCTGCCCCAAATACTAATCCACTTCCGAATCCTTGGGCATCTGCAG : CTGGAGCTGCCCAAGCCAATACCGCTGCTAGGTCAAATACTGCTGGGGATACCAGGGGTGCACCACTTGGCCTAGGTGGGCTTG</gDNA_template>
            <first_frame> S  T  R  W  T  R  Q  T  A  G  K  *  S  S  N  C  W  F  *  D  Y  *  *  S  A  C  P  K  Y  *  S  T  S  E  S  L  G  I  C  S :   W  S  C  P  S  Q  Y  R  C  *  V  K  Y  C  W  G  Y  Q  G  C  T  T  W  P  R  W  A   </first_frame>
            <second_frame>  A  Q  G  G  L  G  R  Q  Q  A  N  N  P  P  T  A  G  S  E  T  T  D  N  L  P  A  P  N  T  N  P  L  P  N  P  W  A  S  A   : A  G  A  A  Q  A  N  T  A  A  R  S  N  T  A  G  D  T  R  G  A  P  L  G  L  G  G  L  </second_frame>
            <third_frame>   H  K  V  D  *  A  D  S  R  Q  I  I  L  Q  L  L  V  L  R  L  L  I  I  C  L  P  Q  I  L  I  H  F  R  I  L  G  H  L  Q  :  L  E  L  P  K  P  I  P  L  L  G  Q  I  L  L  G  I  P  G  V  H  H  L  A  *  V  G  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="C03HBa0176B05.1" strand="-"/>
                <serials PGL_serial="17" AGS_serial="3" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="94354" stop="94237"/>
                    <exon start="93395" stop="93313"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>201</number_coding_nucleotides>
                  <number_encoded_amino_acids>67</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>AQGGLGRQQANNPPTAGSETTDNLPAPNTNPLPNPWASAAGAAQANTAARSNTAGDTRGAPLGLGGL</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 239 chains have been computed
$ 
$ memory statistics:
$ 252824 bytes spliced alignments in total
$ 111 spliced alignments have been stored
$ 2277 bytes was the average size of a spliced alignment
$ 27656 bytes predicted gene locations in total
$ 17 predicted gene locations have been stored
$ 1626 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 279 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 13:17:03
-->
