<?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 06:51:03"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/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-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E720051" ref_strand="+" ref_description="SGN-E720051 [FC09CG03]">
      <seq>gggcgattggcggccaatcggccgaattggtgctaaaatttaataatactttatctatcaatggagtatccttttggccaccacggtcaccaccaccaccaccaccgtcgcgacgacgacgacgaccgtcgagaagaatttccacctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactaaagtgaaggatgaagagggatttccaagctttgctttggttaataaagcttcaggactggcagtgaagcactctattggcgcctctcaccctgtgcagctcaccccatacaatcccgacgttcttgatgcatcattcttatggacagagagcagggatgtgggtgatggttatcgagcag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7295" stop="11649"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7595" g_stop="8243" g_length="649"/>
          <reference_exon_boundary r_type="cDNA" r_start="27" r_stop="675" r_length="649" r_score="0.997"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <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="8321" g_stop="8443" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="676" r_stop="798" r_length="123" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="8444" i_stop="11261" i_length="2818">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.709" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11262" g_stop="11349" g_length="88"/>
          <reference_exon_boundary r_type="cDNA" r_start="799" r_stop="886" r_length="88" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E720051" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>860</cumulative_length_of_scored_exons>
        <coverage percentage="0.971" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E720051" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7595" e_stop="8243"/>
          <exon e_start="8321" e_stop="8443"/>
          <exon e_start="11262" e_stop="11349"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTGTGCTAAAATTTAATAATACTTTATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCTGTATGTTCAATTCTTGGTTAACCATAAGCTCTGAAAAATATTATTTGGTTTGATTATTTGTGCTGCATAGTTTGATGATATCCCTCAATGATGCCTATATAATGTTAAACTTCACAAAGCAATGAACTTTGATAGCCAACCCATTGCTTTGTCATAAACAGGATATTAGAGATTTCTGCCTAATGCAAATGCTATGACTTATAATGTTTTGGGGTGTTTCAAGTAGTACCATGGTAGAGATGGAGGGCTTAATGGTGGAGTTGTAGTGGAAATGTGGTACCGTAAGTTTGTGAGACGGAAAAATAGTCAGTGTCCAGTCAATTATTTGTGTCCTGTATTGTGTAACATATCAAACTGTGCCTAATACTTCCATTTTTAGCTCCTAGGTCTATCCCTCGAGTGTTTAGTGGTATCCACTTTTGTATGAGATTTCCACTGTATCTGTGTATGCTTCAATATTCTCTATTTTTCTTTTGTGATTGTTCGACAGCTTTTACTGCCGGAGATTTCTACCTAATGCAAATACTCTGACTTGCAAATGATGCATGCTGGGAATTTTTCACATTTGGCTAAAAAAAAAGGAAAATAAATCTTTTGCAATTTAATGTTGAGTATGAAGGGTCTTTTTAATCATTTGAGAGCTCAGTGTGAGCTTTTTAGAAGAAAAAACATTCAAGTATGGATTGTTTGGACATTATGGAGGGAGAGAAACCTTAGACATTTTGAGGGGAAGTGTAATTGAATATATAAACGGAAGGGTTCGTGTTTGGTGGTGAGACTCGAATTCAGGATCTTGCTTTCTCCGATAGACTGATACCCTGTTGAATTGTGTAATCATTTGTTTGAGCTATTAGAGAGAGCACACTGTCATTTACTTAATTATGCTGAGATCTAGAACTTGCACTTGTAGTTGACAGATAAAGATCATAAGCTATAAATTAAACAACTATCGGTATGCCTATGTTATTAATTAATATTTACTCTTTAAAGAGGAAAGATAAGAAGATACTGTTGATTATGTGTGCATTACTTTTATCTGAAGGAAGAGGTGGAGAAAAGGAAATGGCTTTATTGCCTATATAGTTTTTGATATCTTTATAATATGTGCTCCAACACAAAGGAGACTGTTCTTGTAAGAATCCAATTCCCTCTTTTAGCAAGAGATCTAACTTATGCTTCATTTTGTTGGGGTGTGAATAACTCATTGGACCCAGATTACTGCCCCCCTTTAGATAGGGAAGGCCAGCCTTATAAAAAAAGATGGGTGATGGTAGATGTGCAGCTGATTCTGGGCTTAATTTTAGCAACTTGGGGTTAAAGTTGAGATATTTATCAGATGTGGTTGTTGTATAATTGGTAGTAGCTGGAACATGGTTTTAAGAGCGGTGTAGAAGAAAAAAACAAATGCATTTTTAATTAGTTGATATTTAAATGATTTAGACCTCCATTAAGTCGAATAAAACAGGGCCTTAGTTGGTCCTGGATATCATACTGAACTTAAATGTATCTTTGTGCCATCTAGTTCTAGACTGATGATCAAGACAACTTGCAAATTGCCAAACAAAGCCGTGATTCTCTGCACAACCAATGGTAGCTTATTGGTTAAGAAGATTTTTAGCACTTGTTTGTACACCCTGGTCACTTGAATTTGGCTTTAAGGAGGCACCATTATTTTGTTCATTCTTTTTTTTTCTTGCAGAAGCGATGAGTATCATCCTTTATGTTAGGATTAGGAAGATTAATGCATAATATAATTTCTTGTGCCTGATACGAATTGACCTGGAAGATGCAAAGGAATCAAACATTCAAACCCCAAAAGAAGGAGCAATAGCACCTTCTTGATAGAACAGGAAAATGATTATTTCTCTTTTTTTTTTAAAGCCTCCTTTATACTAGACTGAGATTTTATCCATTTGTAGATACGAACCGACCCGGAAGATGCTGTAATCTCTATTGTTTATAGTATTACAGAACTAACCACTGCACAATGAGACTATGTCTACGATGCAATGTAGGATCTCTTTCAAGTCCTCTACTTGACTCTCCACTTTAGCCTATTGTGAGCCTTCATATCCTCTTGCCAAGATCTTCTAAGGTTCATACGCTTCCATGTGTTAAGTGGCCATCTCAGAATGTATCATCCCCTGAAGAAAATTTGTCCCTGAACTTGTACCTTGAAACACGAAGAGTGTATGTATGAATAACCTGTCTTTTAAAATCAAGATTTGAAATGGTATAAATAAAACAAGATAGTGTCCATATACTTTCTTAACCCAACTTGCATACACTTTCTTATGCAAATTGGTTTTACAGGAGTATTTATGTCTTTTTTTTTCTATATAAAAAAAGAAGATGTGAGACTCCTAAAATAAGCACAAAATGCAACTTGCCTGGGCTAATGGGTTAAGTTCTGTAGGAACGAGAAAAGGGAAAATTGTAACCATGTTAAGCTTGAGTTTTTTGCAATTGCAGAAAACCTTCATAGTTGATGGAAATTGGTGAAACATGGGCATTGGTGGCTCGAGTTTTTTGCAAGGAGTATTGGCATCTTAAACCTTGTTCTTTGTGATAGGAATTGCTATTGCCTACAAATGGCATACACATGCACATGCTATATGCAACTTCAAGTCTTGAACTAAATATTTGCCTTCCTTGCCTCCATGCACCTTTGTTTGCTGCAAATGCATGAAAATAGATTTTACTATGCCCCAAGGGTAATGAACTCTGTTGTTCAGGGGTCCTGTCTTACTAATATTACATGGCTTCTCATGGGGAAGGAAGCATAGAAAGTTACATTTCCATTGAACTTCTTTTACAGGTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAG</genome_strand>
        <mrna_strand>TTGGTGCTAAAATTTAATAATACTTTATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCATTCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E721813" ref_strand="+" ref_description="SGN-E721813 [FC15BE07]">
      <seq>ggcggccaaatcggccgaattggtgctaaatttaataatactttatctatcaatggagtatccttttggccaccacggtcaccaccaccaccaccaccgtcgcgacgacgacaacgaccgtcgagaagaatttccacctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatgggcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcaaatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactaaagtgaaggatgaagagggatttccaagctttgctttggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7295" stop="8691"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7595" g_stop="8243" g_length="649"/>
          <reference_exon_boundary r_type="cDNA" r_start="20" r_stop="667" r_length="648" r_score="0.991"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <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="8321" g_stop="8391" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="668" r_stop="738" r_length="71" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E721813" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>720</cumulative_length_of_scored_exons>
        <coverage percentage="0.976" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E721813" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7595" e_stop="8243"/>
          <exon e_start="8321" e_stop="8391"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTGTGCTAAAATTTAATAATACTTTATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGT</genome_strand>
        <mrna_strand>TTGGTGCT-AAATTTAATAATACTTTATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACAACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGGCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAAATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E720373" ref_strand="+" ref_description="SGN-E720373 [FC10CE10]">
      <seq>ggtgctaaaatttaataatactttatctatcaatggagtatccttttggccaccacggtcaccaccaccaccaccaccgtcgcgacgacgacgacgaccgtcgagaagaatttccacctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactaaagtgaaggatgaagagggatttccaagctttgctttggttaataaagcttcaggactggcagtgaagcactctattggcgcctctcaccctgtgcagctcaccccatacaatcccgacgttcttgatgcatcaatcttatggacagagagcagggatgtgggtgatggttatcgagcagttaggatggtcaataacattaacct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7298" stop="11674"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7597" g_stop="8243" g_length="647"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="647" r_length="647" r_score="0.998"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <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="8321" g_stop="8443" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="648" r_stop="770" r_length="123" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="8444" i_stop="11261" i_length="2818">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.709" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11262" g_stop="11374" g_length="113"/>
          <reference_exon_boundary r_type="cDNA" r_start="771" r_stop="883" r_length="113" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E720373" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>883</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E720373" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7597" e_stop="8243"/>
          <exon e_start="8321" e_stop="8443"/>
          <exon e_start="11262" e_stop="11374"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTGCTAAAATTTAATAATACTTTATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCTGTATGTTCAATTCTTGGTTAACCATAAGCTCTGAAAAATATTATTTGGTTTGATTATTTGTGCTGCATAGTTTGATGATATCCCTCAATGATGCCTATATAATGTTAAACTTCACAAAGCAATGAACTTTGATAGCCAACCCATTGCTTTGTCATAAACAGGATATTAGAGATTTCTGCCTAATGCAAATGCTATGACTTATAATGTTTTGGGGTGTTTCAAGTAGTACCATGGTAGAGATGGAGGGCTTAATGGTGGAGTTGTAGTGGAAATGTGGTACCGTAAGTTTGTGAGACGGAAAAATAGTCAGTGTCCAGTCAATTATTTGTGTCCTGTATTGTGTAACATATCAAACTGTGCCTAATACTTCCATTTTTAGCTCCTAGGTCTATCCCTCGAGTGTTTAGTGGTATCCACTTTTGTATGAGATTTCCACTGTATCTGTGTATGCTTCAATATTCTCTATTTTTCTTTTGTGATTGTTCGACAGCTTTTACTGCCGGAGATTTCTACCTAATGCAAATACTCTGACTTGCAAATGATGCATGCTGGGAATTTTTCACATTTGGCTAAAAAAAAAGGAAAATAAATCTTTTGCAATTTAATGTTGAGTATGAAGGGTCTTTTTAATCATTTGAGAGCTCAGTGTGAGCTTTTTAGAAGAAAAAACATTCAAGTATGGATTGTTTGGACATTATGGAGGGAGAGAAACCTTAGACATTTTGAGGGGAAGTGTAATTGAATATATAAACGGAAGGGTTCGTGTTTGGTGGTGAGACTCGAATTCAGGATCTTGCTTTCTCCGATAGACTGATACCCTGTTGAATTGTGTAATCATTTGTTTGAGCTATTAGAGAGAGCACACTGTCATTTACTTAATTATGCTGAGATCTAGAACTTGCACTTGTAGTTGACAGATAAAGATCATAAGCTATAAATTAAACAACTATCGGTATGCCTATGTTATTAATTAATATTTACTCTTTAAAGAGGAAAGATAAGAAGATACTGTTGATTATGTGTGCATTACTTTTATCTGAAGGAAGAGGTGGAGAAAAGGAAATGGCTTTATTGCCTATATAGTTTTTGATATCTTTATAATATGTGCTCCAACACAAAGGAGACTGTTCTTGTAAGAATCCAATTCCCTCTTTTAGCAAGAGATCTAACTTATGCTTCATTTTGTTGGGGTGTGAATAACTCATTGGACCCAGATTACTGCCCCCCTTTAGATAGGGAAGGCCAGCCTTATAAAAAAAGATGGGTGATGGTAGATGTGCAGCTGATTCTGGGCTTAATTTTAGCAACTTGGGGTTAAAGTTGAGATATTTATCAGATGTGGTTGTTGTATAATTGGTAGTAGCTGGAACATGGTTTTAAGAGCGGTGTAGAAGAAAAAAACAAATGCATTTTTAATTAGTTGATATTTAAATGATTTAGACCTCCATTAAGTCGAATAAAACAGGGCCTTAGTTGGTCCTGGATATCATACTGAACTTAAATGTATCTTTGTGCCATCTAGTTCTAGACTGATGATCAAGACAACTTGCAAATTGCCAAACAAAGCCGTGATTCTCTGCACAACCAATGGTAGCTTATTGGTTAAGAAGATTTTTAGCACTTGTTTGTACACCCTGGTCACTTGAATTTGGCTTTAAGGAGGCACCATTATTTTGTTCATTCTTTTTTTTTCTTGCAGAAGCGATGAGTATCATCCTTTATGTTAGGATTAGGAAGATTAATGCATAATATAATTTCTTGTGCCTGATACGAATTGACCTGGAAGATGCAAAGGAATCAAACATTCAAACCCCAAAAGAAGGAGCAATAGCACCTTCTTGATAGAACAGGAAAATGATTATTTCTCTTTTTTTTTTAAAGCCTCCTTTATACTAGACTGAGATTTTATCCATTTGTAGATACGAACCGACCCGGAAGATGCTGTAATCTCTATTGTTTATAGTATTACAGAACTAACCACTGCACAATGAGACTATGTCTACGATGCAATGTAGGATCTCTTTCAAGTCCTCTACTTGACTCTCCACTTTAGCCTATTGTGAGCCTTCATATCCTCTTGCCAAGATCTTCTAAGGTTCATACGCTTCCATGTGTTAAGTGGCCATCTCAGAATGTATCATCCCCTGAAGAAAATTTGTCCCTGAACTTGTACCTTGAAACACGAAGAGTGTATGTATGAATAACCTGTCTTTTAAAATCAAGATTTGAAATGGTATAAATAAAACAAGATAGTGTCCATATACTTTCTTAACCCAACTTGCATACACTTTCTTATGCAAATTGGTTTTACAGGAGTATTTATGTCTTTTTTTTTCTATATAAAAAAAGAAGATGTGAGACTCCTAAAATAAGCACAAAATGCAACTTGCCTGGGCTAATGGGTTAAGTTCTGTAGGAACGAGAAAAGGGAAAATTGTAACCATGTTAAGCTTGAGTTTTTTGCAATTGCAGAAAACCTTCATAGTTGATGGAAATTGGTGAAACATGGGCATTGGTGGCTCGAGTTTTTTGCAAGGAGTATTGGCATCTTAAACCTTGTTCTTTGTGATAGGAATTGCTATTGCCTACAAATGGCATACACATGCACATGCTATATGCAACTTCAAGTCTTGAACTAAATATTTGCCTTCCTTGCCTCCATGCACCTTTGTTTGCTGCAAATGCATGAAAATAGATTTTACTATGCCCCAAGGGTAATGAACTCTGTTGTTCAGGGGTCCTGTCTTACTAATATTACATGGCTTCTCATGGGGAAGGAAGCATAGAAAGTTACATTTCCATTGAACTTCTTTTACAGGTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCT</genome_strand>
        <mrna_strand>GGTGCTAAAATTTAATAATACTTTATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E722952" ref_strand="+" ref_description="SGN-E722952 [FC18DD09]">
      <seq>ggtgctaaaatttaataatactttatctatcaatggagtatccttttggccaccacggtcaccaccaccaccaccaccgtcgcgacgacgacgacgaccgtcgagaagaatttccacctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactaaagtgaaggatgaagagggatttccaagctttgctttggttaataaagcttcaggactggcagtgaagcactctattggcgcctctcaccctgtgcagctcaccccatacaatcccgacgttcttgatgcatcaatcttatggacagaaagcagggatgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7298" stop="11629"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7597" g_stop="8243" g_length="647"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="647" r_length="647" r_score="0.998"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <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="8321" g_stop="8443" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="648" r_stop="770" r_length="123" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="8444" i_stop="11261" i_length="2818">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.709" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11262" g_stop="11329" g_length="68"/>
          <reference_exon_boundary r_type="cDNA" r_start="771" r_stop="838" r_length="68" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E722952" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>838</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E722952" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7597" e_stop="8243"/>
          <exon e_start="8321" e_stop="8443"/>
          <exon e_start="11262" e_stop="11329"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTGCTAAAATTTAATAATACTTTATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCTGTATGTTCAATTCTTGGTTAACCATAAGCTCTGAAAAATATTATTTGGTTTGATTATTTGTGCTGCATAGTTTGATGATATCCCTCAATGATGCCTATATAATGTTAAACTTCACAAAGCAATGAACTTTGATAGCCAACCCATTGCTTTGTCATAAACAGGATATTAGAGATTTCTGCCTAATGCAAATGCTATGACTTATAATGTTTTGGGGTGTTTCAAGTAGTACCATGGTAGAGATGGAGGGCTTAATGGTGGAGTTGTAGTGGAAATGTGGTACCGTAAGTTTGTGAGACGGAAAAATAGTCAGTGTCCAGTCAATTATTTGTGTCCTGTATTGTGTAACATATCAAACTGTGCCTAATACTTCCATTTTTAGCTCCTAGGTCTATCCCTCGAGTGTTTAGTGGTATCCACTTTTGTATGAGATTTCCACTGTATCTGTGTATGCTTCAATATTCTCTATTTTTCTTTTGTGATTGTTCGACAGCTTTTACTGCCGGAGATTTCTACCTAATGCAAATACTCTGACTTGCAAATGATGCATGCTGGGAATTTTTCACATTTGGCTAAAAAAAAAGGAAAATAAATCTTTTGCAATTTAATGTTGAGTATGAAGGGTCTTTTTAATCATTTGAGAGCTCAGTGTGAGCTTTTTAGAAGAAAAAACATTCAAGTATGGATTGTTTGGACATTATGGAGGGAGAGAAACCTTAGACATTTTGAGGGGAAGTGTAATTGAATATATAAACGGAAGGGTTCGTGTTTGGTGGTGAGACTCGAATTCAGGATCTTGCTTTCTCCGATAGACTGATACCCTGTTGAATTGTGTAATCATTTGTTTGAGCTATTAGAGAGAGCACACTGTCATTTACTTAATTATGCTGAGATCTAGAACTTGCACTTGTAGTTGACAGATAAAGATCATAAGCTATAAATTAAACAACTATCGGTATGCCTATGTTATTAATTAATATTTACTCTTTAAAGAGGAAAGATAAGAAGATACTGTTGATTATGTGTGCATTACTTTTATCTGAAGGAAGAGGTGGAGAAAAGGAAATGGCTTTATTGCCTATATAGTTTTTGATATCTTTATAATATGTGCTCCAACACAAAGGAGACTGTTCTTGTAAGAATCCAATTCCCTCTTTTAGCAAGAGATCTAACTTATGCTTCATTTTGTTGGGGTGTGAATAACTCATTGGACCCAGATTACTGCCCCCCTTTAGATAGGGAAGGCCAGCCTTATAAAAAAAGATGGGTGATGGTAGATGTGCAGCTGATTCTGGGCTTAATTTTAGCAACTTGGGGTTAAAGTTGAGATATTTATCAGATGTGGTTGTTGTATAATTGGTAGTAGCTGGAACATGGTTTTAAGAGCGGTGTAGAAGAAAAAAACAAATGCATTTTTAATTAGTTGATATTTAAATGATTTAGACCTCCATTAAGTCGAATAAAACAGGGCCTTAGTTGGTCCTGGATATCATACTGAACTTAAATGTATCTTTGTGCCATCTAGTTCTAGACTGATGATCAAGACAACTTGCAAATTGCCAAACAAAGCCGTGATTCTCTGCACAACCAATGGTAGCTTATTGGTTAAGAAGATTTTTAGCACTTGTTTGTACACCCTGGTCACTTGAATTTGGCTTTAAGGAGGCACCATTATTTTGTTCATTCTTTTTTTTTCTTGCAGAAGCGATGAGTATCATCCTTTATGTTAGGATTAGGAAGATTAATGCATAATATAATTTCTTGTGCCTGATACGAATTGACCTGGAAGATGCAAAGGAATCAAACATTCAAACCCCAAAAGAAGGAGCAATAGCACCTTCTTGATAGAACAGGAAAATGATTATTTCTCTTTTTTTTTTAAAGCCTCCTTTATACTAGACTGAGATTTTATCCATTTGTAGATACGAACCGACCCGGAAGATGCTGTAATCTCTATTGTTTATAGTATTACAGAACTAACCACTGCACAATGAGACTATGTCTACGATGCAATGTAGGATCTCTTTCAAGTCCTCTACTTGACTCTCCACTTTAGCCTATTGTGAGCCTTCATATCCTCTTGCCAAGATCTTCTAAGGTTCATACGCTTCCATGTGTTAAGTGGCCATCTCAGAATGTATCATCCCCTGAAGAAAATTTGTCCCTGAACTTGTACCTTGAAACACGAAGAGTGTATGTATGAATAACCTGTCTTTTAAAATCAAGATTTGAAATGGTATAAATAAAACAAGATAGTGTCCATATACTTTCTTAACCCAACTTGCATACACTTTCTTATGCAAATTGGTTTTACAGGAGTATTTATGTCTTTTTTTTTCTATATAAAAAAAGAAGATGTGAGACTCCTAAAATAAGCACAAAATGCAACTTGCCTGGGCTAATGGGTTAAGTTCTGTAGGAACGAGAAAAGGGAAAATTGTAACCATGTTAAGCTTGAGTTTTTTGCAATTGCAGAAAACCTTCATAGTTGATGGAAATTGGTGAAACATGGGCATTGGTGGCTCGAGTTTTTTGCAAGGAGTATTGGCATCTTAAACCTTGTTCTTTGTGATAGGAATTGCTATTGCCTACAAATGGCATACACATGCACATGCTATATGCAACTTCAAGTCTTGAACTAAATATTTGCCTTCCTTGCCTCCATGCACCTTTGTTTGCTGCAAATGCATGAAAATAGATTTTACTATGCCCCAAGGGTAATGAACTCTGTTGTTCAGGGGTCCTGTCTTACTAATATTACATGGCTTCTCATGGGGAAGGAAGCATAGAAAGTTACATTTCCATTGAACTTCTTTTACAGGTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGT</genome_strand>
        <mrna_strand>GGTGCTAAAATTTAATAATACTTTATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAAAGCAGGGATGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E706873" ref_strand="+" ref_description="SGN-E706873 [FA31AG02]">
      <seq>cccgctctttatctatcaatggagtatccgttttggccaccacggccaccaccaccaccaccaccgtcgcgacgacgacgacgaccgtcgagaagaatttccacctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttgaacacgtgtctcatgacagtgagagtggcgatcggcatcatgatcgtcatcgttttcaaccctcatgtgcctacagtcttccatcatcaaacttcacatccagagcttatggataaacccttccttttagggtttatactaaggctgatactaattactct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7317" stop="8483"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7611" g_stop="8183" g_length="573"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="577" r_length="577" r_score="0.967"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E706873" ref_strand="+">
        <total_alignment_score>0.967</total_alignment_score>
        <cumulative_length_of_scored_exons>573</cumulative_length_of_scored_exons>
        <coverage percentage="0.993" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E706873" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7611" e_stop="8183"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATAATACTTTATCTATCAATGGAGTATCC-TTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAA-CCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAA-CCTT-CTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCT</genome_strand>
        <mrna_strand>CCCGCTCTTTATCTATCAATGGAGTATCCGTTTTGGCCACCACGGCCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGACAGTGAGAGTGGCGATCGGCATCATGATCGTCATCGTTTTCAACCCTCATGTGCCTACAGTCTTCCATCATCAAACTTCACATCCAGAGCTTATGGATAAACCCTTCCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E702705" ref_strand="+" ref_description="SGN-E702705 [FA19BH06]">
      <seq>ctttatctatcaatggagtatccttttggccaccacggtcaccaccaccaccaccaccgtcgcgacgacgacgacgaccgtcgagaagaatttccacctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactaaagtgaaggatgaagagggatttccaagctttgctttggttaataaagcttcaggactggcagtgaagcactctattggcgcctctcaccctgtgcagctcaccccatacaatcccgacgttcttgatgcatcaatcttatggacagagagcagggatgtgggtgatggttatcgagcagttaggatggtncataacattaaccctcatctagatgcat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7317" stop="11688"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7617" g_stop="8243" g_length="627"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="627" r_length="627" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <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="8321" g_stop="8443" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="628" r_stop="750" r_length="123" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="8444" i_stop="11261" i_length="2818">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.709" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11262" g_stop="11388" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="751" r_stop="877" r_length="127" r_score="0.961"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E702705" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>877</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E702705" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7617" e_stop="8243"/>
          <exon e_start="8321" e_stop="8443"/>
          <exon e_start="11262" e_stop="11388"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCTGTATGTTCAATTCTTGGTTAACCATAAGCTCTGAAAAATATTATTTGGTTTGATTATTTGTGCTGCATAGTTTGATGATATCCCTCAATGATGCCTATATAATGTTAAACTTCACAAAGCAATGAACTTTGATAGCCAACCCATTGCTTTGTCATAAACAGGATATTAGAGATTTCTGCCTAATGCAAATGCTATGACTTATAATGTTTTGGGGTGTTTCAAGTAGTACCATGGTAGAGATGGAGGGCTTAATGGTGGAGTTGTAGTGGAAATGTGGTACCGTAAGTTTGTGAGACGGAAAAATAGTCAGTGTCCAGTCAATTATTTGTGTCCTGTATTGTGTAACATATCAAACTGTGCCTAATACTTCCATTTTTAGCTCCTAGGTCTATCCCTCGAGTGTTTAGTGGTATCCACTTTTGTATGAGATTTCCACTGTATCTGTGTATGCTTCAATATTCTCTATTTTTCTTTTGTGATTGTTCGACAGCTTTTACTGCCGGAGATTTCTACCTAATGCAAATACTCTGACTTGCAAATGATGCATGCTGGGAATTTTTCACATTTGGCTAAAAAAAAAGGAAAATAAATCTTTTGCAATTTAATGTTGAGTATGAAGGGTCTTTTTAATCATTTGAGAGCTCAGTGTGAGCTTTTTAGAAGAAAAAACATTCAAGTATGGATTGTTTGGACATTATGGAGGGAGAGAAACCTTAGACATTTTGAGGGGAAGTGTAATTGAATATATAAACGGAAGGGTTCGTGTTTGGTGGTGAGACTCGAATTCAGGATCTTGCTTTCTCCGATAGACTGATACCCTGTTGAATTGTGTAATCATTTGTTTGAGCTATTAGAGAGAGCACACTGTCATTTACTTAATTATGCTGAGATCTAGAACTTGCACTTGTAGTTGACAGATAAAGATCATAAGCTATAAATTAAACAACTATCGGTATGCCTATGTTATTAATTAATATTTACTCTTTAAAGAGGAAAGATAAGAAGATACTGTTGATTATGTGTGCATTACTTTTATCTGAAGGAAGAGGTGGAGAAAAGGAAATGGCTTTATTGCCTATATAGTTTTTGATATCTTTATAATATGTGCTCCAACACAAAGGAGACTGTTCTTGTAAGAATCCAATTCCCTCTTTTAGCAAGAGATCTAACTTATGCTTCATTTTGTTGGGGTGTGAATAACTCATTGGACCCAGATTACTGCCCCCCTTTAGATAGGGAAGGCCAGCCTTATAAAAAAAGATGGGTGATGGTAGATGTGCAGCTGATTCTGGGCTTAATTTTAGCAACTTGGGGTTAAAGTTGAGATATTTATCAGATGTGGTTGTTGTATAATTGGTAGTAGCTGGAACATGGTTTTAAGAGCGGTGTAGAAGAAAAAAACAAATGCATTTTTAATTAGTTGATATTTAAATGATTTAGACCTCCATTAAGTCGAATAAAACAGGGCCTTAGTTGGTCCTGGATATCATACTGAACTTAAATGTATCTTTGTGCCATCTAGTTCTAGACTGATGATCAAGACAACTTGCAAATTGCCAAACAAAGCCGTGATTCTCTGCACAACCAATGGTAGCTTATTGGTTAAGAAGATTTTTAGCACTTGTTTGTACACCCTGGTCACTTGAATTTGGCTTTAAGGAGGCACCATTATTTTGTTCATTCTTTTTTTTTCTTGCAGAAGCGATGAGTATCATCCTTTATGTTAGGATTAGGAAGATTAATGCATAATATAATTTCTTGTGCCTGATACGAATTGACCTGGAAGATGCAAAGGAATCAAACATTCAAACCCCAAAAGAAGGAGCAATAGCACCTTCTTGATAGAACAGGAAAATGATTATTTCTCTTTTTTTTTTAAAGCCTCCTTTATACTAGACTGAGATTTTATCCATTTGTAGATACGAACCGACCCGGAAGATGCTGTAATCTCTATTGTTTATAGTATTACAGAACTAACCACTGCACAATGAGACTATGTCTACGATGCAATGTAGGATCTCTTTCAAGTCCTCTACTTGACTCTCCACTTTAGCCTATTGTGAGCCTTCATATCCTCTTGCCAAGATCTTCTAAGGTTCATACGCTTCCATGTGTTAAGTGGCCATCTCAGAATGTATCATCCCCTGAAGAAAATTTGTCCCTGAACTTGTACCTTGAAACACGAAGAGTGTATGTATGAATAACCTGTCTTTTAAAATCAAGATTTGAAATGGTATAAATAAAACAAGATAGTGTCCATATACTTTCTTAACCCAACTTGCATACACTTTCTTATGCAAATTGGTTTTACAGGAGTATTTATGTCTTTTTTTTTCTATATAAAAAAAGAAGATGTGAGACTCCTAAAATAAGCACAAAATGCAACTTGCCTGGGCTAATGGGTTAAGTTCTGTAGGAACGAGAAAAGGGAAAATTGTAACCATGTTAAGCTTGAGTTTTTTGCAATTGCAGAAAACCTTCATAGTTGATGGAAATTGGTGAAACATGGGCATTGGTGGCTCGAGTTTTTTGCAAGGAGTATTGGCATCTTAAACCTTGTTCTTTGTGATAGGAATTGCTATTGCCTACAAATGGCATACACATGCACATGCTATATGCAACTTCAAGTCTTGAACTAAATATTTGCCTTCCTTGCCTCCATGCACCTTTGTTTGCTGCAAATGCATGAAAATAGATTTTACTATGCCCCAAGGGTAATGAACTCTGTTGTTCAGGGGTCCTGTCTTACTAATATTACATGGCTTCTCATGGGGAAGGAAGCATAGAAAGTTACATTTCCATTGAACTTCTTTTACAGGTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCAT</genome_strand>
        <mrna_strand>CTTTATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTNCATAACATTAACCCTCATCTAGATGCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E706428" ref_strand="+" ref_description="SGN-E706428 [FA29DG03]">
      <seq>ctttatctatcaatggagtatccttttggccaccacggtcaccaccaccaccaccaccgtcgcgacgacgacgacgaccgtcgagaagaatttccacctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccagggctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccggtgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactaaagtgaaggatgaagagggatttccaagctttgctttggttaataaagcttcaggactggcagtgaagcactctattggcgcctctcaccctgtgcagctcacccccatacaatcccgacgttcttgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7317" stop="11598"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7617" g_stop="8243" g_length="627"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="627" r_length="627" r_score="0.997"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <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="8321" g_stop="8443" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="628" r_stop="750" r_length="123" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="8444" i_stop="11261" i_length="2818">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.709" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11262" g_stop="11298" g_length="37"/>
          <reference_exon_boundary r_type="cDNA" r_start="751" r_stop="788" r_length="38" r_score="0.946"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E706428" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>787</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E706428" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7617" e_stop="8243"/>
          <exon e_start="8321" e_stop="8443"/>
          <exon e_start="11262" e_stop="11298"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCTGTATGTTCAATTCTTGGTTAACCATAAGCTCTGAAAAATATTATTTGGTTTGATTATTTGTGCTGCATAGTTTGATGATATCCCTCAATGATGCCTATATAATGTTAAACTTCACAAAGCAATGAACTTTGATAGCCAACCCATTGCTTTGTCATAAACAGGATATTAGAGATTTCTGCCTAATGCAAATGCTATGACTTATAATGTTTTGGGGTGTTTCAAGTAGTACCATGGTAGAGATGGAGGGCTTAATGGTGGAGTTGTAGTGGAAATGTGGTACCGTAAGTTTGTGAGACGGAAAAATAGTCAGTGTCCAGTCAATTATTTGTGTCCTGTATTGTGTAACATATCAAACTGTGCCTAATACTTCCATTTTTAGCTCCTAGGTCTATCCCTCGAGTGTTTAGTGGTATCCACTTTTGTATGAGATTTCCACTGTATCTGTGTATGCTTCAATATTCTCTATTTTTCTTTTGTGATTGTTCGACAGCTTTTACTGCCGGAGATTTCTACCTAATGCAAATACTCTGACTTGCAAATGATGCATGCTGGGAATTTTTCACATTTGGCTAAAAAAAAAGGAAAATAAATCTTTTGCAATTTAATGTTGAGTATGAAGGGTCTTTTTAATCATTTGAGAGCTCAGTGTGAGCTTTTTAGAAGAAAAAACATTCAAGTATGGATTGTTTGGACATTATGGAGGGAGAGAAACCTTAGACATTTTGAGGGGAAGTGTAATTGAATATATAAACGGAAGGGTTCGTGTTTGGTGGTGAGACTCGAATTCAGGATCTTGCTTTCTCCGATAGACTGATACCCTGTTGAATTGTGTAATCATTTGTTTGAGCTATTAGAGAGAGCACACTGTCATTTACTTAATTATGCTGAGATCTAGAACTTGCACTTGTAGTTGACAGATAAAGATCATAAGCTATAAATTAAACAACTATCGGTATGCCTATGTTATTAATTAATATTTACTCTTTAAAGAGGAAAGATAAGAAGATACTGTTGATTATGTGTGCATTACTTTTATCTGAAGGAAGAGGTGGAGAAAAGGAAATGGCTTTATTGCCTATATAGTTTTTGATATCTTTATAATATGTGCTCCAACACAAAGGAGACTGTTCTTGTAAGAATCCAATTCCCTCTTTTAGCAAGAGATCTAACTTATGCTTCATTTTGTTGGGGTGTGAATAACTCATTGGACCCAGATTACTGCCCCCCTTTAGATAGGGAAGGCCAGCCTTATAAAAAAAGATGGGTGATGGTAGATGTGCAGCTGATTCTGGGCTTAATTTTAGCAACTTGGGGTTAAAGTTGAGATATTTATCAGATGTGGTTGTTGTATAATTGGTAGTAGCTGGAACATGGTTTTAAGAGCGGTGTAGAAGAAAAAAACAAATGCATTTTTAATTAGTTGATATTTAAATGATTTAGACCTCCATTAAGTCGAATAAAACAGGGCCTTAGTTGGTCCTGGATATCATACTGAACTTAAATGTATCTTTGTGCCATCTAGTTCTAGACTGATGATCAAGACAACTTGCAAATTGCCAAACAAAGCCGTGATTCTCTGCACAACCAATGGTAGCTTATTGGTTAAGAAGATTTTTAGCACTTGTTTGTACACCCTGGTCACTTGAATTTGGCTTTAAGGAGGCACCATTATTTTGTTCATTCTTTTTTTTTCTTGCAGAAGCGATGAGTATCATCCTTTATGTTAGGATTAGGAAGATTAATGCATAATATAATTTCTTGTGCCTGATACGAATTGACCTGGAAGATGCAAAGGAATCAAACATTCAAACCCCAAAAGAAGGAGCAATAGCACCTTCTTGATAGAACAGGAAAATGATTATTTCTCTTTTTTTTTTAAAGCCTCCTTTATACTAGACTGAGATTTTATCCATTTGTAGATACGAACCGACCCGGAAGATGCTGTAATCTCTATTGTTTATAGTATTACAGAACTAACCACTGCACAATGAGACTATGTCTACGATGCAATGTAGGATCTCTTTCAAGTCCTCTACTTGACTCTCCACTTTAGCCTATTGTGAGCCTTCATATCCTCTTGCCAAGATCTTCTAAGGTTCATACGCTTCCATGTGTTAAGTGGCCATCTCAGAATGTATCATCCCCTGAAGAAAATTTGTCCCTGAACTTGTACCTTGAAACACGAAGAGTGTATGTATGAATAACCTGTCTTTTAAAATCAAGATTTGAAATGGTATAAATAAAACAAGATAGTGTCCATATACTTTCTTAACCCAACTTGCATACACTTTCTTATGCAAATTGGTTTTACAGGAGTATTTATGTCTTTTTTTTTCTATATAAAAAAAGAAGATGTGAGACTCCTAAAATAAGCACAAAATGCAACTTGCCTGGGCTAATGGGTTAAGTTCTGTAGGAACGAGAAAAGGGAAAATTGTAACCATGTTAAGCTTGAGTTTTTTGCAATTGCAGAAAACCTTCATAGTTGATGGAAATTGGTGAAACATGGGCATTGGTGGCTCGAGTTTTTTGCAAGGAGTATTGGCATCTTAAACCTTGTTCTTTGTGATAGGAATTGCTATTGCCTACAAATGGCATACACATGCACATGCTATATGCAACTTCAAGTCTTGAACTAAATATTTGCCTTCCTTGCCTCCATGCACCTTTGTTTGCTGCAAATGCATGAAAATAGATTTTACTATGCCCCAAGGGTAATGAACTCTGTTGTTCAGGGGTCCTGTCTTACTAATATTACATGGCTTCTCATGGGGAAGGAAGCATAGAAAGTTACATTTCCATTGAACTTCTTTTACAGGTGCAGCTCA-CCCCATACAATCCCGACGTTCTTGATG</genome_strand>
        <mrna_strand>CTTTATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGGCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGGTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGCAGCTCACCCCCATACAATCCCGACGTTCTTGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E708029" ref_strand="+" ref_description="SGN-E708029 [FA34CF05]">
      <seq>ctttatcgagtcatggagtatccttttggccaccacggtcaccaccaccaccaccaccgtcgcgacgacgacgacgaccgtcgagaagaatttccacctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactaaagtgaaggatgaagagggatttccaagctttgctttggttaataaagcttcaggactggcagtgaagcactctattggcgcctctca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7317" stop="8739"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7617" g_stop="8243" g_length="627"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="627" r_length="627" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <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="8321" g_stop="8439" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="628" r_stop="746" r_length="119" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E708029" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>746</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E708029" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7617" e_stop="8243"/>
          <exon e_start="8321" e_stop="8439"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCA</genome_strand>
        <mrna_strand>CTTTATCGAGTCATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E729016" ref_strand="+" ref_description="SGN-E729016 [LA19CG11]">
      <seq>ggctcgaggactttatctatcaatggagtatccttttggccaccacggtcaccaccaccaccaccaccgtcgcgacgacgacgacgaccgtcgagaagaatttccacctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactaaagtgaaggatgaagagggatttccaagctttgctttggttaataaagcttcaggactggcagtgaagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7316" stop="8720"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7618" g_stop="8243" g_length="626"/>
          <reference_exon_boundary r_type="cDNA" r_start="12" r_stop="637" r_length="626" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <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="8321" g_stop="8420" g_length="100"/>
          <reference_exon_boundary r_type="cDNA" r_start="638" r_stop="737" r_length="100" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E729016" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>726</cumulative_length_of_scored_exons>
        <coverage percentage="0.985" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E729016" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7618" e_stop="8243"/>
          <exon e_start="8321" e_stop="8420"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGC</genome_strand>
        <mrna_strand>TTTATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E699126" ref_strand="+" ref_description="SGN-E699126 [FA08DA05]">
      <seq>gaggctatcaatggagtatccttttggccaccacggtcaccaccaccaccaccaccgtcgcgacgacgacgacgaccgtcgagaagaatttccacctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactcgctcaccatccgtgacggaaaagtttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactaaagtgaaggatgaagagggatttccaagctttgctttggttaataaagcttcaggactggcagtgaagcactctattggcgcctctcaccctgtgcagctcaccccatacaatcccgacgttcttgatgcatcaatcttatggac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7323" stop="11614"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7619" g_stop="8243" g_length="625"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="626" r_length="626" r_score="0.989"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="8321" g_stop="8443" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="627" r_stop="749" r_length="123" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="8444" i_stop="11261" i_length="2818">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.709" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11262" g_stop="11314" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="750" r_stop="802" r_length="53" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E699126" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>801</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E699126" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7619" e_stop="8243"/>
          <exon e_start="8321" e_stop="8443"/>
          <exon e_start="11262" e_stop="11314"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAG-TTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCTGTATGTTCAATTCTTGGTTAACCATAAGCTCTGAAAAATATTATTTGGTTTGATTATTTGTGCTGCATAGTTTGATGATATCCCTCAATGATGCCTATATAATGTTAAACTTCACAAAGCAATGAACTTTGATAGCCAACCCATTGCTTTGTCATAAACAGGATATTAGAGATTTCTGCCTAATGCAAATGCTATGACTTATAATGTTTTGGGGTGTTTCAAGTAGTACCATGGTAGAGATGGAGGGCTTAATGGTGGAGTTGTAGTGGAAATGTGGTACCGTAAGTTTGTGAGACGGAAAAATAGTCAGTGTCCAGTCAATTATTTGTGTCCTGTATTGTGTAACATATCAAACTGTGCCTAATACTTCCATTTTTAGCTCCTAGGTCTATCCCTCGAGTGTTTAGTGGTATCCACTTTTGTATGAGATTTCCACTGTATCTGTGTATGCTTCAATATTCTCTATTTTTCTTTTGTGATTGTTCGACAGCTTTTACTGCCGGAGATTTCTACCTAATGCAAATACTCTGACTTGCAAATGATGCATGCTGGGAATTTTTCACATTTGGCTAAAAAAAAAGGAAAATAAATCTTTTGCAATTTAATGTTGAGTATGAAGGGTCTTTTTAATCATTTGAGAGCTCAGTGTGAGCTTTTTAGAAGAAAAAACATTCAAGTATGGATTGTTTGGACATTATGGAGGGAGAGAAACCTTAGACATTTTGAGGGGAAGTGTAATTGAATATATAAACGGAAGGGTTCGTGTTTGGTGGTGAGACTCGAATTCAGGATCTTGCTTTCTCCGATAGACTGATACCCTGTTGAATTGTGTAATCATTTGTTTGAGCTATTAGAGAGAGCACACTGTCATTTACTTAATTATGCTGAGATCTAGAACTTGCACTTGTAGTTGACAGATAAAGATCATAAGCTATAAATTAAACAACTATCGGTATGCCTATGTTATTAATTAATATTTACTCTTTAAAGAGGAAAGATAAGAAGATACTGTTGATTATGTGTGCATTACTTTTATCTGAAGGAAGAGGTGGAGAAAAGGAAATGGCTTTATTGCCTATATAGTTTTTGATATCTTTATAATATGTGCTCCAACACAAAGGAGACTGTTCTTGTAAGAATCCAATTCCCTCTTTTAGCAAGAGATCTAACTTATGCTTCATTTTGTTGGGGTGTGAATAACTCATTGGACCCAGATTACTGCCCCCCTTTAGATAGGGAAGGCCAGCCTTATAAAAAAAGATGGGTGATGGTAGATGTGCAGCTGATTCTGGGCTTAATTTTAGCAACTTGGGGTTAAAGTTGAGATATTTATCAGATGTGGTTGTTGTATAATTGGTAGTAGCTGGAACATGGTTTTAAGAGCGGTGTAGAAGAAAAAAACAAATGCATTTTTAATTAGTTGATATTTAAATGATTTAGACCTCCATTAAGTCGAATAAAACAGGGCCTTAGTTGGTCCTGGATATCATACTGAACTTAAATGTATCTTTGTGCCATCTAGTTCTAGACTGATGATCAAGACAACTTGCAAATTGCCAAACAAAGCCGTGATTCTCTGCACAACCAATGGTAGCTTATTGGTTAAGAAGATTTTTAGCACTTGTTTGTACACCCTGGTCACTTGAATTTGGCTTTAAGGAGGCACCATTATTTTGTTCATTCTTTTTTTTTCTTGCAGAAGCGATGAGTATCATCCTTTATGTTAGGATTAGGAAGATTAATGCATAATATAATTTCTTGTGCCTGATACGAATTGACCTGGAAGATGCAAAGGAATCAAACATTCAAACCCCAAAAGAAGGAGCAATAGCACCTTCTTGATAGAACAGGAAAATGATTATTTCTCTTTTTTTTTTAAAGCCTCCTTTATACTAGACTGAGATTTTATCCATTTGTAGATACGAACCGACCCGGAAGATGCTGTAATCTCTATTGTTTATAGTATTACAGAACTAACCACTGCACAATGAGACTATGTCTACGATGCAATGTAGGATCTCTTTCAAGTCCTCTACTTGACTCTCCACTTTAGCCTATTGTGAGCCTTCATATCCTCTTGCCAAGATCTTCTAAGGTTCATACGCTTCCATGTGTTAAGTGGCCATCTCAGAATGTATCATCCCCTGAAGAAAATTTGTCCCTGAACTTGTACCTTGAAACACGAAGAGTGTATGTATGAATAACCTGTCTTTTAAAATCAAGATTTGAAATGGTATAAATAAAACAAGATAGTGTCCATATACTTTCTTAACCCAACTTGCATACACTTTCTTATGCAAATTGGTTTTACAGGAGTATTTATGTCTTTTTTTTTCTATATAAAAAAAGAAGATGTGAGACTCCTAAAATAAGCACAAAATGCAACTTGCCTGGGCTAATGGGTTAAGTTCTGTAGGAACGAGAAAAGGGAAAATTGTAACCATGTTAAGCTTGAGTTTTTTGCAATTGCAGAAAACCTTCATAGTTGATGGAAATTGGTGAAACATGGGCATTGGTGGCTCGAGTTTTTTGCAAGGAGTATTGGCATCTTAAACCTTGTTCTTTGTGATAGGAATTGCTATTGCCTACAAATGGCATACACATGCACATGCTATATGCAACTTCAAGTCTTGAACTAAATATTTGCCTTCCTTGCCTCCATGCACCTTTGTTTGCTGCAAATGCATGAAAATAGATTTTACTATGCCCCAAGGGTAATGAACTCTGTTGTTCAGGGGTCCTGTCTTACTAATATTACATGGCTTCTCATGGGGAAGGAAGCATAGAAAGTTACATTTCCATTGAACTTCTTTTACAGGTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGAC</genome_strand>
        <mrna_strand>GAGGCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCGCTCACCATCCGTGACGGAAAAGTTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E718721" ref_strand="+" ref_description="SGN-E718721 [FC05CC10]">
      <seq>atctatcaatggagtatccttttggccaccacggtcaccaccaccaccaccaccgtcgcgacgacgacgacgaccgtcgagaagaatttccacctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttgaacacgtgtctcatgaaagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7321" stop="8527"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7621" g_stop="8227" g_length="607"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="607" r_length="607" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E718721" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>607</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E718721" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7621" e_stop="8227"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCC</genome_strand>
        <mrna_strand>ATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAAAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E214430" ref_strand="+" ref_description="SGN-E214430 [cLEC-77-D3]">
      <seq>tctatcaatggagtatccttttggccaccacggtcaccaccaccaccaccaccgtcgcgacgacgacgacgaccgtcgagaagaatttccacctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgctttctatgatccatcagatccatttcaacactggtataaagatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7322" stop="8636"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7622" g_stop="8243" g_length="622"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="622" r_length="622" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.998" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="8321" g_stop="8336" g_length="16"/>
          <reference_exon_boundary r_type="cDNA" r_start="623" r_stop="638" r_length="16" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E214430" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>638</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E214430" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7622" e_stop="8243"/>
          <exon e_start="8321" e_stop="8336"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATG</genome_strand>
        <mrna_strand>TCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTTCTATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E704265" ref_strand="+" ref_description="SGN-E704265 [FA23DC05]">
      <seq>tatcaatggagtatccttttggccaccacggtcaccaccaccaccaccaccgtcgcgacgacgacgacgaccgtcgagaagaatttccacctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactanagtgaaggatgaagagggatttccaagctttgctttggttaataaagcttcaggactggcagtgaagcactctattggcgcctctcaccctgtgcagctcaccccatacaatcccgacgttcttgatgcatcaatcttatggacagagagcagggatgtgggtgatggttatcgagcagttaggatggtcaataacattaacctcaatctagatgcatggaatgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7324" stop="11697"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7624" g_stop="8243" g_length="620"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="620" r_length="620" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="8321" g_stop="8443" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="621" r_stop="743" r_length="123" r_score="0.992"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="8444" i_stop="11261" i_length="2818">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.709" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11262" g_stop="11397" g_length="136"/>
          <reference_exon_boundary r_type="cDNA" r_start="744" r_stop="879" r_length="136" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E704265" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>879</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E704265" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7624" e_stop="8243"/>
          <exon e_start="8321" e_stop="8443"/>
          <exon e_start="11262" e_stop="11397"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCTGTATGTTCAATTCTTGGTTAACCATAAGCTCTGAAAAATATTATTTGGTTTGATTATTTGTGCTGCATAGTTTGATGATATCCCTCAATGATGCCTATATAATGTTAAACTTCACAAAGCAATGAACTTTGATAGCCAACCCATTGCTTTGTCATAAACAGGATATTAGAGATTTCTGCCTAATGCAAATGCTATGACTTATAATGTTTTGGGGTGTTTCAAGTAGTACCATGGTAGAGATGGAGGGCTTAATGGTGGAGTTGTAGTGGAAATGTGGTACCGTAAGTTTGTGAGACGGAAAAATAGTCAGTGTCCAGTCAATTATTTGTGTCCTGTATTGTGTAACATATCAAACTGTGCCTAATACTTCCATTTTTAGCTCCTAGGTCTATCCCTCGAGTGTTTAGTGGTATCCACTTTTGTATGAGATTTCCACTGTATCTGTGTATGCTTCAATATTCTCTATTTTTCTTTTGTGATTGTTCGACAGCTTTTACTGCCGGAGATTTCTACCTAATGCAAATACTCTGACTTGCAAATGATGCATGCTGGGAATTTTTCACATTTGGCTAAAAAAAAAGGAAAATAAATCTTTTGCAATTTAATGTTGAGTATGAAGGGTCTTTTTAATCATTTGAGAGCTCAGTGTGAGCTTTTTAGAAGAAAAAACATTCAAGTATGGATTGTTTGGACATTATGGAGGGAGAGAAACCTTAGACATTTTGAGGGGAAGTGTAATTGAATATATAAACGGAAGGGTTCGTGTTTGGTGGTGAGACTCGAATTCAGGATCTTGCTTTCTCCGATAGACTGATACCCTGTTGAATTGTGTAATCATTTGTTTGAGCTATTAGAGAGAGCACACTGTCATTTACTTAATTATGCTGAGATCTAGAACTTGCACTTGTAGTTGACAGATAAAGATCATAAGCTATAAATTAAACAACTATCGGTATGCCTATGTTATTAATTAATATTTACTCTTTAAAGAGGAAAGATAAGAAGATACTGTTGATTATGTGTGCATTACTTTTATCTGAAGGAAGAGGTGGAGAAAAGGAAATGGCTTTATTGCCTATATAGTTTTTGATATCTTTATAATATGTGCTCCAACACAAAGGAGACTGTTCTTGTAAGAATCCAATTCCCTCTTTTAGCAAGAGATCTAACTTATGCTTCATTTTGTTGGGGTGTGAATAACTCATTGGACCCAGATTACTGCCCCCCTTTAGATAGGGAAGGCCAGCCTTATAAAAAAAGATGGGTGATGGTAGATGTGCAGCTGATTCTGGGCTTAATTTTAGCAACTTGGGGTTAAAGTTGAGATATTTATCAGATGTGGTTGTTGTATAATTGGTAGTAGCTGGAACATGGTTTTAAGAGCGGTGTAGAAGAAAAAAACAAATGCATTTTTAATTAGTTGATATTTAAATGATTTAGACCTCCATTAAGTCGAATAAAACAGGGCCTTAGTTGGTCCTGGATATCATACTGAACTTAAATGTATCTTTGTGCCATCTAGTTCTAGACTGATGATCAAGACAACTTGCAAATTGCCAAACAAAGCCGTGATTCTCTGCACAACCAATGGTAGCTTATTGGTTAAGAAGATTTTTAGCACTTGTTTGTACACCCTGGTCACTTGAATTTGGCTTTAAGGAGGCACCATTATTTTGTTCATTCTTTTTTTTTCTTGCAGAAGCGATGAGTATCATCCTTTATGTTAGGATTAGGAAGATTAATGCATAATATAATTTCTTGTGCCTGATACGAATTGACCTGGAAGATGCAAAGGAATCAAACATTCAAACCCCAAAAGAAGGAGCAATAGCACCTTCTTGATAGAACAGGAAAATGATTATTTCTCTTTTTTTTTTAAAGCCTCCTTTATACTAGACTGAGATTTTATCCATTTGTAGATACGAACCGACCCGGAAGATGCTGTAATCTCTATTGTTTATAGTATTACAGAACTAACCACTGCACAATGAGACTATGTCTACGATGCAATGTAGGATCTCTTTCAAGTCCTCTACTTGACTCTCCACTTTAGCCTATTGTGAGCCTTCATATCCTCTTGCCAAGATCTTCTAAGGTTCATACGCTTCCATGTGTTAAGTGGCCATCTCAGAATGTATCATCCCCTGAAGAAAATTTGTCCCTGAACTTGTACCTTGAAACACGAAGAGTGTATGTATGAATAACCTGTCTTTTAAAATCAAGATTTGAAATGGTATAAATAAAACAAGATAGTGTCCATATACTTTCTTAACCCAACTTGCATACACTTTCTTATGCAAATTGGTTTTACAGGAGTATTTATGTCTTTTTTTTTCTATATAAAAAAAGAAGATGTGAGACTCCTAAAATAAGCACAAAATGCAACTTGCCTGGGCTAATGGGTTAAGTTCTGTAGGAACGAGAAAAGGGAAAATTGTAACCATGTTAAGCTTGAGTTTTTTGCAATTGCAGAAAACCTTCATAGTTGATGGAAATTGGTGAAACATGGGCATTGGTGGCTCGAGTTTTTTGCAAGGAGTATTGGCATCTTAAACCTTGTTCTTTGTGATAGGAATTGCTATTGCCTACAAATGGCATACACATGCACATGCTATATGCAACTTCAAGTCTTGAACTAAATATTTGCCTTCCTTGCCTCCATGCACCTTTGTTTGCTGCAAATGCATGAAAATAGATTTTACTATGCCCCAAGGGTAATGAACTCTGTTGTTCAGGGGTCCTGTCTTACTAATATTACATGGCTTCTCATGGGGAAGGAAGCATAGAAAGTTACATTTCCATTGAACTTCTTTTACAGGTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTG</genome_strand>
        <mrna_strand>TATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTANAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E697826" ref_strand="+" ref_description="SGN-E697826 [FA04BF02]">
      <seq>cccttttggccaccacggtcaccaccaccaccaccaccgtcgcgacgacgacgacgaccgtcgagaagaatttccacctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcgctatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatctcgcaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttcgaaccgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtggctaccgccttccat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7338" stop="8408"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7637" g_stop="8108" g_length="472"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="472" r_length="472" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E697826" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>472</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E697826" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7637" e_stop="8108"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTT-GAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCAT</genome_strand>
        <mrna_strand>CCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCGCTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTCGCAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTCGAAC-CGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGGCTACCGCCTTCCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E538852" ref_strand="+" ref_description="SGN-E538852 [TUS-58-E23]">
      <seq>tttggccaccacggtcaccaccaccaccaccaccgtcgcgacgacgacgacgaccgtcgagaagaatttccacctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactaaagtgaaggatgaagagggatttccaagctttgctttggttaataaagcttcaggactggcagtgaagcactctattggcgcctctcaccctgtgcagctcaccccatacaatcccgacgttcttgatgcatcaatcttatgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7341" stop="11612"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7641" g_stop="8243" g_length="603"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="603" r_length="603" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <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="8321" g_stop="8443" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="604" r_stop="726" r_length="123" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="8444" i_stop="11261" i_length="2818">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.709" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11262" g_stop="11312" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="727" r_stop="777" r_length="51" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E538852" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>777</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E538852" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7641" e_stop="8243"/>
          <exon e_start="8321" e_stop="8443"/>
          <exon e_start="11262" e_stop="11312"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCTGTATGTTCAATTCTTGGTTAACCATAAGCTCTGAAAAATATTATTTGGTTTGATTATTTGTGCTGCATAGTTTGATGATATCCCTCAATGATGCCTATATAATGTTAAACTTCACAAAGCAATGAACTTTGATAGCCAACCCATTGCTTTGTCATAAACAGGATATTAGAGATTTCTGCCTAATGCAAATGCTATGACTTATAATGTTTTGGGGTGTTTCAAGTAGTACCATGGTAGAGATGGAGGGCTTAATGGTGGAGTTGTAGTGGAAATGTGGTACCGTAAGTTTGTGAGACGGAAAAATAGTCAGTGTCCAGTCAATTATTTGTGTCCTGTATTGTGTAACATATCAAACTGTGCCTAATACTTCCATTTTTAGCTCCTAGGTCTATCCCTCGAGTGTTTAGTGGTATCCACTTTTGTATGAGATTTCCACTGTATCTGTGTATGCTTCAATATTCTCTATTTTTCTTTTGTGATTGTTCGACAGCTTTTACTGCCGGAGATTTCTACCTAATGCAAATACTCTGACTTGCAAATGATGCATGCTGGGAATTTTTCACATTTGGCTAAAAAAAAAGGAAAATAAATCTTTTGCAATTTAATGTTGAGTATGAAGGGTCTTTTTAATCATTTGAGAGCTCAGTGTGAGCTTTTTAGAAGAAAAAACATTCAAGTATGGATTGTTTGGACATTATGGAGGGAGAGAAACCTTAGACATTTTGAGGGGAAGTGTAATTGAATATATAAACGGAAGGGTTCGTGTTTGGTGGTGAGACTCGAATTCAGGATCTTGCTTTCTCCGATAGACTGATACCCTGTTGAATTGTGTAATCATTTGTTTGAGCTATTAGAGAGAGCACACTGTCATTTACTTAATTATGCTGAGATCTAGAACTTGCACTTGTAGTTGACAGATAAAGATCATAAGCTATAAATTAAACAACTATCGGTATGCCTATGTTATTAATTAATATTTACTCTTTAAAGAGGAAAGATAAGAAGATACTGTTGATTATGTGTGCATTACTTTTATCTGAAGGAAGAGGTGGAGAAAAGGAAATGGCTTTATTGCCTATATAGTTTTTGATATCTTTATAATATGTGCTCCAACACAAAGGAGACTGTTCTTGTAAGAATCCAATTCCCTCTTTTAGCAAGAGATCTAACTTATGCTTCATTTTGTTGGGGTGTGAATAACTCATTGGACCCAGATTACTGCCCCCCTTTAGATAGGGAAGGCCAGCCTTATAAAAAAAGATGGGTGATGGTAGATGTGCAGCTGATTCTGGGCTTAATTTTAGCAACTTGGGGTTAAAGTTGAGATATTTATCAGATGTGGTTGTTGTATAATTGGTAGTAGCTGGAACATGGTTTTAAGAGCGGTGTAGAAGAAAAAAACAAATGCATTTTTAATTAGTTGATATTTAAATGATTTAGACCTCCATTAAGTCGAATAAAACAGGGCCTTAGTTGGTCCTGGATATCATACTGAACTTAAATGTATCTTTGTGCCATCTAGTTCTAGACTGATGATCAAGACAACTTGCAAATTGCCAAACAAAGCCGTGATTCTCTGCACAACCAATGGTAGCTTATTGGTTAAGAAGATTTTTAGCACTTGTTTGTACACCCTGGTCACTTGAATTTGGCTTTAAGGAGGCACCATTATTTTGTTCATTCTTTTTTTTTCTTGCAGAAGCGATGAGTATCATCCTTTATGTTAGGATTAGGAAGATTAATGCATAATATAATTTCTTGTGCCTGATACGAATTGACCTGGAAGATGCAAAGGAATCAAACATTCAAACCCCAAAAGAAGGAGCAATAGCACCTTCTTGATAGAACAGGAAAATGATTATTTCTCTTTTTTTTTTAAAGCCTCCTTTATACTAGACTGAGATTTTATCCATTTGTAGATACGAACCGACCCGGAAGATGCTGTAATCTCTATTGTTTATAGTATTACAGAACTAACCACTGCACAATGAGACTATGTCTACGATGCAATGTAGGATCTCTTTCAAGTCCTCTACTTGACTCTCCACTTTAGCCTATTGTGAGCCTTCATATCCTCTTGCCAAGATCTTCTAAGGTTCATACGCTTCCATGTGTTAAGTGGCCATCTCAGAATGTATCATCCCCTGAAGAAAATTTGTCCCTGAACTTGTACCTTGAAACACGAAGAGTGTATGTATGAATAACCTGTCTTTTAAAATCAAGATTTGAAATGGTATAAATAAAACAAGATAGTGTCCATATACTTTCTTAACCCAACTTGCATACACTTTCTTATGCAAATTGGTTTTACAGGAGTATTTATGTCTTTTTTTTTCTATATAAAAAAAGAAGATGTGAGACTCCTAAAATAAGCACAAAATGCAACTTGCCTGGGCTAATGGGTTAAGTTCTGTAGGAACGAGAAAAGGGAAAATTGTAACCATGTTAAGCTTGAGTTTTTTGCAATTGCAGAAAACCTTCATAGTTGATGGAAATTGGTGAAACATGGGCATTGGTGGCTCGAGTTTTTTGCAAGGAGTATTGGCATCTTAAACCTTGTTCTTTGTGATAGGAATTGCTATTGCCTACAAATGGCATACACATGCACATGCTATATGCAACTTCAAGTCTTGAACTAAATATTTGCCTTCCTTGCCTCCATGCACCTTTGTTTGCTGCAAATGCATGAAAATAGATTTTACTATGCCCCAAGGGTAATGAACTCTGTTGTTCAGGGGTCCTGTCTTACTAATATTACATGGCTTCTCATGGGGAAGGAAGCATAGAAAGTTACATTTCCATTGAACTTCTTTTACAGGTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGG</genome_strand>
        <mrna_strand>TTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E278925" ref_strand="+" ref_description="SGN-E278925 [cLER-2-C14]">
      <seq>ttggccaccacggccaccaccaccaccaccaccgtcgcgacgacgacgacgaccgtcgagaagaatttccacctaccggccaccgatcaccctacgacgaaccacctcctcctcaagttggccaggactttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccggcgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtacggactaactatccggcaccgtcaatggaggagaactatggtggatcttacaatcgtccaccgacgagatccgattactatgacgccccaccaccaccacctacttacgggtatgcctccgatgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaacctgcttttacggtttatactaaggctgatactaattactctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7342" stop="8484"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7642" g_stop="8184" g_length="543"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="544" r_length="544" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E278925" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>543</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E278925" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7642" e_stop="8184"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGT-CGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTC</genome_strand>
        <mrna_strand>TTGGCCACCACGGCCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTACCGGCCACCGATCACCCTACGACGAACCACCTCCTCCTCAAGTTGGCCAGGACTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGGCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTACGGACTAACTATCCGGCACCGTCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGACGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTACGGGTATGCCTCCGATGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTGCTTTTACGGTTTATACTAAGGCTGATACTAATTACTCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E707741" ref_strand="+" ref_description="SGN-E707741 [FA33DD09]">
      <seq>cactgtcaccaccaccaccaccaccgtcgcgacgacgacgaccactgtcgagaagaatttccacctcccggccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactaaagtgaaggatgaagagggatttccaagctttgctttggttaataaagcttcaggactggcagtgaagcactctattggcgcctctcaccctgtgcagctcaccccatacaatcccgacgttcttgatgcatcaatcttatggacagagagcanggatgtgggtgatggttatcgagcagttaggatggtcaataacattaacctcaatctagatgcatggaatgctgataaagagcatggaggtgtccgcgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7350" stop="11724"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7650" g_stop="8243" g_length="594"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="591" r_length="591" r_score="0.990"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <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="8321" g_stop="8443" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="592" r_stop="714" r_length="123" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="8444" i_stop="11261" i_length="2818">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.709" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11262" g_stop="11424" g_length="163"/>
          <reference_exon_boundary r_type="cDNA" r_start="715" r_stop="877" r_length="163" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E707741" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>880</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E707741" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7650" e_stop="8243"/>
          <exon e_start="8321" e_stop="8443"/>
          <exon e_start="11262" e_stop="11424"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCTGTATGTTCAATTCTTGGTTAACCATAAGCTCTGAAAAATATTATTTGGTTTGATTATTTGTGCTGCATAGTTTGATGATATCCCTCAATGATGCCTATATAATGTTAAACTTCACAAAGCAATGAACTTTGATAGCCAACCCATTGCTTTGTCATAAACAGGATATTAGAGATTTCTGCCTAATGCAAATGCTATGACTTATAATGTTTTGGGGTGTTTCAAGTAGTACCATGGTAGAGATGGAGGGCTTAATGGTGGAGTTGTAGTGGAAATGTGGTACCGTAAGTTTGTGAGACGGAAAAATAGTCAGTGTCCAGTCAATTATTTGTGTCCTGTATTGTGTAACATATCAAACTGTGCCTAATACTTCCATTTTTAGCTCCTAGGTCTATCCCTCGAGTGTTTAGTGGTATCCACTTTTGTATGAGATTTCCACTGTATCTGTGTATGCTTCAATATTCTCTATTTTTCTTTTGTGATTGTTCGACAGCTTTTACTGCCGGAGATTTCTACCTAATGCAAATACTCTGACTTGCAAATGATGCATGCTGGGAATTTTTCACATTTGGCTAAAAAAAAAGGAAAATAAATCTTTTGCAATTTAATGTTGAGTATGAAGGGTCTTTTTAATCATTTGAGAGCTCAGTGTGAGCTTTTTAGAAGAAAAAACATTCAAGTATGGATTGTTTGGACATTATGGAGGGAGAGAAACCTTAGACATTTTGAGGGGAAGTGTAATTGAATATATAAACGGAAGGGTTCGTGTTTGGTGGTGAGACTCGAATTCAGGATCTTGCTTTCTCCGATAGACTGATACCCTGTTGAATTGTGTAATCATTTGTTTGAGCTATTAGAGAGAGCACACTGTCATTTACTTAATTATGCTGAGATCTAGAACTTGCACTTGTAGTTGACAGATAAAGATCATAAGCTATAAATTAAACAACTATCGGTATGCCTATGTTATTAATTAATATTTACTCTTTAAAGAGGAAAGATAAGAAGATACTGTTGATTATGTGTGCATTACTTTTATCTGAAGGAAGAGGTGGAGAAAAGGAAATGGCTTTATTGCCTATATAGTTTTTGATATCTTTATAATATGTGCTCCAACACAAAGGAGACTGTTCTTGTAAGAATCCAATTCCCTCTTTTAGCAAGAGATCTAACTTATGCTTCATTTTGTTGGGGTGTGAATAACTCATTGGACCCAGATTACTGCCCCCCTTTAGATAGGGAAGGCCAGCCTTATAAAAAAAGATGGGTGATGGTAGATGTGCAGCTGATTCTGGGCTTAATTTTAGCAACTTGGGGTTAAAGTTGAGATATTTATCAGATGTGGTTGTTGTATAATTGGTAGTAGCTGGAACATGGTTTTAAGAGCGGTGTAGAAGAAAAAAACAAATGCATTTTTAATTAGTTGATATTTAAATGATTTAGACCTCCATTAAGTCGAATAAAACAGGGCCTTAGTTGGTCCTGGATATCATACTGAACTTAAATGTATCTTTGTGCCATCTAGTTCTAGACTGATGATCAAGACAACTTGCAAATTGCCAAACAAAGCCGTGATTCTCTGCACAACCAATGGTAGCTTATTGGTTAAGAAGATTTTTAGCACTTGTTTGTACACCCTGGTCACTTGAATTTGGCTTTAAGGAGGCACCATTATTTTGTTCATTCTTTTTTTTTCTTGCAGAAGCGATGAGTATCATCCTTTATGTTAGGATTAGGAAGATTAATGCATAATATAATTTCTTGTGCCTGATACGAATTGACCTGGAAGATGCAAAGGAATCAAACATTCAAACCCCAAAAGAAGGAGCAATAGCACCTTCTTGATAGAACAGGAAAATGATTATTTCTCTTTTTTTTTTAAAGCCTCCTTTATACTAGACTGAGATTTTATCCATTTGTAGATACGAACCGACCCGGAAGATGCTGTAATCTCTATTGTTTATAGTATTACAGAACTAACCACTGCACAATGAGACTATGTCTACGATGCAATGTAGGATCTCTTTCAAGTCCTCTACTTGACTCTCCACTTTAGCCTATTGTGAGCCTTCATATCCTCTTGCCAAGATCTTCTAAGGTTCATACGCTTCCATGTGTTAAGTGGCCATCTCAGAATGTATCATCCCCTGAAGAAAATTTGTCCCTGAACTTGTACCTTGAAACACGAAGAGTGTATGTATGAATAACCTGTCTTTTAAAATCAAGATTTGAAATGGTATAAATAAAACAAGATAGTGTCCATATACTTTCTTAACCCAACTTGCATACACTTTCTTATGCAAATTGGTTTTACAGGAGTATTTATGTCTTTTTTTTTCTATATAAAAAAAGAAGATGTGAGACTCCTAAAATAAGCACAAAATGCAACTTGCCTGGGCTAATGGGTTAAGTTCTGTAGGAACGAGAAAAGGGAAAATTGTAACCATGTTAAGCTTGAGTTTTTTGCAATTGCAGAAAACCTTCATAGTTGATGGAAATTGGTGAAACATGGGCATTGGTGGCTCGAGTTTTTTGCAAGGAGTATTGGCATCTTAAACCTTGTTCTTTGTGATAGGAATTGCTATTGCCTACAAATGGCATACACATGCACATGCTATATGCAACTTCAAGTCTTGAACTAAATATTTGCCTTCCTTGCCTCCATGCACCTTTGTTTGCTGCAAATGCATGAAAATAGATTTTACTATGCCCCAAGGGTAATGAACTCTGTTGTTCAGGGGTCCTGTCTTACTAATATTACATGGCTTCTCATGGGGAAGGAAGCATAGAAAGTTACATTTCCATTGAACTTCTTTTACAGGTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTGATAAAGAGCATGGAGGTGTCCGCGATG</genome_strand>
        <mrna_strand>CACTGTCACCACCACCACCACCACCGTCGCGACGACGACGACCACTGTCGAGAAGAATTTCCACCTCCCGG---CCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCANGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTGATAAAGAGCATGGAGGTGTCCGCGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E268883" ref_strand="+" ref_description="SGN-E268883 [cLEM-4-F21]">
      <seq>tcaccaccaccaccaccaccgtcgcgacgacgacgacgaccgtcgagaagaatttccacctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctactttcgggtatccctccgttgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7355" stop="8482"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7655" g_stop="8182" g_length="528"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="528" r_length="528" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E268883" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>528</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E268883" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7655" e_stop="8182"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTC</genome_strand>
        <mrna_strand>TCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTTCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E309041" ref_strand="+" ref_description="SGN-E309041 [cLEZ-1-G1]">
      <seq>ccaccaccaccaccgtcgcgacgacgacgacgaccgtcgagaagaatttccacctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactaaagtgaaggatgaagagggatttccaagctttgctttggttaataaagcttcaggactggcagtgaagcactctattggcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7361" stop="8732"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7661" g_stop="8243" g_length="583"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="583" r_length="583" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <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="8321" g_stop="8432" g_length="112"/>
          <reference_exon_boundary r_type="cDNA" r_start="584" r_stop="695" r_length="112" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E309041" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>695</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E309041" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7661" e_stop="8243"/>
          <exon e_start="8321" e_stop="8432"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCG</genome_strand>
        <mrna_strand>CCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E721677" ref_strand="+" ref_description="SGN-E721677 [FC14DD08]">
      <seq>ctcccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgtcaatggaggagaactatggtggatcttacattcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7414" stop="8325"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7714" g_stop="8025" g_length="312"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="312" r_length="312" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E721677" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>312</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E721677" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7714" e_stop="8025"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTG</genome_strand>
        <mrna_strand>CTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGTCAATGGAGGAGAACTATGGTGGATCTTACATTCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E201287" ref_strand="+" ref_description="SGN-E201287 [cLEC-10-P13]">
      <seq>ccggccaccgaccaccctacgatgaaccacctcctcctcaagttggccaggtctttcatacttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttttcaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7417" stop="8381"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7717" g_stop="8087" g_length="371"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="371" r_length="371" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E201287" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>371</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E201287" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7717" e_stop="8087"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCT</genome_strand>
        <mrna_strand>CCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTTTCAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E277691" ref_strand="+" ref_description="SGN-E277691 [cLEL-5-I3](-)">
      <seq>gtttgatgatggaaggctgtaggcacatgaggttgaaaacgatgacgatcatgatgccgatcaccactctcactctcatgagacacgtgttcaacggagggatacccggaagtaggtggtggtggtggggcgtcatagtaatcggatctcggcggtggacgattgtaagatccaccatagttctcctccattggcggtggcggatagttagtccgaccataaatatcatccatcggtggcgtatactcagtccgaccataattatcatccatcggcggcggaggatagtgaggccggtcataattgggttccattggtggtggtccacctacatgagaagtatgaaagacctggccaacttgaggaggactcgtgccgaattctttggatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="-" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="8416" stop="7448"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="8116" g_stop="7747" g_length="370"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="370" r_length="370" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="-" ref_id="SGN-E277691" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>370</cumulative_length_of_scored_exons>
        <coverage percentage="0.946" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E277691" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="8116" e_stop="7747"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTTGATGATGGAAGGCTGTAGGCACATGAGGTTGAAAACGATGACGATCATGATGCCGATCACCACTCTCACTCTCATGAGACACGTGTTCAACGGAGGGATACCCGGAAGTAGGTGGTGGTGGTGGGGCGTCATAGTAATCGGATCTCGGCGGTGGACGATTGTAAGATCCACCATAGTTCTCCTCCATTGGCGGTGGCGGATAGTTAGTCCGACCATAAATATCATCCATCGGTGGCGTATACTCAGTCCGACCATAATTATCATCCATCGGCGGCGGAGGATAGTGAGGCCGGTCATAATTAGGTTCCATTGGTGGTGGTCCACCTACATGAGAAGTATGAAAGACCTGGCCAACTTGAGGAGGAG</genome_strand>
        <mrna_strand>GTTTGATGATGGAAGGCTGTAGGCACATGAGGTTGAAAACGATGACGATCATGATGCCGATCACCACTCTCACTCTCATGAGACACGTGTTCAACGGAGGGATACCCGGAAGTAGGTGGTGGTGGTGGGGCGTCATAGTAATCGGATCTCGGCGGTGGACGATTGTAAGATCCACCATAGTTCTCCTCCATTGGCGGTGGCGGATAGTTAGTCCGACCATAAATATCATCCATCGGTGGCGTATACTCAGTCCGACCATAATTATCATCCATCGGCGGCGGAGGATAGTGAGGCCGGTCATAATTGGGTTCCATTGGTGGTGGTCCACCTACATGAGAAGTATGAAAGACCTGGCCAACTTGAGGAGGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E708994" ref_strand="+" ref_description="SGN-E708994 [FA42BE02]">
      <seq>cgcttctcatgtaggtggaccaccaccaatggaacctaattatgaccggcctcactatcctccgccgccgatggatgataattatggtcggactgagtatacgccaccgatggatgatatttatggtcggactaactatccgccaccgccaatggaggagaactatggtggatcttacaatcgtccaccgccgagatccgattactatgacgccccaccaccaccacctacttccgggtatccctccgttgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactaaagtgaaggatgaagagggatttccaagctttgctttggttaataaagcttcaggactggcagtgaagcactctattggcgcctctcaccctgtgcagctcaccccatacaatcccgacgttcttgatgcatcaatcttatggacagagagcagggatgtgggtgatggttatcgagcagttaggatggtcaataacattaacctcaatctagatgcatggaatgctgataaagagcatggaggtgtc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7477" stop="11717"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7775" g_stop="8243" g_length="469"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="469" r_length="469" r_score="0.996"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <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="8321" g_stop="8443" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="470" r_stop="592" r_length="123" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="8444" i_stop="11261" i_length="2818">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.709" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11262" g_stop="11417" g_length="156"/>
          <reference_exon_boundary r_type="cDNA" r_start="593" r_stop="748" r_length="156" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E708994" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>748</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E708994" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7775" e_stop="8243"/>
          <exon e_start="8321" e_stop="8443"/>
          <exon e_start="11262" e_stop="11417"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCTGTATGTTCAATTCTTGGTTAACCATAAGCTCTGAAAAATATTATTTGGTTTGATTATTTGTGCTGCATAGTTTGATGATATCCCTCAATGATGCCTATATAATGTTAAACTTCACAAAGCAATGAACTTTGATAGCCAACCCATTGCTTTGTCATAAACAGGATATTAGAGATTTCTGCCTAATGCAAATGCTATGACTTATAATGTTTTGGGGTGTTTCAAGTAGTACCATGGTAGAGATGGAGGGCTTAATGGTGGAGTTGTAGTGGAAATGTGGTACCGTAAGTTTGTGAGACGGAAAAATAGTCAGTGTCCAGTCAATTATTTGTGTCCTGTATTGTGTAACATATCAAACTGTGCCTAATACTTCCATTTTTAGCTCCTAGGTCTATCCCTCGAGTGTTTAGTGGTATCCACTTTTGTATGAGATTTCCACTGTATCTGTGTATGCTTCAATATTCTCTATTTTTCTTTTGTGATTGTTCGACAGCTTTTACTGCCGGAGATTTCTACCTAATGCAAATACTCTGACTTGCAAATGATGCATGCTGGGAATTTTTCACATTTGGCTAAAAAAAAAGGAAAATAAATCTTTTGCAATTTAATGTTGAGTATGAAGGGTCTTTTTAATCATTTGAGAGCTCAGTGTGAGCTTTTTAGAAGAAAAAACATTCAAGTATGGATTGTTTGGACATTATGGAGGGAGAGAAACCTTAGACATTTTGAGGGGAAGTGTAATTGAATATATAAACGGAAGGGTTCGTGTTTGGTGGTGAGACTCGAATTCAGGATCTTGCTTTCTCCGATAGACTGATACCCTGTTGAATTGTGTAATCATTTGTTTGAGCTATTAGAGAGAGCACACTGTCATTTACTTAATTATGCTGAGATCTAGAACTTGCACTTGTAGTTGACAGATAAAGATCATAAGCTATAAATTAAACAACTATCGGTATGCCTATGTTATTAATTAATATTTACTCTTTAAAGAGGAAAGATAAGAAGATACTGTTGATTATGTGTGCATTACTTTTATCTGAAGGAAGAGGTGGAGAAAAGGAAATGGCTTTATTGCCTATATAGTTTTTGATATCTTTATAATATGTGCTCCAACACAAAGGAGACTGTTCTTGTAAGAATCCAATTCCCTCTTTTAGCAAGAGATCTAACTTATGCTTCATTTTGTTGGGGTGTGAATAACTCATTGGACCCAGATTACTGCCCCCCTTTAGATAGGGAAGGCCAGCCTTATAAAAAAAGATGGGTGATGGTAGATGTGCAGCTGATTCTGGGCTTAATTTTAGCAACTTGGGGTTAAAGTTGAGATATTTATCAGATGTGGTTGTTGTATAATTGGTAGTAGCTGGAACATGGTTTTAAGAGCGGTGTAGAAGAAAAAAACAAATGCATTTTTAATTAGTTGATATTTAAATGATTTAGACCTCCATTAAGTCGAATAAAACAGGGCCTTAGTTGGTCCTGGATATCATACTGAACTTAAATGTATCTTTGTGCCATCTAGTTCTAGACTGATGATCAAGACAACTTGCAAATTGCCAAACAAAGCCGTGATTCTCTGCACAACCAATGGTAGCTTATTGGTTAAGAAGATTTTTAGCACTTGTTTGTACACCCTGGTCACTTGAATTTGGCTTTAAGGAGGCACCATTATTTTGTTCATTCTTTTTTTTTCTTGCAGAAGCGATGAGTATCATCCTTTATGTTAGGATTAGGAAGATTAATGCATAATATAATTTCTTGTGCCTGATACGAATTGACCTGGAAGATGCAAAGGAATCAAACATTCAAACCCCAAAAGAAGGAGCAATAGCACCTTCTTGATAGAACAGGAAAATGATTATTTCTCTTTTTTTTTTAAAGCCTCCTTTATACTAGACTGAGATTTTATCCATTTGTAGATACGAACCGACCCGGAAGATGCTGTAATCTCTATTGTTTATAGTATTACAGAACTAACCACTGCACAATGAGACTATGTCTACGATGCAATGTAGGATCTCTTTCAAGTCCTCTACTTGACTCTCCACTTTAGCCTATTGTGAGCCTTCATATCCTCTTGCCAAGATCTTCTAAGGTTCATACGCTTCCATGTGTTAAGTGGCCATCTCAGAATGTATCATCCCCTGAAGAAAATTTGTCCCTGAACTTGTACCTTGAAACACGAAGAGTGTATGTATGAATAACCTGTCTTTTAAAATCAAGATTTGAAATGGTATAAATAAAACAAGATAGTGTCCATATACTTTCTTAACCCAACTTGCATACACTTTCTTATGCAAATTGGTTTTACAGGAGTATTTATGTCTTTTTTTTTCTATATAAAAAAAGAAGATGTGAGACTCCTAAAATAAGCACAAAATGCAACTTGCCTGGGCTAATGGGTTAAGTTCTGTAGGAACGAGAAAAGGGAAAATTGTAACCATGTTAAGCTTGAGTTTTTTGCAATTGCAGAAAACCTTCATAGTTGATGGAAATTGGTGAAACATGGGCATTGGTGGCTCGAGTTTTTTGCAAGGAGTATTGGCATCTTAAACCTTGTTCTTTGTGATAGGAATTGCTATTGCCTACAAATGGCATACACATGCACATGCTATATGCAACTTCAAGTCTTGAACTAAATATTTGCCTTCCTTGCCTCCATGCACCTTTGTTTGCTGCAAATGCATGAAAATAGATTTTACTATGCCCCAAGGGTAATGAACTCTGTTGTTCAGGGGTCCTGTCTTACTAATATTACATGGCTTCTCATGGGGAAGGAAGCATAGAAAGTTACATTTCCATTGAACTTCTTTTACAGGTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTGATAAAGAGCATGGAGGTGTC</genome_strand>
        <mrna_strand>CGCTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTGATAAAGAGCATGGAGGTGTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E307314" ref_strand="+" ref_description="SGN-E307314 [cLEY-12-J23]">
      <seq>ttccgggtatccctccgttgaacacgtgtctcatgagagtgagagtggtgatcggcatcatgatcgtcatcgttttcaacctcatgtgcctacagccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactaaagtgaaggatgaagagggatttccaagctttgctttggttaataaagcttcaggactggcagtgaagcactctattggcgcctctcaccctgtgcagctcaccccatacaatcccgacgttcttgatgcatcaatcttatggacagagagcagggatgtgggtgatggttatcgagcagttaggatggtcaataacattaacctcaatctagatgcatggaatgctgataaagagcatggaggtgtccgcgatgggaccactgtttgtc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7706" stop="11739"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="8006" g_stop="8243" g_length="238"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="238" r_length="238" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <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="8321" g_stop="8443" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="239" r_stop="361" r_length="123" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="8444" i_stop="11261" i_length="2818">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.709" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11262" g_stop="11439" g_length="178"/>
          <reference_exon_boundary r_type="cDNA" r_start="362" r_stop="539" r_length="178" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E307314" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>539</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E307314" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="8006" e_stop="8243"/>
          <exon e_start="8321" e_stop="8443"/>
          <exon e_start="11262" e_stop="11439"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCTGTATGTTCAATTCTTGGTTAACCATAAGCTCTGAAAAATATTATTTGGTTTGATTATTTGTGCTGCATAGTTTGATGATATCCCTCAATGATGCCTATATAATGTTAAACTTCACAAAGCAATGAACTTTGATAGCCAACCCATTGCTTTGTCATAAACAGGATATTAGAGATTTCTGCCTAATGCAAATGCTATGACTTATAATGTTTTGGGGTGTTTCAAGTAGTACCATGGTAGAGATGGAGGGCTTAATGGTGGAGTTGTAGTGGAAATGTGGTACCGTAAGTTTGTGAGACGGAAAAATAGTCAGTGTCCAGTCAATTATTTGTGTCCTGTATTGTGTAACATATCAAACTGTGCCTAATACTTCCATTTTTAGCTCCTAGGTCTATCCCTCGAGTGTTTAGTGGTATCCACTTTTGTATGAGATTTCCACTGTATCTGTGTATGCTTCAATATTCTCTATTTTTCTTTTGTGATTGTTCGACAGCTTTTACTGCCGGAGATTTCTACCTAATGCAAATACTCTGACTTGCAAATGATGCATGCTGGGAATTTTTCACATTTGGCTAAAAAAAAAGGAAAATAAATCTTTTGCAATTTAATGTTGAGTATGAAGGGTCTTTTTAATCATTTGAGAGCTCAGTGTGAGCTTTTTAGAAGAAAAAACATTCAAGTATGGATTGTTTGGACATTATGGAGGGAGAGAAACCTTAGACATTTTGAGGGGAAGTGTAATTGAATATATAAACGGAAGGGTTCGTGTTTGGTGGTGAGACTCGAATTCAGGATCTTGCTTTCTCCGATAGACTGATACCCTGTTGAATTGTGTAATCATTTGTTTGAGCTATTAGAGAGAGCACACTGTCATTTACTTAATTATGCTGAGATCTAGAACTTGCACTTGTAGTTGACAGATAAAGATCATAAGCTATAAATTAAACAACTATCGGTATGCCTATGTTATTAATTAATATTTACTCTTTAAAGAGGAAAGATAAGAAGATACTGTTGATTATGTGTGCATTACTTTTATCTGAAGGAAGAGGTGGAGAAAAGGAAATGGCTTTATTGCCTATATAGTTTTTGATATCTTTATAATATGTGCTCCAACACAAAGGAGACTGTTCTTGTAAGAATCCAATTCCCTCTTTTAGCAAGAGATCTAACTTATGCTTCATTTTGTTGGGGTGTGAATAACTCATTGGACCCAGATTACTGCCCCCCTTTAGATAGGGAAGGCCAGCCTTATAAAAAAAGATGGGTGATGGTAGATGTGCAGCTGATTCTGGGCTTAATTTTAGCAACTTGGGGTTAAAGTTGAGATATTTATCAGATGTGGTTGTTGTATAATTGGTAGTAGCTGGAACATGGTTTTAAGAGCGGTGTAGAAGAAAAAAACAAATGCATTTTTAATTAGTTGATATTTAAATGATTTAGACCTCCATTAAGTCGAATAAAACAGGGCCTTAGTTGGTCCTGGATATCATACTGAACTTAAATGTATCTTTGTGCCATCTAGTTCTAGACTGATGATCAAGACAACTTGCAAATTGCCAAACAAAGCCGTGATTCTCTGCACAACCAATGGTAGCTTATTGGTTAAGAAGATTTTTAGCACTTGTTTGTACACCCTGGTCACTTGAATTTGGCTTTAAGGAGGCACCATTATTTTGTTCATTCTTTTTTTTTCTTGCAGAAGCGATGAGTATCATCCTTTATGTTAGGATTAGGAAGATTAATGCATAATATAATTTCTTGTGCCTGATACGAATTGACCTGGAAGATGCAAAGGAATCAAACATTCAAACCCCAAAAGAAGGAGCAATAGCACCTTCTTGATAGAACAGGAAAATGATTATTTCTCTTTTTTTTTTAAAGCCTCCTTTATACTAGACTGAGATTTTATCCATTTGTAGATACGAACCGACCCGGAAGATGCTGTAATCTCTATTGTTTATAGTATTACAGAACTAACCACTGCACAATGAGACTATGTCTACGATGCAATGTAGGATCTCTTTCAAGTCCTCTACTTGACTCTCCACTTTAGCCTATTGTGAGCCTTCATATCCTCTTGCCAAGATCTTCTAAGGTTCATACGCTTCCATGTGTTAAGTGGCCATCTCAGAATGTATCATCCCCTGAAGAAAATTTGTCCCTGAACTTGTACCTTGAAACACGAAGAGTGTATGTATGAATAACCTGTCTTTTAAAATCAAGATTTGAAATGGTATAAATAAAACAAGATAGTGTCCATATACTTTCTTAACCCAACTTGCATACACTTTCTTATGCAAATTGGTTTTACAGGAGTATTTATGTCTTTTTTTTTCTATATAAAAAAAGAAGATGTGAGACTCCTAAAATAAGCACAAAATGCAACTTGCCTGGGCTAATGGGTTAAGTTCTGTAGGAACGAGAAAAGGGAAAATTGTAACCATGTTAAGCTTGAGTTTTTTGCAATTGCAGAAAACCTTCATAGTTGATGGAAATTGGTGAAACATGGGCATTGGTGGCTCGAGTTTTTTGCAAGGAGTATTGGCATCTTAAACCTTGTTCTTTGTGATAGGAATTGCTATTGCCTACAAATGGCATACACATGCACATGCTATATGCAACTTCAAGTCTTGAACTAAATATTTGCCTTCCTTGCCTCCATGCACCTTTGTTTGCTGCAAATGCATGAAAATAGATTTTACTATGCCCCAAGGGTAATGAACTCTGTTGTTCAGGGGTCCTGTCTTACTAATATTACATGGCTTCTCATGGGGAAGGAAGCATAGAAAGTTACATTTCCATTGAACTTCTTTTACAGGTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTGATAAAGAGCATGGAGGTGTCCGCGATGGGACCACTGTTTGTC</genome_strand>
        <mrna_strand>TTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTGATAAAGAGCATGGAGGTGTCCGCGATGGGACCACTGTTTGTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E307386" ref_strand="+" ref_description="SGN-E307386 [cLEY-12-K1]">
      <seq>ccaacctcatgtgcctacagttcttccatcatttaactacagatccagagcttatggataaaccttcttttatggattatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagaaacatttcaacactggtataaagatgagaagttcagtactaaagtgaaagatgaatatatatttccaagctttgctttggttaataaagcttcacgactggcagtgaatcactctattggcgcctctcaccctgtgcagctcaccccatacaatcccgacgttcttgatgcatcaatcttatggacagagagcagggatgtgggtgatggttatcgagcagttgggatgggcaataacattaacctcaatctagatgcatggaatgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7802" stop="11696"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="8081" g_stop="8243" g_length="163"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="164" r_length="164" r_score="0.933"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.998" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="8321" g_stop="8443" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="165" r_stop="287" r_length="123" r_score="0.943"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="8444" i_stop="11261" i_length="2818">
            <donor d_prob="0.996" d_score="0.96"/>
            <acceptor a_prob="0.709" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11262" g_stop="11396" g_length="135"/>
          <reference_exon_boundary r_type="cDNA" r_start="288" r_stop="422" r_length="135" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E307386" ref_strand="+">
        <total_alignment_score>0.952</total_alignment_score>
        <cumulative_length_of_scored_exons>421</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E307386" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="8081" e_stop="8243"/>
          <exon e_start="8321" e_stop="8443"/>
          <exon e_start="11262" e_stop="11396"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAACCTCATGTGCCTACAG-CCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCTGTATGTTCAATTCTTGGTTAACCATAAGCTCTGAAAAATATTATTTGGTTTGATTATTTGTGCTGCATAGTTTGATGATATCCCTCAATGATGCCTATATAATGTTAAACTTCACAAAGCAATGAACTTTGATAGCCAACCCATTGCTTTGTCATAAACAGGATATTAGAGATTTCTGCCTAATGCAAATGCTATGACTTATAATGTTTTGGGGTGTTTCAAGTAGTACCATGGTAGAGATGGAGGGCTTAATGGTGGAGTTGTAGTGGAAATGTGGTACCGTAAGTTTGTGAGACGGAAAAATAGTCAGTGTCCAGTCAATTATTTGTGTCCTGTATTGTGTAACATATCAAACTGTGCCTAATACTTCCATTTTTAGCTCCTAGGTCTATCCCTCGAGTGTTTAGTGGTATCCACTTTTGTATGAGATTTCCACTGTATCTGTGTATGCTTCAATATTCTCTATTTTTCTTTTGTGATTGTTCGACAGCTTTTACTGCCGGAGATTTCTACCTAATGCAAATACTCTGACTTGCAAATGATGCATGCTGGGAATTTTTCACATTTGGCTAAAAAAAAAGGAAAATAAATCTTTTGCAATTTAATGTTGAGTATGAAGGGTCTTTTTAATCATTTGAGAGCTCAGTGTGAGCTTTTTAGAAGAAAAAACATTCAAGTATGGATTGTTTGGACATTATGGAGGGAGAGAAACCTTAGACATTTTGAGGGGAAGTGTAATTGAATATATAAACGGAAGGGTTCGTGTTTGGTGGTGAGACTCGAATTCAGGATCTTGCTTTCTCCGATAGACTGATACCCTGTTGAATTGTGTAATCATTTGTTTGAGCTATTAGAGAGAGCACACTGTCATTTACTTAATTATGCTGAGATCTAGAACTTGCACTTGTAGTTGACAGATAAAGATCATAAGCTATAAATTAAACAACTATCGGTATGCCTATGTTATTAATTAATATTTACTCTTTAAAGAGGAAAGATAAGAAGATACTGTTGATTATGTGTGCATTACTTTTATCTGAAGGAAGAGGTGGAGAAAAGGAAATGGCTTTATTGCCTATATAGTTTTTGATATCTTTATAATATGTGCTCCAACACAAAGGAGACTGTTCTTGTAAGAATCCAATTCCCTCTTTTAGCAAGAGATCTAACTTATGCTTCATTTTGTTGGGGTGTGAATAACTCATTGGACCCAGATTACTGCCCCCCTTTAGATAGGGAAGGCCAGCCTTATAAAAAAAGATGGGTGATGGTAGATGTGCAGCTGATTCTGGGCTTAATTTTAGCAACTTGGGGTTAAAGTTGAGATATTTATCAGATGTGGTTGTTGTATAATTGGTAGTAGCTGGAACATGGTTTTAAGAGCGGTGTAGAAGAAAAAAACAAATGCATTTTTAATTAGTTGATATTTAAATGATTTAGACCTCCATTAAGTCGAATAAAACAGGGCCTTAGTTGGTCCTGGATATCATACTGAACTTAAATGTATCTTTGTGCCATCTAGTTCTAGACTGATGATCAAGACAACTTGCAAATTGCCAAACAAAGCCGTGATTCTCTGCACAACCAATGGTAGCTTATTGGTTAAGAAGATTTTTAGCACTTGTTTGTACACCCTGGTCACTTGAATTTGGCTTTAAGGAGGCACCATTATTTTGTTCATTCTTTTTTTTTCTTGCAGAAGCGATGAGTATCATCCTTTATGTTAGGATTAGGAAGATTAATGCATAATATAATTTCTTGTGCCTGATACGAATTGACCTGGAAGATGCAAAGGAATCAAACATTCAAACCCCAAAAGAAGGAGCAATAGCACCTTCTTGATAGAACAGGAAAATGATTATTTCTCTTTTTTTTTTAAAGCCTCCTTTATACTAGACTGAGATTTTATCCATTTGTAGATACGAACCGACCCGGAAGATGCTGTAATCTCTATTGTTTATAGTATTACAGAACTAACCACTGCACAATGAGACTATGTCTACGATGCAATGTAGGATCTCTTTCAAGTCCTCTACTTGACTCTCCACTTTAGCCTATTGTGAGCCTTCATATCCTCTTGCCAAGATCTTCTAAGGTTCATACGCTTCCATGTGTTAAGTGGCCATCTCAGAATGTATCATCCCCTGAAGAAAATTTGTCCCTGAACTTGTACCTTGAAACACGAAGAGTGTATGTATGAATAACCTGTCTTTTAAAATCAAGATTTGAAATGGTATAAATAAAACAAGATAGTGTCCATATACTTTCTTAACCCAACTTGCATACACTTTCTTATGCAAATTGGTTTTACAGGAGTATTTATGTCTTTTTTTTTCTATATAAAAAAAGAAGATGTGAGACTCCTAAAATAAGCACAAAATGCAACTTGCCTGGGCTAATGGGTTAAGTTCTGTAGGAACGAGAAAAGGGAAAATTGTAACCATGTTAAGCTTGAGTTTTTTGCAATTGCAGAAAACCTTCATAGTTGATGGAAATTGGTGAAACATGGGCATTGGTGGCTCGAGTTTTTTGCAAGGAGTATTGGCATCTTAAACCTTGTTCTTTGTGATAGGAATTGCTATTGCCTACAAATGGCATACACATGCACATGCTATATGCAACTTCAAGTCTTGAACTAAATATTTGCCTTCCTTGCCTCCATGCACCTTTGTTTGCTGCAAATGCATGAAAATAGATTTTACTATGCCCCAAGGGTAATGAACTCTGTTGTTCAGGGGTCCTGTCTTACTAATATTACATGGCTTCTCATGGGGAAGGAAGCATAGAAAGTTACATTTCCATTGAACTTCTTTTACAGGTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCT</genome_strand>
        <mrna_strand>CCAACCTCATGTGCCTACAGTTCTTCCATCATTTAACTACAGATCCAGAGCTTATGGATAAACCTTCTTTTATGGATTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGAAACATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAAGATGAATATATATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCACGACTGGCAGTGAATCACTCTATTGGCGCCTCTCACCCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTGGGATGGGCAATAACATTAACCTCAATCTAGATGCATGGAATGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E347292" ref_strand="+" ref_description="SGN-E347292 [cTOF-33-A11]">
      <seq>agccttccatcatcaaacttcagatccagagcttatggataaaccttcttttagggtttactactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactaaagtgaaggatgaagagggatttccaagctttgctttggttaataaagcttcaggactggcagtgaagcactctattggcgcctctcaccctgtgcagctcaccccatacaatcccgacgttcttgatgcatcaatcttatggacagagagcagggatgtgggtgatggttatcgagcagttaggatggtcaataacattaacctcaatctagatgcatggaatgctgataaagagcatggaggtgtccgcgatgggaccactgtttgtctttgggaatggtggaaaggagacaacaggaaccaacactggaagatcgttcgcttctgatatgttggcttgtgaatcatggctggaattgggttgatgcgtggtatttttctttcatcatgtggcttgttacctatgttgtactgtattggatgtccctccaaacagtaagaagaacattaaaataagaggggaaatgctatgtatattggggagatgtttgctacagcatgtctgttcaact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7799" stop="12865"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="8099" g_stop="8243" g_length="145"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="146" r_length="146" r_score="0.986"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <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="8321" g_stop="8443" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="147" r_stop="269" r_length="123" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="8444" i_stop="11261" i_length="2818">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.709" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11262" g_stop="11496" g_length="235"/>
          <reference_exon_boundary r_type="cDNA" r_start="270" r_stop="504" r_length="235" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="11497" i_stop="12377" i_length="881">
            <donor d_prob="0.938" 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="12378" g_stop="12565" g_length="188"/>
          <reference_exon_boundary r_type="cDNA" r_start="505" r_stop="690" r_length="186" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E347292" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>691</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E347292" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="8099" e_stop="8243"/>
          <exon e_start="8321" e_stop="8443"/>
          <exon e_start="11262" e_stop="11496"/>
          <exon e_start="12378" e_stop="12565"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTA-TACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCTGTATGTTCAATTCTTGGTTAACCATAAGCTCTGAAAAATATTATTTGGTTTGATTATTTGTGCTGCATAGTTTGATGATATCCCTCAATGATGCCTATATAATGTTAAACTTCACAAAGCAATGAACTTTGATAGCCAACCCATTGCTTTGTCATAAACAGGATATTAGAGATTTCTGCCTAATGCAAATGCTATGACTTATAATGTTTTGGGGTGTTTCAAGTAGTACCATGGTAGAGATGGAGGGCTTAATGGTGGAGTTGTAGTGGAAATGTGGTACCGTAAGTTTGTGAGACGGAAAAATAGTCAGTGTCCAGTCAATTATTTGTGTCCTGTATTGTGTAACATATCAAACTGTGCCTAATACTTCCATTTTTAGCTCCTAGGTCTATCCCTCGAGTGTTTAGTGGTATCCACTTTTGTATGAGATTTCCACTGTATCTGTGTATGCTTCAATATTCTCTATTTTTCTTTTGTGATTGTTCGACAGCTTTTACTGCCGGAGATTTCTACCTAATGCAAATACTCTGACTTGCAAATGATGCATGCTGGGAATTTTTCACATTTGGCTAAAAAAAAAGGAAAATAAATCTTTTGCAATTTAATGTTGAGTATGAAGGGTCTTTTTAATCATTTGAGAGCTCAGTGTGAGCTTTTTAGAAGAAAAAACATTCAAGTATGGATTGTTTGGACATTATGGAGGGAGAGAAACCTTAGACATTTTGAGGGGAAGTGTAATTGAATATATAAACGGAAGGGTTCGTGTTTGGTGGTGAGACTCGAATTCAGGATCTTGCTTTCTCCGATAGACTGATACCCTGTTGAATTGTGTAATCATTTGTTTGAGCTATTAGAGAGAGCACACTGTCATTTACTTAATTATGCTGAGATCTAGAACTTGCACTTGTAGTTGACAGATAAAGATCATAAGCTATAAATTAAACAACTATCGGTATGCCTATGTTATTAATTAATATTTACTCTTTAAAGAGGAAAGATAAGAAGATACTGTTGATTATGTGTGCATTACTTTTATCTGAAGGAAGAGGTGGAGAAAAGGAAATGGCTTTATTGCCTATATAGTTTTTGATATCTTTATAATATGTGCTCCAACACAAAGGAGACTGTTCTTGTAAGAATCCAATTCCCTCTTTTAGCAAGAGATCTAACTTATGCTTCATTTTGTTGGGGTGTGAATAACTCATTGGACCCAGATTACTGCCCCCCTTTAGATAGGGAAGGCCAGCCTTATAAAAAAAGATGGGTGATGGTAGATGTGCAGCTGATTCTGGGCTTAATTTTAGCAACTTGGGGTTAAAGTTGAGATATTTATCAGATGTGGTTGTTGTATAATTGGTAGTAGCTGGAACATGGTTTTAAGAGCGGTGTAGAAGAAAAAAACAAATGCATTTTTAATTAGTTGATATTTAAATGATTTAGACCTCCATTAAGTCGAATAAAACAGGGCCTTAGTTGGTCCTGGATATCATACTGAACTTAAATGTATCTTTGTGCCATCTAGTTCTAGACTGATGATCAAGACAACTTGCAAATTGCCAAACAAAGCCGTGATTCTCTGCACAACCAATGGTAGCTTATTGGTTAAGAAGATTTTTAGCACTTGTTTGTACACCCTGGTCACTTGAATTTGGCTTTAAGGAGGCACCATTATTTTGTTCATTCTTTTTTTTTCTTGCAGAAGCGATGAGTATCATCCTTTATGTTAGGATTAGGAAGATTAATGCATAATATAATTTCTTGTGCCTGATACGAATTGACCTGGAAGATGCAAAGGAATCAAACATTCAAACCCCAAAAGAAGGAGCAATAGCACCTTCTTGATAGAACAGGAAAATGATTATTTCTCTTTTTTTTTTAAAGCCTCCTTTATACTAGACTGAGATTTTATCCATTTGTAGATACGAACCGACCCGGAAGATGCTGTAATCTCTATTGTTTATAGTATTACAGAACTAACCACTGCACAATGAGACTATGTCTACGATGCAATGTAGGATCTCTTTCAAGTCCTCTACTTGACTCTCCACTTTAGCCTATTGTGAGCCTTCATATCCTCTTGCCAAGATCTTCTAAGGTTCATACGCTTCCATGTGTTAAGTGGCCATCTCAGAATGTATCATCCCCTGAAGAAAATTTGTCCCTGAACTTGTACCTTGAAACACGAAGAGTGTATGTATGAATAACCTGTCTTTTAAAATCAAGATTTGAAATGGTATAAATAAAACAAGATAGTGTCCATATACTTTCTTAACCCAACTTGCATACACTTTCTTATGCAAATTGGTTTTACAGGAGTATTTATGTCTTTTTTTTTCTATATAAAAAAAGAAGATGTGAGACTCCTAAAATAAGCACAAAATGCAACTTGCCTGGGCTAATGGGTTAAGTTCTGTAGGAACGAGAAAAGGGAAAATTGTAACCATGTTAAGCTTGAGTTTTTTGCAATTGCAGAAAACCTTCATAGTTGATGGAAATTGGTGAAACATGGGCATTGGTGGCTCGAGTTTTTTGCAAGGAGTATTGGCATCTTAAACCTTGTTCTTTGTGATAGGAATTGCTATTGCCTACAAATGGCATACACATGCACATGCTATATGCAACTTCAAGTCTTGAACTAAATATTTGCCTTCCTTGCCTCCATGCACCTTTGTTTGCTGCAAATGCATGAAAATAGATTTTACTATGCCCCAAGGGTAATGAACTCTGTTGTTCAGGGGTCCTGTCTTACTAATATTACATGGCTTCTCATGGGGAAGGAAGCATAGAAAGTTACATTTCCATTGAACTTCTTTTACAGGTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTGATAAAGAGCATGGAGGTGTCCGCGATGGGACCACTGTTTGTCTTTGGGAATGGTGGAAAGGAGACAACAGGAACCAACACTGGAAGATCGTTCGCTTCTGTAAGTTTTGCGACTTTGCAGTGCAAAAATAATTGTTTTGCTTGGTACCCCTAAAACCTACACTCCCCCCCCCCCCACCCCTCCATGTTGTTGGATATGAAATCATTTTTTCACGAAAATTACCTGTATTTAGTAGTGTTAGGTTGCTTAAAATAGCTGAGAACACGCCCCGTTAAGCGTTTAGACATTTAGCATAAAATTTCTGCACTCCTATTGTTTTTGACACTTTTTCCATCAAGATAGATGTCCCTCATAGAATTTGTTACTCAGTTACCTAGTGGTTAAGTGCCGATCCAATTTTTGGTTGATGATCTATGTGTTACCAAAGTATATTTTAGGCTTAATACATGGCCACCTCTTAACTTGCCAACAAATTTCATTTAGACACTCAAATTAAGGCTTGTTCCGATTGAGTACTCAAACACGTGATAAAGCGTTTCTATTAGACACTTTCAGTTCAAATTATGGCAAAAACTTTCCCAAACATTCCTTATGTATCAAGTAGATAAGTTAAACACTTAAAATGTCACCTTCTTTGATAATATGCATTTGTCTCAATAAGCCCTCAAACTTCACCCCTACGGCAATTGAGGCTGTTGTGTATCCTTAAATCTATCTTCTATCAATGCTTGAAACAATTTGTCTTCTCCTCCATATTACTGTATCTCTAGAGTTGACAAACGCTTCAAAACAAGCACAATTTTATTTTCCTACAAAATTGATCCTAAAGTGCTAATAGGAACACTTTATTACAGGTTTTCAATTGGAACAAGTTTTAGTTTGAGTATCTAAATGTAATTTGCTGACAACTTCAAGGGTTGTTGATGTATTTCCAAGCATCTGTAATAATTAGTTTTTCATCTAAACTAATTTCTTTGCAGGATATGTTGGCTTGTGAATCATGGCTGGAATTGGGTTGATGCGTGGTATTTTTCTTTCATCATGTGGCTTGTTACCTATGTTGTACTGTATTGTATGTCCCTCCAAAACAGTAAGAAGTAACATTAAAATAAGAGGGGAAATGCTATGTATATTGTGGAGATGTTGGCTACAGCATGTCTGTTCAACT</genome_strand>
        <mrna_strand>AGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTACTACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTGATAAAGAGCATGGAGGTGTCCGCGATGGGACCACTGTTTGTCTTTGGGAATGGTGGAAAGGAGACAACAGGAACCAACACTGGAAGATCGTTCGCTTCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATATGTTGGCTTGTGAATCATGGCTGGAATTGGGTTGATGCGTGGTATTTTTCTTTCATCATGTGGCTTGTTACCTATGTTGTACTGTATTGGATGTCCCTCC-AAACAGTAAGAAG-AACATTAAAATAAGAGGGGAAATGCTATGTATATTGGGGAGATGTTTGCTACAGCATGTCTGTTCAACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E538850" ref_strand="+" ref_description="SGN-E538850 [TUS-58-E23](-)">
      <seq>tatggataaaccttcttttagggtttatactaaggctgatactaattactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactaaagtgaaggatgaagagggatttccaagctttgctttggttaataaagcttcaggactggcagtgaagcactctattggcgcctctcaccctgtgcagctcaccccatacaatcccgacgttcttgatgcatcaatcttatggacagagagcagggatgtgggtgatggttatcgagcagttaggatggtcaataacattaacctcaatctagatgcatggaatgctgataaagagcatggaggtgtccgcgatgggaccactgtttgtctttgggaatggtggaaaggagacaacaggaaccaacactggaagatcgttcgcttctgatatgttggcttgtgaatcatggctggaattgggttgatgcgtggtatttttctttcatcatgtggcttgttacctatgttgtactgtattgtatgtccctccaaaacagtaagaagtaacattaaaataagaggggaaatgctatgtatattgtggagatgttggctacagcatgtctgttcaacttatatttataaaagcttgtttgatgaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7832" stop="12891"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="8132" g_stop="8243" g_length="112"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="112" r_length="112" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <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="8321" g_stop="8443" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="113" r_stop="235" r_length="123" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="8444" i_stop="11261" i_length="2818">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.709" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11262" g_stop="11496" g_length="235"/>
          <reference_exon_boundary r_type="cDNA" r_start="236" r_stop="470" r_length="235" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="11497" i_stop="12377" i_length="881">
            <donor d_prob="0.938" 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="12378" g_stop="12591" g_length="214"/>
          <reference_exon_boundary r_type="cDNA" r_start="471" r_stop="684" r_length="214" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="685" polyA_stop="706"/>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E538850" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>684</cumulative_length_of_scored_exons>
        <coverage percentage="0.969" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E538850" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="8132" e_stop="8243"/>
          <exon e_start="8321" e_stop="8443"/>
          <exon e_start="11262" e_stop="11496"/>
          <exon e_start="12378" e_stop="12591"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCTGTATGTTCAATTCTTGGTTAACCATAAGCTCTGAAAAATATTATTTGGTTTGATTATTTGTGCTGCATAGTTTGATGATATCCCTCAATGATGCCTATATAATGTTAAACTTCACAAAGCAATGAACTTTGATAGCCAACCCATTGCTTTGTCATAAACAGGATATTAGAGATTTCTGCCTAATGCAAATGCTATGACTTATAATGTTTTGGGGTGTTTCAAGTAGTACCATGGTAGAGATGGAGGGCTTAATGGTGGAGTTGTAGTGGAAATGTGGTACCGTAAGTTTGTGAGACGGAAAAATAGTCAGTGTCCAGTCAATTATTTGTGTCCTGTATTGTGTAACATATCAAACTGTGCCTAATACTTCCATTTTTAGCTCCTAGGTCTATCCCTCGAGTGTTTAGTGGTATCCACTTTTGTATGAGATTTCCACTGTATCTGTGTATGCTTCAATATTCTCTATTTTTCTTTTGTGATTGTTCGACAGCTTTTACTGCCGGAGATTTCTACCTAATGCAAATACTCTGACTTGCAAATGATGCATGCTGGGAATTTTTCACATTTGGCTAAAAAAAAAGGAAAATAAATCTTTTGCAATTTAATGTTGAGTATGAAGGGTCTTTTTAATCATTTGAGAGCTCAGTGTGAGCTTTTTAGAAGAAAAAACATTCAAGTATGGATTGTTTGGACATTATGGAGGGAGAGAAACCTTAGACATTTTGAGGGGAAGTGTAATTGAATATATAAACGGAAGGGTTCGTGTTTGGTGGTGAGACTCGAATTCAGGATCTTGCTTTCTCCGATAGACTGATACCCTGTTGAATTGTGTAATCATTTGTTTGAGCTATTAGAGAGAGCACACTGTCATTTACTTAATTATGCTGAGATCTAGAACTTGCACTTGTAGTTGACAGATAAAGATCATAAGCTATAAATTAAACAACTATCGGTATGCCTATGTTATTAATTAATATTTACTCTTTAAAGAGGAAAGATAAGAAGATACTGTTGATTATGTGTGCATTACTTTTATCTGAAGGAAGAGGTGGAGAAAAGGAAATGGCTTTATTGCCTATATAGTTTTTGATATCTTTATAATATGTGCTCCAACACAAAGGAGACTGTTCTTGTAAGAATCCAATTCCCTCTTTTAGCAAGAGATCTAACTTATGCTTCATTTTGTTGGGGTGTGAATAACTCATTGGACCCAGATTACTGCCCCCCTTTAGATAGGGAAGGCCAGCCTTATAAAAAAAGATGGGTGATGGTAGATGTGCAGCTGATTCTGGGCTTAATTTTAGCAACTTGGGGTTAAAGTTGAGATATTTATCAGATGTGGTTGTTGTATAATTGGTAGTAGCTGGAACATGGTTTTAAGAGCGGTGTAGAAGAAAAAAACAAATGCATTTTTAATTAGTTGATATTTAAATGATTTAGACCTCCATTAAGTCGAATAAAACAGGGCCTTAGTTGGTCCTGGATATCATACTGAACTTAAATGTATCTTTGTGCCATCTAGTTCTAGACTGATGATCAAGACAACTTGCAAATTGCCAAACAAAGCCGTGATTCTCTGCACAACCAATGGTAGCTTATTGGTTAAGAAGATTTTTAGCACTTGTTTGTACACCCTGGTCACTTGAATTTGGCTTTAAGGAGGCACCATTATTTTGTTCATTCTTTTTTTTTCTTGCAGAAGCGATGAGTATCATCCTTTATGTTAGGATTAGGAAGATTAATGCATAATATAATTTCTTGTGCCTGATACGAATTGACCTGGAAGATGCAAAGGAATCAAACATTCAAACCCCAAAAGAAGGAGCAATAGCACCTTCTTGATAGAACAGGAAAATGATTATTTCTCTTTTTTTTTTAAAGCCTCCTTTATACTAGACTGAGATTTTATCCATTTGTAGATACGAACCGACCCGGAAGATGCTGTAATCTCTATTGTTTATAGTATTACAGAACTAACCACTGCACAATGAGACTATGTCTACGATGCAATGTAGGATCTCTTTCAAGTCCTCTACTTGACTCTCCACTTTAGCCTATTGTGAGCCTTCATATCCTCTTGCCAAGATCTTCTAAGGTTCATACGCTTCCATGTGTTAAGTGGCCATCTCAGAATGTATCATCCCCTGAAGAAAATTTGTCCCTGAACTTGTACCTTGAAACACGAAGAGTGTATGTATGAATAACCTGTCTTTTAAAATCAAGATTTGAAATGGTATAAATAAAACAAGATAGTGTCCATATACTTTCTTAACCCAACTTGCATACACTTTCTTATGCAAATTGGTTTTACAGGAGTATTTATGTCTTTTTTTTTCTATATAAAAAAAGAAGATGTGAGACTCCTAAAATAAGCACAAAATGCAACTTGCCTGGGCTAATGGGTTAAGTTCTGTAGGAACGAGAAAAGGGAAAATTGTAACCATGTTAAGCTTGAGTTTTTTGCAATTGCAGAAAACCTTCATAGTTGATGGAAATTGGTGAAACATGGGCATTGGTGGCTCGAGTTTTTTGCAAGGAGTATTGGCATCTTAAACCTTGTTCTTTGTGATAGGAATTGCTATTGCCTACAAATGGCATACACATGCACATGCTATATGCAACTTCAAGTCTTGAACTAAATATTTGCCTTCCTTGCCTCCATGCACCTTTGTTTGCTGCAAATGCATGAAAATAGATTTTACTATGCCCCAAGGGTAATGAACTCTGTTGTTCAGGGGTCCTGTCTTACTAATATTACATGGCTTCTCATGGGGAAGGAAGCATAGAAAGTTACATTTCCATTGAACTTCTTTTACAGGTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTGATAAAGAGCATGGAGGTGTCCGCGATGGGACCACTGTTTGTCTTTGGGAATGGTGGAAAGGAGACAACAGGAACCAACACTGGAAGATCGTTCGCTTCTGTAAGTTTTGCGACTTTGCAGTGCAAAAATAATTGTTTTGCTTGGTACCCCTAAAACCTACACTCCCCCCCCCCCCACCCCTCCATGTTGTTGGATATGAAATCATTTTTTCACGAAAATTACCTGTATTTAGTAGTGTTAGGTTGCTTAAAATAGCTGAGAACACGCCCCGTTAAGCGTTTAGACATTTAGCATAAAATTTCTGCACTCCTATTGTTTTTGACACTTTTTCCATCAAGATAGATGTCCCTCATAGAATTTGTTACTCAGTTACCTAGTGGTTAAGTGCCGATCCAATTTTTGGTTGATGATCTATGTGTTACCAAAGTATATTTTAGGCTTAATACATGGCCACCTCTTAACTTGCCAACAAATTTCATTTAGACACTCAAATTAAGGCTTGTTCCGATTGAGTACTCAAACACGTGATAAAGCGTTTCTATTAGACACTTTCAGTTCAAATTATGGCAAAAACTTTCCCAAACATTCCTTATGTATCAAGTAGATAAGTTAAACACTTAAAATGTCACCTTCTTTGATAATATGCATTTGTCTCAATAAGCCCTCAAACTTCACCCCTACGGCAATTGAGGCTGTTGTGTATCCTTAAATCTATCTTCTATCAATGCTTGAAACAATTTGTCTTCTCCTCCATATTACTGTATCTCTAGAGTTGACAAACGCTTCAAAACAAGCACAATTTTATTTTCCTACAAAATTGATCCTAAAGTGCTAATAGGAACACTTTATTACAGGTTTTCAATTGGAACAAGTTTTAGTTTGAGTATCTAAATGTAATTTGCTGACAACTTCAAGGGTTGTTGATGTATTTCCAAGCATCTGTAATAATTAGTTTTTCATCTAAACTAATTTCTTTGCAGGATATGTTGGCTTGTGAATCATGGCTGGAATTGGGTTGATGCGTGGTATTTTTCTTTCATCATGTGGCTTGTTACCTATGTTGTACTGTATTGTATGTCCCTCCAAAACAGTAAGAAGTAACATTAAAATAAGAGGGGAAATGCTATGTATATTGTGGAGATGTTGGCTACAGCATGTCTGTTCAACTTATATTTATAAAAGCTTGTTTGATGA</genome_strand>
        <mrna_strand>TATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTGATAAAGAGCATGGAGGTGTCCGCGATGGGACCACTGTTTGTCTTTGGGAATGGTGGAAAGGAGACAACAGGAACCAACACTGGAAGATCGTTCGCTTCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATATGTTGGCTTGTGAATCATGGCTGGAATTGGGTTGATGCGTGGTATTTTTCTTTCATCATGTGGCTTGTTACCTATGTTGTACTGTATTGTATGTCCCTCCAAAACAGTAAGAAGTAACATTAAAATAAGAGGGGAAATGCTATGTATATTGTGGAGATGTTGGCTACAGCATGTCTGTTCAACTTATATTTATAAAAGCTTGTTTGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E715344" ref_strand="+" ref_description="SGN-E715344 [FB14AA11]">
      <seq>ctatttactctctcaccatccgtgacggaaaagttgttcttgcttctaatgatccatcagatccatttcaacactggtataaagatgagaagttcagtactaaagtgaaggatgaagagggatttccaagctttgctttggttaataaagcttcaggactggcagtgaagcactctattggcgcctctcaccctgtgcagctcaccccatacaatcccgacgttcttgatgcatcaatcttatggacagagagcagggatgtgggtgatggttatcgagcagttaggatggtcaataacattaacctcaatctagatgcatggaatgctgataaagagcatggaggtgtccgcgatgggaccactgtttgtctttgggaatggtggaaaggagacaacaggaaccaacactggaagatcgttcgcttctgatatgttggcttgtgaatcatggctggaattgggttgatgcgtggtatttttctttcatcatgtggcttgttacctatgttgtactgtattgtatgtccctccaaaacagtaagaagtaacattaaaataagaggggaaatgctatgtatattgtggagatgttggctacagcatgtctgttcaacttatatttataaaagcttgtttgatgagttgtgttgttgaatgtaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="7873" stop="12909"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="8173" g_stop="8243" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="71" r_length="71" r_score="0.986"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77">
            <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="8321" g_stop="8443" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="72" r_stop="194" r_length="123" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="8444" i_stop="11261" i_length="2818">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.709" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11262" g_stop="11496" g_length="235"/>
          <reference_exon_boundary r_type="cDNA" r_start="195" r_stop="429" r_length="235" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="11497" i_stop="12377" i_length="881">
            <donor d_prob="0.938" 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="12378" g_stop="12608" g_length="231"/>
          <reference_exon_boundary r_type="cDNA" r_start="430" r_stop="660" r_length="231" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="661" polyA_stop="671"/>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E715344" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>660</cumulative_length_of_scored_exons>
        <coverage percentage="0.984" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E715344" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="8173" e_stop="8243"/>
          <exon e_start="8321" e_stop="8443"/>
          <exon e_start="11262" e_stop="11496"/>
          <exon e_start="12378" e_stop="12608"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAAGTAGGTTTTTTTTTCTTTTTTTTTTTAAATTTTGTTGTTAACTGTGAATTTGTTGTAATGGATGGAATTTTCTACAGCACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCTGTATGTTCAATTCTTGGTTAACCATAAGCTCTGAAAAATATTATTTGGTTTGATTATTTGTGCTGCATAGTTTGATGATATCCCTCAATGATGCCTATATAATGTTAAACTTCACAAAGCAATGAACTTTGATAGCCAACCCATTGCTTTGTCATAAACAGGATATTAGAGATTTCTGCCTAATGCAAATGCTATGACTTATAATGTTTTGGGGTGTTTCAAGTAGTACCATGGTAGAGATGGAGGGCTTAATGGTGGAGTTGTAGTGGAAATGTGGTACCGTAAGTTTGTGAGACGGAAAAATAGTCAGTGTCCAGTCAATTATTTGTGTCCTGTATTGTGTAACATATCAAACTGTGCCTAATACTTCCATTTTTAGCTCCTAGGTCTATCCCTCGAGTGTTTAGTGGTATCCACTTTTGTATGAGATTTCCACTGTATCTGTGTATGCTTCAATATTCTCTATTTTTCTTTTGTGATTGTTCGACAGCTTTTACTGCCGGAGATTTCTACCTAATGCAAATACTCTGACTTGCAAATGATGCATGCTGGGAATTTTTCACATTTGGCTAAAAAAAAAGGAAAATAAATCTTTTGCAATTTAATGTTGAGTATGAAGGGTCTTTTTAATCATTTGAGAGCTCAGTGTGAGCTTTTTAGAAGAAAAAACATTCAAGTATGGATTGTTTGGACATTATGGAGGGAGAGAAACCTTAGACATTTTGAGGGGAAGTGTAATTGAATATATAAACGGAAGGGTTCGTGTTTGGTGGTGAGACTCGAATTCAGGATCTTGCTTTCTCCGATAGACTGATACCCTGTTGAATTGTGTAATCATTTGTTTGAGCTATTAGAGAGAGCACACTGTCATTTACTTAATTATGCTGAGATCTAGAACTTGCACTTGTAGTTGACAGATAAAGATCATAAGCTATAAATTAAACAACTATCGGTATGCCTATGTTATTAATTAATATTTACTCTTTAAAGAGGAAAGATAAGAAGATACTGTTGATTATGTGTGCATTACTTTTATCTGAAGGAAGAGGTGGAGAAAAGGAAATGGCTTTATTGCCTATATAGTTTTTGATATCTTTATAATATGTGCTCCAACACAAAGGAGACTGTTCTTGTAAGAATCCAATTCCCTCTTTTAGCAAGAGATCTAACTTATGCTTCATTTTGTTGGGGTGTGAATAACTCATTGGACCCAGATTACTGCCCCCCTTTAGATAGGGAAGGCCAGCCTTATAAAAAAAGATGGGTGATGGTAGATGTGCAGCTGATTCTGGGCTTAATTTTAGCAACTTGGGGTTAAAGTTGAGATATTTATCAGATGTGGTTGTTGTATAATTGGTAGTAGCTGGAACATGGTTTTAAGAGCGGTGTAGAAGAAAAAAACAAATGCATTTTTAATTAGTTGATATTTAAATGATTTAGACCTCCATTAAGTCGAATAAAACAGGGCCTTAGTTGGTCCTGGATATCATACTGAACTTAAATGTATCTTTGTGCCATCTAGTTCTAGACTGATGATCAAGACAACTTGCAAATTGCCAAACAAAGCCGTGATTCTCTGCACAACCAATGGTAGCTTATTGGTTAAGAAGATTTTTAGCACTTGTTTGTACACCCTGGTCACTTGAATTTGGCTTTAAGGAGGCACCATTATTTTGTTCATTCTTTTTTTTTCTTGCAGAAGCGATGAGTATCATCCTTTATGTTAGGATTAGGAAGATTAATGCATAATATAATTTCTTGTGCCTGATACGAATTGACCTGGAAGATGCAAAGGAATCAAACATTCAAACCCCAAAAGAAGGAGCAATAGCACCTTCTTGATAGAACAGGAAAATGATTATTTCTCTTTTTTTTTTAAAGCCTCCTTTATACTAGACTGAGATTTTATCCATTTGTAGATACGAACCGACCCGGAAGATGCTGTAATCTCTATTGTTTATAGTATTACAGAACTAACCACTGCACAATGAGACTATGTCTACGATGCAATGTAGGATCTCTTTCAAGTCCTCTACTTGACTCTCCACTTTAGCCTATTGTGAGCCTTCATATCCTCTTGCCAAGATCTTCTAAGGTTCATACGCTTCCATGTGTTAAGTGGCCATCTCAGAATGTATCATCCCCTGAAGAAAATTTGTCCCTGAACTTGTACCTTGAAACACGAAGAGTGTATGTATGAATAACCTGTCTTTTAAAATCAAGATTTGAAATGGTATAAATAAAACAAGATAGTGTCCATATACTTTCTTAACCCAACTTGCATACACTTTCTTATGCAAATTGGTTTTACAGGAGTATTTATGTCTTTTTTTTTCTATATAAAAAAAGAAGATGTGAGACTCCTAAAATAAGCACAAAATGCAACTTGCCTGGGCTAATGGGTTAAGTTCTGTAGGAACGAGAAAAGGGAAAATTGTAACCATGTTAAGCTTGAGTTTTTTGCAATTGCAGAAAACCTTCATAGTTGATGGAAATTGGTGAAACATGGGCATTGGTGGCTCGAGTTTTTTGCAAGGAGTATTGGCATCTTAAACCTTGTTCTTTGTGATAGGAATTGCTATTGCCTACAAATGGCATACACATGCACATGCTATATGCAACTTCAAGTCTTGAACTAAATATTTGCCTTCCTTGCCTCCATGCACCTTTGTTTGCTGCAAATGCATGAAAATAGATTTTACTATGCCCCAAGGGTAATGAACTCTGTTGTTCAGGGGTCCTGTCTTACTAATATTACATGGCTTCTCATGGGGAAGGAAGCATAGAAAGTTACATTTCCATTGAACTTCTTTTACAGGTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTGATAAAGAGCATGGAGGTGTCCGCGATGGGACCACTGTTTGTCTTTGGGAATGGTGGAAAGGAGACAACAGGAACCAACACTGGAAGATCGTTCGCTTCTGTAAGTTTTGCGACTTTGCAGTGCAAAAATAATTGTTTTGCTTGGTACCCCTAAAACCTACACTCCCCCCCCCCCCACCCCTCCATGTTGTTGGATATGAAATCATTTTTTCACGAAAATTACCTGTATTTAGTAGTGTTAGGTTGCTTAAAATAGCTGAGAACACGCCCCGTTAAGCGTTTAGACATTTAGCATAAAATTTCTGCACTCCTATTGTTTTTGACACTTTTTCCATCAAGATAGATGTCCCTCATAGAATTTGTTACTCAGTTACCTAGTGGTTAAGTGCCGATCCAATTTTTGGTTGATGATCTATGTGTTACCAAAGTATATTTTAGGCTTAATACATGGCCACCTCTTAACTTGCCAACAAATTTCATTTAGACACTCAAATTAAGGCTTGTTCCGATTGAGTACTCAAACACGTGATAAAGCGTTTCTATTAGACACTTTCAGTTCAAATTATGGCAAAAACTTTCCCAAACATTCCTTATGTATCAAGTAGATAAGTTAAACACTTAAAATGTCACCTTCTTTGATAATATGCATTTGTCTCAATAAGCCCTCAAACTTCACCCCTACGGCAATTGAGGCTGTTGTGTATCCTTAAATCTATCTTCTATCAATGCTTGAAACAATTTGTCTTCTCCTCCATATTACTGTATCTCTAGAGTTGACAAACGCTTCAAAACAAGCACAATTTTATTTTCCTACAAAATTGATCCTAAAGTGCTAATAGGAACACTTTATTACAGGTTTTCAATTGGAACAAGTTTTAGTTTGAGTATCTAAATGTAATTTGCTGACAACTTCAAGGGTTGTTGATGTATTTCCAAGCATCTGTAATAATTAGTTTTTCATCTAAACTAATTTCTTTGCAGGATATGTTGGCTTGTGAATCATGGCTGGAATTGGGTTGATGCGTGGTATTTTTCTTTCATCATGTGGCTTGTTACCTATGTTGTACTGTATTGTATGTCCCTCCAAAACAGTAAGAAGTAACATTAAAATAAGAGGGGAAATGCTATGTATATTGTGGAGATGTTGGCTACAGCATGTCTGTTCAACTTATATTTATAAAAGCTTGTTTGATGAGTTGTGTTGTTGAATGT</genome_strand>
        <mrna_strand>CTATTTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA.............................................................................CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTGATAAAGAGCATGGAGGTGTCCGCGATGGGACCACTGTTTGTCTTTGGGAATGGTGGAAAGGAGACAACAGGAACCAACACTGGAAGATCGTTCGCTTCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATATGTTGGCTTGTGAATCATGGCTGGAATTGGGTTGATGCGTGGTATTTTTCTTTCATCATGTGGCTTGTTACCTATGTTGTACTGTATTGTATGTCCCTCCAAAACAGTAAGAAGTAACATTAAAATAAGAGGGGAAATGCTATGTATATTGTGGAGATGTTGGCTACAGCATGTCTGTTCAACTTATATTTATAAAAGCTTGTTTGATGAGTTGTGTTGTTGAATGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E397764" ref_strand="+" ref_description="SGN-E397764 [TUS-46-F11](-)">
      <seq>tcaatttgtgccctaaaggtaaggatgaagagggtttttctagctttgatttggttaataaagcttcaggactggcagtgaagcactttattggcgcctctcaccctgtgcagttcaccccatacaatcccgacgtttttgatgcatcaattttatggacagagagcagggatgtgggtgatggttatcgagcagttaggatggtcaataacattaacctcaatctagatgcatggaatgctgataaagagcatggaggtgtccgcgatgggaccactgtttgtctttgggaatggtggaaaggagacaacaggaaccaacactggaagatcgttcgcttttgatatgttggcttgtgaatcatggctggaattgggttgatgcgtggtatttttctttcatcatgtggcttgttacctatgttgtactgtagtgtatgtccctccaaaacagtaagaagtaacattaaaataagaggggaaatgctatgtatattgtggagaaagggggtacagcatgtctgttcaacttatatttataaaagatgggttgagaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="8039" stop="12891"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="8337" g_stop="8443" g_length="107"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="107" r_length="107" r_score="0.869"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="8444" i_stop="11261" i_length="2818">
            <donor d_prob="0.996" d_score="0.98"/>
            <acceptor a_prob="0.709" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="11262" g_stop="11496" g_length="235"/>
          <reference_exon_boundary r_type="cDNA" r_start="108" r_stop="342" r_length="235" r_score="0.983"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="11497" i_stop="12377" i_length="881">
            <donor d_prob="0.938" d_score="0.98"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="12378" g_stop="12578" g_length="201"/>
          <reference_exon_boundary r_type="cDNA" r_start="343" r_stop="543" r_length="201" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="553" polyA_stop="564"/>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E397764" ref_strand="+">
        <total_alignment_score>0.956</total_alignment_score>
        <cumulative_length_of_scored_exons>543</cumulative_length_of_scored_exons>
        <coverage percentage="0.963" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E397764" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="8337" e_stop="8443"/>
          <exon e_start="11262" e_stop="11496"/>
          <exon e_start="12378" e_stop="12578"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCTGTATGTTCAATTCTTGGTTAACCATAAGCTCTGAAAAATATTATTTGGTTTGATTATTTGTGCTGCATAGTTTGATGATATCCCTCAATGATGCCTATATAATGTTAAACTTCACAAAGCAATGAACTTTGATAGCCAACCCATTGCTTTGTCATAAACAGGATATTAGAGATTTCTGCCTAATGCAAATGCTATGACTTATAATGTTTTGGGGTGTTTCAAGTAGTACCATGGTAGAGATGGAGGGCTTAATGGTGGAGTTGTAGTGGAAATGTGGTACCGTAAGTTTGTGAGACGGAAAAATAGTCAGTGTCCAGTCAATTATTTGTGTCCTGTATTGTGTAACATATCAAACTGTGCCTAATACTTCCATTTTTAGCTCCTAGGTCTATCCCTCGAGTGTTTAGTGGTATCCACTTTTGTATGAGATTTCCACTGTATCTGTGTATGCTTCAATATTCTCTATTTTTCTTTTGTGATTGTTCGACAGCTTTTACTGCCGGAGATTTCTACCTAATGCAAATACTCTGACTTGCAAATGATGCATGCTGGGAATTTTTCACATTTGGCTAAAAAAAAAGGAAAATAAATCTTTTGCAATTTAATGTTGAGTATGAAGGGTCTTTTTAATCATTTGAGAGCTCAGTGTGAGCTTTTTAGAAGAAAAAACATTCAAGTATGGATTGTTTGGACATTATGGAGGGAGAGAAACCTTAGACATTTTGAGGGGAAGTGTAATTGAATATATAAACGGAAGGGTTCGTGTTTGGTGGTGAGACTCGAATTCAGGATCTTGCTTTCTCCGATAGACTGATACCCTGTTGAATTGTGTAATCATTTGTTTGAGCTATTAGAGAGAGCACACTGTCATTTACTTAATTATGCTGAGATCTAGAACTTGCACTTGTAGTTGACAGATAAAGATCATAAGCTATAAATTAAACAACTATCGGTATGCCTATGTTATTAATTAATATTTACTCTTTAAAGAGGAAAGATAAGAAGATACTGTTGATTATGTGTGCATTACTTTTATCTGAAGGAAGAGGTGGAGAAAAGGAAATGGCTTTATTGCCTATATAGTTTTTGATATCTTTATAATATGTGCTCCAACACAAAGGAGACTGTTCTTGTAAGAATCCAATTCCCTCTTTTAGCAAGAGATCTAACTTATGCTTCATTTTGTTGGGGTGTGAATAACTCATTGGACCCAGATTACTGCCCCCCTTTAGATAGGGAAGGCCAGCCTTATAAAAAAAGATGGGTGATGGTAGATGTGCAGCTGATTCTGGGCTTAATTTTAGCAACTTGGGGTTAAAGTTGAGATATTTATCAGATGTGGTTGTTGTATAATTGGTAGTAGCTGGAACATGGTTTTAAGAGCGGTGTAGAAGAAAAAAACAAATGCATTTTTAATTAGTTGATATTTAAATGATTTAGACCTCCATTAAGTCGAATAAAACAGGGCCTTAGTTGGTCCTGGATATCATACTGAACTTAAATGTATCTTTGTGCCATCTAGTTCTAGACTGATGATCAAGACAACTTGCAAATTGCCAAACAAAGCCGTGATTCTCTGCACAACCAATGGTAGCTTATTGGTTAAGAAGATTTTTAGCACTTGTTTGTACACCCTGGTCACTTGAATTTGGCTTTAAGGAGGCACCATTATTTTGTTCATTCTTTTTTTTTCTTGCAGAAGCGATGAGTATCATCCTTTATGTTAGGATTAGGAAGATTAATGCATAATATAATTTCTTGTGCCTGATACGAATTGACCTGGAAGATGCAAAGGAATCAAACATTCAAACCCCAAAAGAAGGAGCAATAGCACCTTCTTGATAGAACAGGAAAATGATTATTTCTCTTTTTTTTTTAAAGCCTCCTTTATACTAGACTGAGATTTTATCCATTTGTAGATACGAACCGACCCGGAAGATGCTGTAATCTCTATTGTTTATAGTATTACAGAACTAACCACTGCACAATGAGACTATGTCTACGATGCAATGTAGGATCTCTTTCAAGTCCTCTACTTGACTCTCCACTTTAGCCTATTGTGAGCCTTCATATCCTCTTGCCAAGATCTTCTAAGGTTCATACGCTTCCATGTGTTAAGTGGCCATCTCAGAATGTATCATCCCCTGAAGAAAATTTGTCCCTGAACTTGTACCTTGAAACACGAAGAGTGTATGTATGAATAACCTGTCTTTTAAAATCAAGATTTGAAATGGTATAAATAAAACAAGATAGTGTCCATATACTTTCTTAACCCAACTTGCATACACTTTCTTATGCAAATTGGTTTTACAGGAGTATTTATGTCTTTTTTTTTCTATATAAAAAAAGAAGATGTGAGACTCCTAAAATAAGCACAAAATGCAACTTGCCTGGGCTAATGGGTTAAGTTCTGTAGGAACGAGAAAAGGGAAAATTGTAACCATGTTAAGCTTGAGTTTTTTGCAATTGCAGAAAACCTTCATAGTTGATGGAAATTGGTGAAACATGGGCATTGGTGGCTCGAGTTTTTTGCAAGGAGTATTGGCATCTTAAACCTTGTTCTTTGTGATAGGAATTGCTATTGCCTACAAATGGCATACACATGCACATGCTATATGCAACTTCAAGTCTTGAACTAAATATTTGCCTTCCTTGCCTCCATGCACCTTTGTTTGCTGCAAATGCATGAAAATAGATTTTACTATGCCCCAAGGGTAATGAACTCTGTTGTTCAGGGGTCCTGTCTTACTAATATTACATGGCTTCTCATGGGGAAGGAAGCATAGAAAGTTACATTTCCATTGAACTTCTTTTACAGGTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTGATAAAGAGCATGGAGGTGTCCGCGATGGGACCACTGTTTGTCTTTGGGAATGGTGGAAAGGAGACAACAGGAACCAACACTGGAAGATCGTTCGCTTCTGTAAGTTTTGCGACTTTGCAGTGCAAAAATAATTGTTTTGCTTGGTACCCCTAAAACCTACACTCCCCCCCCCCCCACCCCTCCATGTTGTTGGATATGAAATCATTTTTTCACGAAAATTACCTGTATTTAGTAGTGTTAGGTTGCTTAAAATAGCTGAGAACACGCCCCGTTAAGCGTTTAGACATTTAGCATAAAATTTCTGCACTCCTATTGTTTTTGACACTTTTTCCATCAAGATAGATGTCCCTCATAGAATTTGTTACTCAGTTACCTAGTGGTTAAGTGCCGATCCAATTTTTGGTTGATGATCTATGTGTTACCAAAGTATATTTTAGGCTTAATACATGGCCACCTCTTAACTTGCCAACAAATTTCATTTAGACACTCAAATTAAGGCTTGTTCCGATTGAGTACTCAAACACGTGATAAAGCGTTTCTATTAGACACTTTCAGTTCAAATTATGGCAAAAACTTTCCCAAACATTCCTTATGTATCAAGTAGATAAGTTAAACACTTAAAATGTCACCTTCTTTGATAATATGCATTTGTCTCAATAAGCCCTCAAACTTCACCCCTACGGCAATTGAGGCTGTTGTGTATCCTTAAATCTATCTTCTATCAATGCTTGAAACAATTTGTCTTCTCCTCCATATTACTGTATCTCTAGAGTTGACAAACGCTTCAAAACAAGCACAATTTTATTTTCCTACAAAATTGATCCTAAAGTGCTAATAGGAACACTTTATTACAGGTTTTCAATTGGAACAAGTTTTAGTTTGAGTATCTAAATGTAATTTGCTGACAACTTCAAGGGTTGTTGATGTATTTCCAAGCATCTGTAATAATTAGTTTTTCATCTAAACTAATTTCTTTGCAGGATATGTTGGCTTGTGAATCATGGCTGGAATTGGGTTGATGCGTGGTATTTTTCTTTCATCATGTGGCTTGTTACCTATGTTGTACTGTATTGTATGTCCCTCCAAAACAGTAAGAAGTAACATTAAAATAAGAGGGGAAATGCTATGTATATTGTGGAGATGTTGGCTACAGCATGTCTGTTCAACTTATATTTATAAAA</genome_strand>
        <mrna_strand>TCAATTTGTGCCCTAAAGGTAAGGATGAAGAGGGTTTTTCTAGCTTTGATTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTTTATTGGCGCCTCTCACCCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGCAGTTCACCCCATACAATCCCGACGTTTTTGATGCATCAATTTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTGATAAAGAGCATGGAGGTGTCCGCGATGGGACCACTGTTTGTCTTTGGGAATGGTGGAAAGGAGACAACAGGAACCAACACTGGAAGATCGTTCGCTTTT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATATGTTGGCTTGTGAATCATGGCTGGAATTGGGTTGATGCGTGGTATTTTTCTTTCATCATGTGGCTTGTTACCTATGTTGTACTGTAGTGTATGTCCCTCCAAAACAGTAAGAAGTAACATTAAAATAAGAGGGGAAATGCTATGTATATTGTGGAGAAAGGGGGTACAGCATGTCTGTTCAACTTATATTTATAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E309042" ref_strand="+" ref_description="SGN-E309042 [cLEZ-1-G1](-)">
      <seq>tgatgcatcaatcttatggacagagagcagggatgtgggtgatggttatcgagcagttaggatggtcaataacattaacctcaatctagatgcatggaatgctgataaagagcatggaggtgtccgcgatgggaccactgtttgtctttgggaatggtggaaaggagacaacaggaaccaacactggaagatcgttcgcttctgatatgttggcttgtgaatcatggctggaattgggttgatgcgtggtatttttctttcatcatgtggcttgttacctatgttgtactgtattgtatgtccctccaaaacagtaagaagtaacattaaaataagaggggaaatgctatgtatattgtggagatgttggctacagcatgtctgttcaacttatatttataaaagcttgtttgatgagttgtgttgttgaatgtattttgaatgtcaaaatatattactttcaaaaaaaaaaaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="10994" stop="12939"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="11294" g_stop="11496" g_length="203"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="203" r_length="203" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="11497" i_stop="12377" i_length="881">
            <donor d_prob="0.938" 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="12378" g_stop="12636" g_length="259"/>
          <reference_exon_boundary r_type="cDNA" r_start="204" r_stop="462" r_length="259" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="463" polyA_stop="475"/>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E309042" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>462</cumulative_length_of_scored_exons>
        <coverage percentage="0.973" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E309042" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="11294" e_stop="11496"/>
          <exon e_start="12378" e_stop="12636"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTGATAAAGAGCATGGAGGTGTCCGCGATGGGACCACTGTTTGTCTTTGGGAATGGTGGAAAGGAGACAACAGGAACCAACACTGGAAGATCGTTCGCTTCTGTAAGTTTTGCGACTTTGCAGTGCAAAAATAATTGTTTTGCTTGGTACCCCTAAAACCTACACTCCCCCCCCCCCCACCCCTCCATGTTGTTGGATATGAAATCATTTTTTCACGAAAATTACCTGTATTTAGTAGTGTTAGGTTGCTTAAAATAGCTGAGAACACGCCCCGTTAAGCGTTTAGACATTTAGCATAAAATTTCTGCACTCCTATTGTTTTTGACACTTTTTCCATCAAGATAGATGTCCCTCATAGAATTTGTTACTCAGTTACCTAGTGGTTAAGTGCCGATCCAATTTTTGGTTGATGATCTATGTGTTACCAAAGTATATTTTAGGCTTAATACATGGCCACCTCTTAACTTGCCAACAAATTTCATTTAGACACTCAAATTAAGGCTTGTTCCGATTGAGTACTCAAACACGTGATAAAGCGTTTCTATTAGACACTTTCAGTTCAAATTATGGCAAAAACTTTCCCAAACATTCCTTATGTATCAAGTAGATAAGTTAAACACTTAAAATGTCACCTTCTTTGATAATATGCATTTGTCTCAATAAGCCCTCAAACTTCACCCCTACGGCAATTGAGGCTGTTGTGTATCCTTAAATCTATCTTCTATCAATGCTTGAAACAATTTGTCTTCTCCTCCATATTACTGTATCTCTAGAGTTGACAAACGCTTCAAAACAAGCACAATTTTATTTTCCTACAAAATTGATCCTAAAGTGCTAATAGGAACACTTTATTACAGGTTTTCAATTGGAACAAGTTTTAGTTTGAGTATCTAAATGTAATTTGCTGACAACTTCAAGGGTTGTTGATGTATTTCCAAGCATCTGTAATAATTAGTTTTTCATCTAAACTAATTTCTTTGCAGGATATGTTGGCTTGTGAATCATGGCTGGAATTGGGTTGATGCGTGGTATTTTTCTTTCATCATGTGGCTTGTTACCTATGTTGTACTGTATTGTATGTCCCTCCAAAACAGTAAGAAGTAACATTAAAATAAGAGGGGAAATGCTATGTATATTGTGGAGATGTTGGCTACAGCATGTCTGTTCAACTTATATTTATAAAAGCTTGTTTGATGAGTTGTGTTGTTGAATGTATTTTGAATGTCAAAATATATTACTTTC</genome_strand>
        <mrna_strand>TGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTGATAAAGAGCATGGAGGTGTCCGCGATGGGACCACTGTTTGTCTTTGGGAATGGTGGAAAGGAGACAACAGGAACCAACACTGGAAGATCGTTCGCTTCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATATGTTGGCTTGTGAATCATGGCTGGAATTGGGTTGATGCGTGGTATTTTTCTTTCATCATGTGGCTTGTTACCTATGTTGTACTGTATTGTATGTCCCTCCAAAACAGTAAGAAGTAACATTAAAATAAGAGGGGAAATGCTATGTATATTGTGGAGATGTTGGCTACAGCATGTCTGTTCAACTTATATTTATAAAAGCTTGTTTGATGAGTTGTGTTGTTGAATGTATTTTGAATGTCAAAATATATTACTTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E309038" ref_strand="+" ref_description="SGN-E309038 [cLEZ-1-E9](-)">
      <seq>gtttgtctttgggaatggtggaaaggagacaacaggaaccaacactggaagatcgttcgcttctgatatgttggcttgtgaatcatggctggaattgggttcacgcgtggtatttttctttcatcatgtggcttgttacctatgttgccctgtattgtatgtccctccaaaacagtaataagtaacattaaaataagaggggaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="11133" stop="12818"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="11433" g_stop="11496" g_length="64"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="64" r_length="64" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="11497" i_stop="12377" i_length="881">
            <donor d_prob="0.938" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="12378" g_stop="12518" g_length="141"/>
          <reference_exon_boundary r_type="cDNA" r_start="65" r_stop="205" r_length="141" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E309038" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>205</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E309038" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="11433" e_stop="11496"/>
          <exon e_start="12378" e_stop="12518"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTTGTCTTTGGGAATGGTGGAAAGGAGACAACAGGAACCAACACTGGAAGATCGTTCGCTTCTGTAAGTTTTGCGACTTTGCAGTGCAAAAATAATTGTTTTGCTTGGTACCCCTAAAACCTACACTCCCCCCCCCCCCACCCCTCCATGTTGTTGGATATGAAATCATTTTTTCACGAAAATTACCTGTATTTAGTAGTGTTAGGTTGCTTAAAATAGCTGAGAACACGCCCCGTTAAGCGTTTAGACATTTAGCATAAAATTTCTGCACTCCTATTGTTTTTGACACTTTTTCCATCAAGATAGATGTCCCTCATAGAATTTGTTACTCAGTTACCTAGTGGTTAAGTGCCGATCCAATTTTTGGTTGATGATCTATGTGTTACCAAAGTATATTTTAGGCTTAATACATGGCCACCTCTTAACTTGCCAACAAATTTCATTTAGACACTCAAATTAAGGCTTGTTCCGATTGAGTACTCAAACACGTGATAAAGCGTTTCTATTAGACACTTTCAGTTCAAATTATGGCAAAAACTTTCCCAAACATTCCTTATGTATCAAGTAGATAAGTTAAACACTTAAAATGTCACCTTCTTTGATAATATGCATTTGTCTCAATAAGCCCTCAAACTTCACCCCTACGGCAATTGAGGCTGTTGTGTATCCTTAAATCTATCTTCTATCAATGCTTGAAACAATTTGTCTTCTCCTCCATATTACTGTATCTCTAGAGTTGACAAACGCTTCAAAACAAGCACAATTTTATTTTCCTACAAAATTGATCCTAAAGTGCTAATAGGAACACTTTATTACAGGTTTTCAATTGGAACAAGTTTTAGTTTGAGTATCTAAATGTAATTTGCTGACAACTTCAAGGGTTGTTGATGTATTTCCAAGCATCTGTAATAATTAGTTTTTCATCTAAACTAATTTCTTTGCAGGATATGTTGGCTTGTGAATCATGGCTGGAATTGGGTTGATGCGTGGTATTTTTCTTTCATCATGTGGCTTGTTACCTATGTTGTACTGTATTGTATGTCCCTCCAAAACAGTAAGAAGTAACATTAAAATAAGAGGGGAAA</genome_strand>
        <mrna_strand>GTTTGTCTTTGGGAATGGTGGAAAGGAGACAACAGGAACCAACACTGGAAGATCGTTCGCTTCT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATATGTTGGCTTGTGAATCATGGCTGGAATTGGGTTCACGCGTGGTATTTTTCTTTCATCATGTGGCTTGTTACCTATGTTGCCCTGTATTGTATGTCCCTCCAAAACAGTAATAAGTAACATTAAAATAAGAGGGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E220257" ref_strand="+" ref_description="SGN-E220257 [cLEL-12-C22](-)">
      <seq>gatatgttggcttgtgaatcatggctgaaattgggttgatgcgtggtatttttctttcatcatgtggcttgttacctatgttgtactgtattgtatgtccctccaaaacagtaagaagtaacattaaaataagagggggaatgctatgtatattgtggaga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="12078" stop="12838"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="12378" g_stop="12538" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="161" r_length="161" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E220257" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>161</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E220257" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="12378" e_stop="12538"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATATGTTGGCTTGTGAATCATGGCTGGAATTGGGTTGATGCGTGGTATTTTTCTTTCATCATGTGGCTTGTTACCTATGTTGTACTGTATTGTATGTCCCTCCAAAACAGTAAGAAGTAACATTAAAATAAGAGGGGAAATGCTATGTATATTGTGGAGA</genome_strand>
        <mrna_strand>GATATGTTGGCTTGTGAATCATGGCTGAAATTGGGTTGATGCGTGGTATTTTTCTTTCATCATGTGGCTTGTTACCTATGTTGTACTGTATTGTATGTCCCTCCAAAACAGTAAGAAGTAACATTAAAATAAGAGGGGGAATGCTATGTATATTGTGGAGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E226003" ref_strand="+" ref_description="SGN-E226003 [cLEL-31-C1](-)">
      <seq>ggcacgaggtggcttgttacctatgttgtactgtattgtatgtccctccaaaacagtaagaagtaacattaaaataagaggggaaatgctatgtatattgtggagatgttggctacagcatgtctgttcaacttatatttataaaagcttgtttgatgaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="12135" stop="12891"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="12433" g_stop="12591" g_length="159"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="159" r_length="159" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="160" polyA_stop="175"/>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E226003" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>159</cumulative_length_of_scored_exons>
        <coverage percentage="0.909" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E226003" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="12433" e_stop="12591"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATCATGTGGCTTGTTACCTATGTTGTACTGTATTGTATGTCCCTCCAAAACAGTAAGAAGTAACATTAAAATAAGAGGGGAAATGCTATGTATATTGTGGAGATGTTGGCTACAGCATGTCTGTTCAACTTATATTTATAAAAGCTTGTTTGATGA</genome_strand>
        <mrna_strand>GGCACGAGGTGGCTTGTTACCTATGTTGTACTGTATTGTATGTCCCTCCAAAACAGTAAGAAGTAACATTAAAATAAGAGGGGAAATGCTATGTATATTGTGGAGATGTTGGCTACAGCATGTCTGTTCAACTTATATTTATAAAAGCTTGTTTGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E226099" ref_strand="+" ref_description="SGN-E226099 [cLEL-31-C1](-)">
      <seq>ggcacgaggtggcttgttacctatgttgtactgtattgtatgtccctccaaaacagtaagaagtaacattaaaataagaggggaaatgctatgtatattgtggagatgttggctacagcatgtctgttcaacttatatttataaaagcttgtttgatgaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="12135" stop="12891"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="12433" g_stop="12591" g_length="159"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="159" r_length="159" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="160" polyA_stop="175"/>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E226099" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>159</cumulative_length_of_scored_exons>
        <coverage percentage="0.909" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E226099" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="12433" e_stop="12591"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATCATGTGGCTTGTTACCTATGTTGTACTGTATTGTATGTCCCTCCAAAACAGTAAGAAGTAACATTAAAATAAGAGGGGAAATGCTATGTATATTGTGGAGATGTTGGCTACAGCATGTCTGTTCAACTTATATTTATAAAAGCTTGTTTGATGA</genome_strand>
        <mrna_strand>GGCACGAGGTGGCTTGTTACCTATGTTGTACTGTATTGTATGTCCCTCCAAAACAGTAAGAAGTAACATTAAAATAAGAGGGGAAATGCTATGTATATTGTGGAGATGTTGGCTACAGCATGTCTGTTCAACTTATATTTATAAAAGCTTGTTTGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E546935" ref_strand="+" ref_description="SGN-E546935 [TUS-70-I22]">
      <seq>ctgagtttgatccatatttggaaaaacaagctttggaagccctcaactcttcacttgaagcatatactaataatcctgaggaaataactaatgcattcaacaaagaagttggaaatgcattgctgaagtataaaagcttaaggaggcatcttaaagaaaaagataaatgcatggcaaccaatccaattgatagatgctggaggtgtgacaaaaattgggctgaaaacaggatggatttggaagagtgtgctagaggatttggccacaagacgaccggtggtaaaaatggcaagtactatgttgtcactgatgaatcagatgatgacgtgcaggaaccaaaaccagggacccttcgtcatgctgtgattcaagaggagccattgtggatcatctttgagaaacaatggtgatcaagttgcaaccagaacttatgatcacgagtgacaagacnatcgatggcaggggagtcgctgtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="13774" stop="15966"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="14074" g_stop="14188" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="115" r_length="115" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="14189" i_stop="15305" i_length="1117">
            <donor d_prob="0.999" 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="15306" g_stop="15666" g_length="361"/>
          <reference_exon_boundary r_type="cDNA" r_start="116" r_stop="475" r_length="360" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E546935" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>476</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E546935" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="14074" e_stop="14188"/>
          <exon e_start="15306" e_stop="15666"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGAGTTTGATCCATATTTGGAAAAACAAGCTTTGGAAGCCCTCAACTCTTCACTTGAAGCATATACTAATAATCCTGAGGAAATAACTAATGCATTCAACAAAGAAGTTGGAAAGTAAGTGGTTTCTTGATTATTTTTTACTTTTTATGTTGCTCAGACTCTTCAAACATACCATTGGGATATGTGTGTTGGATCTATATATCCTCCAAAATTTATTGCATTTTTAAGGATTTGATAATATTTTATGGACGGTCCGCGACAAAGAATGCAGACCTAGCAAAGAGGCATAATACATAAATATATCATTTAACTTGGCTTCAAATCACATTATGCCCTTCAACTTTGGGTCTGCACAATTAGATAATTAAACTTGTATAAAATTGAACAAAATAGACACACATATCCTATATGACATCCTACATGTCATTTTTTGTCCTACGTGGTGTCCTATGTGTATTATGCCACGTAGGACTCATCTGTCTATTTGTTCAACTTCATACAAGTTTAAGTGTCTACTTGTACATATTCAAAGTTGGAGAACATAAACGTAAAATGAAGCCAAATTAAAGGGCATATTTATGTATAATGCCCTAGCGAAAAATAGGGTTTAATGGATGAAAGATATATATAGCCGAACTCCATCCGTTCTAAAATATGTTAAATGTTTGAATCTGCATGAAATTTAAGGGAAAAAAAATGAAGATTTCATGTTATATATGTTTGGTGATAAAACTTATGACATTAAGCATGTCATAACATTTACCTATGGTTATAAAAACTTCTCATTAAGGGTCAATTGGAAAGTCTTAAGTTCAATTTTTTTCAAATTTATAAGAGTTGTGATTTTCGAAACAGACTTAAAAGAAAAATGTGTCAGAGTGAAACATAGGGAATATCATTAGTTGAGATTAAGTTTTTGTTACGTTAGCATGTTTATTTAGGTCCAATATTTGCTACAAGAATTTTTTAGACTCGTTCGAGATATATATGCCAGAAGAAATATTTTTTTGTTTCGTAATATTGGATAGCAGCAAGCTTAAATAGAGCGACATGGGCAATGACATTTCATTATATTTATAGCCGACCTAACTTATTTGTTCACTCGTTTGGGATTGAGGCTAACTTATTTGTTCACTCGTTTGGGTTTGAGGCGTAGTTGTAGCTGTTTCTTTGATTTTACTTGCATAGGTTTAGGAAAAATGACATGAATTTTACTTAATGTATTATGCAGTGCATTGCTGAAGTATAAAAGCTTAAGGAGGCATCTTAAAGAAAAAGATAAATGCATGGCAACCAATCCAATTGATAGATGCTGGAGGTGTGACAAAAATTGGGCTGAAAACAGGATGGATTTGGAAGAGTGTGCTAGGGGATTTGGCCACAAGACGACCGGTGGTAAAAATGGCAAGTACTATGTTGTCACCGATGAATCAGATGATAACGTGCAGGAACCAAAACCAGGGACCCTTCGTCATGCTGTGATTCAAGAGGAGCCATTGTGGATCATCTTTGAGAAATCAATGGTGATCAAGTTGCGACAAGAACTTATGATCACGAGTGACAAGACAATCGATGGCAGGGGAGTCGCTGTT</genome_strand>
        <mrna_strand>CTGAGTTTGATCCATATTTGGAAAAACAAGCTTTGGAAGCCCTCAACTCTTCACTTGAAGCATATACTAATAATCCTGAGGAAATAACTAATGCATTCAACAAAGAAGTTGGAAA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGCATTGCTGAAGTATAAAAGCTTAAGGAGGCATCTTAAAGAAAAAGATAAATGCATGGCAACCAATCCAATTGATAGATGCTGGAGGTGTGACAAAAATTGGGCTGAAAACAGGATGGATTTGGAAGAGTGTGCTAGAGGATTTGGCCACAAGACGACCGGTGGTAAAAATGGCAAGTACTATGTTGTCACTGATGAATCAGATGATGACGTGCAGGAACCAAAACCAGGGACCCTTCGTCATGCTGTGATTCAAGAGGAGCCATTGTGGATCATCTTTGAGAAA-CAATGGTGATCAAGTTGCAACCAGAACTTATGATCACGAGTGACAAGACNATCGATGGCAGGGGAGTCGCTGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E363541" ref_strand="+" ref_description="SGN-E363541 [cLPP-4-L14]">
      <seq>tgagtttgatccatatttggaaaaacaagctttggaagccctcaactcttcacttgaagcatatactaataatcctgaggaaataactaatgcattcaacaaagaagttggaaatgcattgctgaagtataaaagcttaaggaggcatcttaaagaaaaagataaatgcatggcaaccaatccaattgatagatgctggaggtgtgacaaaaattgggctgaaaacaggatggatttggaagagtgtgctagaggatttggccacaagacgaccggtggtaaaaatggcaagtactatgttgtcactgatgaatcagatgatgacgtgcaggaaccaaaaccagggacccttcgtcatgctgtgattcaagaggagccattgtggatcatctttgagaaatcaatggtgatcaagttgcaacaagaacttatgatcacgagtgacaagacaatcgatggcaggggagtcgctgttcacat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="13775" stop="15971"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="14075" g_stop="14188" 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="14189" i_stop="15305" i_length="1117">
            <donor d_prob="0.999" 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="15306" g_stop="15671" g_length="366"/>
          <reference_exon_boundary r_type="cDNA" r_start="115" r_stop="480" r_length="366" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E363541" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>480</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E363541" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="14075" e_stop="14188"/>
          <exon e_start="15306" e_stop="15671"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAGTTTGATCCATATTTGGAAAAACAAGCTTTGGAAGCCCTCAACTCTTCACTTGAAGCATATACTAATAATCCTGAGGAAATAACTAATGCATTCAACAAAGAAGTTGGAAAGTAAGTGGTTTCTTGATTATTTTTTACTTTTTATGTTGCTCAGACTCTTCAAACATACCATTGGGATATGTGTGTTGGATCTATATATCCTCCAAAATTTATTGCATTTTTAAGGATTTGATAATATTTTATGGACGGTCCGCGACAAAGAATGCAGACCTAGCAAAGAGGCATAATACATAAATATATCATTTAACTTGGCTTCAAATCACATTATGCCCTTCAACTTTGGGTCTGCACAATTAGATAATTAAACTTGTATAAAATTGAACAAAATAGACACACATATCCTATATGACATCCTACATGTCATTTTTTGTCCTACGTGGTGTCCTATGTGTATTATGCCACGTAGGACTCATCTGTCTATTTGTTCAACTTCATACAAGTTTAAGTGTCTACTTGTACATATTCAAAGTTGGAGAACATAAACGTAAAATGAAGCCAAATTAAAGGGCATATTTATGTATAATGCCCTAGCGAAAAATAGGGTTTAATGGATGAAAGATATATATAGCCGAACTCCATCCGTTCTAAAATATGTTAAATGTTTGAATCTGCATGAAATTTAAGGGAAAAAAAATGAAGATTTCATGTTATATATGTTTGGTGATAAAACTTATGACATTAAGCATGTCATAACATTTACCTATGGTTATAAAAACTTCTCATTAAGGGTCAATTGGAAAGTCTTAAGTTCAATTTTTTTCAAATTTATAAGAGTTGTGATTTTCGAAACAGACTTAAAAGAAAAATGTGTCAGAGTGAAACATAGGGAATATCATTAGTTGAGATTAAGTTTTTGTTACGTTAGCATGTTTATTTAGGTCCAATATTTGCTACAAGAATTTTTTAGACTCGTTCGAGATATATATGCCAGAAGAAATATTTTTTTGTTTCGTAATATTGGATAGCAGCAAGCTTAAATAGAGCGACATGGGCAATGACATTTCATTATATTTATAGCCGACCTAACTTATTTGTTCACTCGTTTGGGATTGAGGCTAACTTATTTGTTCACTCGTTTGGGTTTGAGGCGTAGTTGTAGCTGTTTCTTTGATTTTACTTGCATAGGTTTAGGAAAAATGACATGAATTTTACTTAATGTATTATGCAGTGCATTGCTGAAGTATAAAAGCTTAAGGAGGCATCTTAAAGAAAAAGATAAATGCATGGCAACCAATCCAATTGATAGATGCTGGAGGTGTGACAAAAATTGGGCTGAAAACAGGATGGATTTGGAAGAGTGTGCTAGGGGATTTGGCCACAAGACGACCGGTGGTAAAAATGGCAAGTACTATGTTGTCACCGATGAATCAGATGATAACGTGCAGGAACCAAAACCAGGGACCCTTCGTCATGCTGTGATTCAAGAGGAGCCATTGTGGATCATCTTTGAGAAATCAATGGTGATCAAGTTGCGACAAGAACTTATGATCACGAGTGACAAGACAATCGATGGCAGGGGAGTCGCTGTTCACAT</genome_strand>
        <mrna_strand>TGAGTTTGATCCATATTTGGAAAAACAAGCTTTGGAAGCCCTCAACTCTTCACTTGAAGCATATACTAATAATCCTGAGGAAATAACTAATGCATTCAACAAAGAAGTTGGAAA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGCATTGCTGAAGTATAAAAGCTTAAGGAGGCATCTTAAAGAAAAAGATAAATGCATGGCAACCAATCCAATTGATAGATGCTGGAGGTGTGACAAAAATTGGGCTGAAAACAGGATGGATTTGGAAGAGTGTGCTAGAGGATTTGGCCACAAGACGACCGGTGGTAAAAATGGCAAGTACTATGTTGTCACTGATGAATCAGATGATGACGTGCAGGAACCAAAACCAGGGACCCTTCGTCATGCTGTGATTCAAGAGGAGCCATTGTGGATCATCTTTGAGAAATCAATGGTGATCAAGTTGCAACAAGAACTTATGATCACGAGTGACAAGACAATCGATGGCAGGGGAGTCGCTGTTCACAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E537462" ref_strand="+" ref_description="SGN-E537462 [TUS-56-B5]">
      <seq>ggttccatggttgtgtatctttttttcttacttgttgttctacaaatcaagttgtgagcttataacttctcttcctggacaacctccaaatatattcttcaaacaacactctggttatattgttacaaattctcaaaatggtagagctctcttttattattttgtagaagcggattcagaaaatgcaacatcacttccccttactctgtggctcaatggaggccctggttgttcatctgtggggtttggtgtttttatggaacatggtccttttcagccaggaaaagatgggagactaataaaaaacaagtattcttggaatttagaatcgaacatgttatacgttgagtccccgattggagtaggattttcatactcgaatacaagctcggactacgtcaattgggatgatgttgcaacagcaaaggagaatctccaatttctactcaactggttagagaaattccccgaatataggaacttggatttgttcttagctggtgaaagttatgcaggtcactatattccacagcttacagtattgctgcttgattacaatagaaagcctaatgttaaaccaatcaagcttaaatcaattgcactggggaatccactactagatcttgaaataagcgttaagtcttccgaatatttatggtcacatggtgcgatttctgatgaattacttactatgaaaagaacaatctgtaacgaaaacgagttgttgttgggatcaatacatcataatatgtctaacgagtgctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="49336" stop="51782"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="49636" g_stop="49856" g_length="221"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="221" r_length="221" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="49857" i_stop="50026" i_length="170">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.929" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="50027" g_stop="50131" g_length="105"/>
          <reference_exon_boundary r_type="cDNA" r_start="222" r_stop="326" r_length="105" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="50132" i_stop="50649" i_length="518">
            <donor d_prob="0.730" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="50650" g_stop="50745" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="327" r_stop="422" r_length="96" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="50746" i_stop="50835" i_length="90">
            <donor d_prob="0.988" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="50836" g_stop="50928" g_length="93"/>
          <reference_exon_boundary r_type="cDNA" r_start="423" r_stop="515" r_length="93" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="50929" i_stop="51150" i_length="222">
            <donor d_prob="0.933" d_score="1.00"/>
            <acceptor a_prob="0.983" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="51151" g_stop="51236" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="516" r_stop="601" r_length="86" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="51237" i_stop="51318" i_length="82">
            <donor d_prob="0.837" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="51319" g_stop="51482" g_length="164"/>
          <reference_exon_boundary r_type="cDNA" r_start="602" r_stop="765" r_length="164" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E537462" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>765</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E537462" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="49636" e_stop="49856"/>
          <exon e_start="50027" e_stop="50131"/>
          <exon e_start="50650" e_stop="50745"/>
          <exon e_start="50836" e_stop="50928"/>
          <exon e_start="51151" e_stop="51236"/>
          <exon e_start="51319" e_stop="51482"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTTCCATGGTTGTGTATCTTTTTTTCTTACTTGTTGTTCTACAAATCAAGTTGTGAGCTTATAACTTCTCTTCCTGGACAACCTCCAAATATATTCTTCAAACAACACTCTGGTTATATTGTTACAAATTCTCAAAATGGTAGAGCTCTCTTTTATTATTTTGTAGAAGCGGATTCAGAAAATGCAACATCACTTCCCCTTACTCTGTGGCTCAATGGAGGTACATTTCTCCTATATTGCTCAGACTCTTCAAAAATATCGACATGTGTGTGTCAGATCGGACACATATACAATAACATTTTTCGAGAGTCCGAGCTATATAATATTGTATACCGCTTCTCTATTGACCTTTTTTTTTTCATTTGATATTGATTGAATCCATTATGTTAGGCCCTGGTTGTTCATCTGTGGGGTTTGGTGTTTTTATGGAACATGGTCCTTTTCAGCCAGGAAAAGATGGGAGACTAATAAAAAACAAGTATTCTTGGAATTTAGGTAATGTTTCTTTCTTCTTTAGGGTAGAATATTTAGTAGGTAGTTGAGCGTTGTCTCATTTCCTAGCATGATAGATTGGTGTATTGTATCTGTTTCTCGATTCTTTTTTTTTACCAGTAGTAGTAGCGTTTGTCTCATAGTTGGTCTATATTACGAGTTTTGTTACACCTCGTCATTTACTTACTGTGCTTCAGTTATCACATTAGTTGGTTATGTTGCCCCTCTTTGGTATGTTAGGTTATGATTTCCTTATCATATTCTATGTCCTCTTTACTTCTGTATTGTTCTATTAGCTGCTCTGATGTTCGTTATTTGAGCTGAGGGTCTTCCGGAAACAACCTCTCTACCTTCTTGAGGTAGTGGTAAGGTCTACGTACACTCTACCCTTCCCAGACGCCGCTTTTGGGACTATACTGGGATTGTTGTTGTTGTTATCCTGAATGATCATGTTGAAAAGATTTCATTGCCTTGAAAATCGGATAACAATGACTGATTTCGATTGCTATAACACGAAACAGAATCGAACATGTTATACGTTGAGTCCCCGATTGGAGTAGGATTTTCATACTCGAATACAAGCTCGGACTACGTCAATTGGGATGATGTTGCAACAGGTACACCACTTTTCCAGAAATAGCTAATAATATTTGGTACTAAAAGGCAACGGAAATGTCTGATTTTGCACCTTTTGATCTTTTATATAGCAAAGGAGAATCTCCAATTTCTACTCAACTGGTTAGAGAAATTCCCCGAATATAGGAACTTGGATTTGTTCTTAGCTGGTGAAAGTTATGCAGGTAATATATCTGAACTTTTATGTTGCTGAGACTCTCCAAAAACTTGTCACACCCGTGTCAGATTCCTCCAAAAGTAGTACATAGAGAATCCATTTGGAGGATCCGACACACAATGTTGACATTTTTGAAGAGTACGAACAACAGAAGACTTAACTCGCCTATGTTTTTTGTTCTTTCGGTTGTAAAGATTCGTCAACTGTTCTGTTTTTGTTTTTTTTTTAGGTCACTATATTCCACAGCTTACAGTATTGCTGCTTGATTACAATAGAAAGCCTAATGTTAAACCAATCAAGCTTAAATCAATTGCAGTAATGTCTACATTACCCTTAAACTTCTTGTTGATTAATTGTTTTATATTCGAATCTGGGTTATATCCAATGACTTTTGCAGCTGGGGAATCCACTACTAGATCTTGAAATAAGCGTTAAGTCTTCCGAATATTTATGGTCACATGGTGCGATTTCTGATGAATTACTTACTATGAAAAGAACAATCTGTAACGAAACGAGGTTGTTGTTGGAATCAATACATCATAATATGTCTAACGAGTGCTC</genome_strand>
        <mrna_strand>GGTTCCATGGTTGTGTATCTTTTTTTCTTACTTGTTGTTCTACAAATCAAGTTGTGAGCTTATAACTTCTCTTCCTGGACAACCTCCAAATATATTCTTCAAACAACACTCTGGTTATATTGTTACAAATTCTCAAAATGGTAGAGCTCTCTTTTATTATTTTGTAGAAGCGGATTCAGAAAATGCAACATCACTTCCCCTTACTCTGTGGCTCAATGGAG..........................................................................................................................................................................GCCCTGGTTGTTCATCTGTGGGGTTTGGTGTTTTTATGGAACATGGTCCTTTTCAGCCAGGAAAAGATGGGAGACTAATAAAAAACAAGTATTCTTGGAATTTAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATCGAACATGTTATACGTTGAGTCCCCGATTGGAGTAGGATTTTCATACTCGAATACAAGCTCGGACTACGTCAATTGGGATGATGTTGCAACAG..........................................................................................CAAAGGAGAATCTCCAATTTCTACTCAACTGGTTAGAGAAATTCCCCGAATATAGGAACTTGGATTTGTTCTTAGCTGGTGAAAGTTATGCAG..............................................................................................................................................................................................................................GTCACTATATTCCACAGCTTACAGTATTGCTGCTTGATTACAATAGAAAGCCTAATGTTAAACCAATCAAGCTTAAATCAATTGCA..................................................................................CTGGGGAATCCACTACTAGATCTTGAAATAAGCGTTAAGTCTTCCGAATATTTATGGTCACATGGTGCGATTTCTGATGAATTACTTACTATGAAAAGAACAATCTGTAACGAAAACGAGTTGTTGTTGGGATCAATACATCATAATATGTCTAACGAGTGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E266296" ref_strand="+" ref_description="SGN-E266296 [cLEI-3-D16]">
      <seq>gttccatggttgtgcatctttttttcttactggttgatctacaagtcaagtcgtgagcttataacttctcttcctggacaacctccaaatatattcttcaaacaacactctggttatattgttacaaattctcgcaatggtcgagctctcttttattattttgtagaaccggattcagaaaatgcaacatcacttccccttactctgtggctcaatggaggccctggttgttcatctgtggggttcggtgtttgtatggaacatggtccatttcagccaggaaaagatgggagactaataaaaaacacgtattcttggaatttagaatcgaacatgctatacgttgagtccccgattggagtaggattttcatactcgaatacaagctcggactacgtcaattgcgatgatgttgcaacagcaaaggagaatctccaatttctactcaactggttagagaaattccccg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="49337" stop="51183"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="49637" g_stop="49856" g_length="220"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="220" r_length="220" r_score="0.959"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="49857" i_stop="50026" i_length="170">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.929" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="50027" g_stop="50131" g_length="105"/>
          <reference_exon_boundary r_type="cDNA" r_start="221" r_stop="325" r_length="105" r_score="0.962"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="50132" i_stop="50649" i_length="518">
            <donor d_prob="0.730" d_score="0.98"/>
            <acceptor a_prob="0.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="50650" g_stop="50745" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="326" r_stop="421" r_length="96" r_score="0.979"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="50746" i_stop="50835" i_length="90">
            <donor d_prob="0.988" d_score="0.98"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="50836" g_stop="50883" g_length="48"/>
          <reference_exon_boundary r_type="cDNA" r_start="422" r_stop="469" r_length="48" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E266296" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>469</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E266296" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="49637" e_stop="49856"/>
          <exon e_start="50027" e_stop="50131"/>
          <exon e_start="50650" e_stop="50745"/>
          <exon e_start="50836" e_stop="50883"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTCCATGGTTGTGTATCTTTTTTTCTTACTTGTTGTTCTACAAATCAAGTTGTGAGCTTATAACTTCTCTTCCTGGACAACCTCCAAATATATTCTTCAAACAACACTCTGGTTATATTGTTACAAATTCTCAAAATGGTAGAGCTCTCTTTTATTATTTTGTAGAAGCGGATTCAGAAAATGCAACATCACTTCCCCTTACTCTGTGGCTCAATGGAGGTACATTTCTCCTATATTGCTCAGACTCTTCAAAAATATCGACATGTGTGTGTCAGATCGGACACATATACAATAACATTTTTCGAGAGTCCGAGCTATATAATATTGTATACCGCTTCTCTATTGACCTTTTTTTTTTCATTTGATATTGATTGAATCCATTATGTTAGGCCCTGGTTGTTCATCTGTGGGGTTTGGTGTTTTTATGGAACATGGTCCTTTTCAGCCAGGAAAAGATGGGAGACTAATAAAAAACAAGTATTCTTGGAATTTAGGTAATGTTTCTTTCTTCTTTAGGGTAGAATATTTAGTAGGTAGTTGAGCGTTGTCTCATTTCCTAGCATGATAGATTGGTGTATTGTATCTGTTTCTCGATTCTTTTTTTTTACCAGTAGTAGTAGCGTTTGTCTCATAGTTGGTCTATATTACGAGTTTTGTTACACCTCGTCATTTACTTACTGTGCTTCAGTTATCACATTAGTTGGTTATGTTGCCCCTCTTTGGTATGTTAGGTTATGATTTCCTTATCATATTCTATGTCCTCTTTACTTCTGTATTGTTCTATTAGCTGCTCTGATGTTCGTTATTTGAGCTGAGGGTCTTCCGGAAACAACCTCTCTACCTTCTTGAGGTAGTGGTAAGGTCTACGTACACTCTACCCTTCCCAGACGCCGCTTTTGGGACTATACTGGGATTGTTGTTGTTGTTATCCTGAATGATCATGTTGAAAAGATTTCATTGCCTTGAAAATCGGATAACAATGACTGATTTCGATTGCTATAACACGAAACAGAATCGAACATGTTATACGTTGAGTCCCCGATTGGAGTAGGATTTTCATACTCGAATACAAGCTCGGACTACGTCAATTGGGATGATGTTGCAACAGGTACACCACTTTTCCAGAAATAGCTAATAATATTTGGTACTAAAAGGCAACGGAAATGTCTGATTTTGCACCTTTTGATCTTTTATATAGCAAAGGAGAATCTCCAATTTCTACTCAACTGGTTAGAGAAATTCCCCG</genome_strand>
        <mrna_strand>GTTCCATGGTTGTGCATCTTTTTTTCTTACTGGTTGATCTACAAGTCAAGTCGTGAGCTTATAACTTCTCTTCCTGGACAACCTCCAAATATATTCTTCAAACAACACTCTGGTTATATTGTTACAAATTCTCGCAATGGTCGAGCTCTCTTTTATTATTTTGTAGAACCGGATTCAGAAAATGCAACATCACTTCCCCTTACTCTGTGGCTCAATGGAG..........................................................................................................................................................................GCCCTGGTTGTTCATCTGTGGGGTTCGGTGTTTGTATGGAACATGGTCCATTTCAGCCAGGAAAAGATGGGAGACTAATAAAAAACACGTATTCTTGGAATTTAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATCGAACATGCTATACGTTGAGTCCCCGATTGGAGTAGGATTTTCATACTCGAATACAAGCTCGGACTACGTCAATTGCGATGATGTTGCAACAG..........................................................................................CAAAGGAGAATCTCCAATTTCTACTCAACTGGTTAGAGAAATTCCCCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E537459" ref_strand="+" ref_description="SGN-E537459 [TUS-56-B5](-)">
      <seq>gtgatacagatacaggcgatctgctcgcgccaatatgtgtatcttctggtgtagcaggacaattaggagtccttggaaaacttgcctcaatacatgaaaaggacgtgagagaaattggcgatccatgccttactgataggatatatatgtatcttaacaagccagaagttcaaaaggcattacatgccaacactactcacttgccatatgcctgggatttttgtttagggcaccttcagtatcaaagaggtgatttagctataaatgttatacctctattgtcaaatattctaaaagagaatatacaagttctgctttacagtggagaccaagatacaaaaatcccactgacccaaactaggaaaattgctaaactacttgctagagatttaaagctagttgctttagataaatatggtccctggtatgatggcttgcagattggaggatggagtcaatcatttggaggggttagagaaggcaaaaatgtaacatatttaacatttgctacgattaggggtgcggctcatgaagtgccttatacttctccttcacaagctcttactcttttcagaacatttctaaaaggacaatctccatcgcgaaagaataacaccattcgagccaagaagttgcatagctctatcgacctcttttcaactgcaatttagatgtttaatttgttatctttgttgtatacttttcttttttaaattgtgagttgaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="51218" stop="55496"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="51518" g_stop="51618" 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="51619" i_stop="51691" i_length="73">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="51692" g_stop="51819" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="102" r_stop="229" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="51820" i_stop="51949" i_length="130">
            <donor d_prob="0.900" d_score="1.00"/>
            <acceptor a_prob="0.922" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="51950" g_stop="52042" g_length="93"/>
          <reference_exon_boundary r_type="cDNA" r_start="230" r_stop="322" r_length="93" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="52043" i_stop="52736" i_length="694">
            <donor d_prob="0.991" 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="52737" g_stop="52854" g_length="118"/>
          <reference_exon_boundary r_type="cDNA" r_start="323" r_stop="440" r_length="118" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="52855" i_stop="54906" i_length="2052">
            <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="54907" g_stop="55202" g_length="296"/>
          <reference_exon_boundary r_type="cDNA" r_start="441" r_stop="735" r_length="295" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E537459" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>736</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E537459" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="51518" e_stop="51618"/>
          <exon e_start="51692" e_stop="51819"/>
          <exon e_start="51950" e_stop="52042"/>
          <exon e_start="52737" e_stop="52854"/>
          <exon e_start="54907" e_stop="55202"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGATACAGATACAGGCGATCTGCTCGCGCCAATATGTGTATCTTCTGGTGTAGCAGGACAATTAGGAGTCCTTGGAAAACTTGCCTCAATACATGAAAAGGTGTAAATTTGAATCTTTTCTCTTAACTTTCTTTGCAGTTAACACTAACTCAATGCAGTTGTTCTTTTGACAGGACGTGAGAGAAATTGGCGATCCATGCCTTACTGATAGGATATATATGTATCTTAACAAGCCAGAAGTTCAAAAGGCATTACATGCCAACACTACTCACTTGCCATATGCCTGGGATTTTTGTTTAGGGTCAGTTCTTTCTAAATTTTACTTTCTTTCGTGTTTTGAAAGCATTTGTATCTCCTTATTCAAAAGCTTAAACTGTTAGACAGACATACGTTTAAACAAGTCTGTATGTTAATATGTCAAAAAATTGCAGGCACCTTCAGTATCAAAGAGGTGATTTAGCTATAAATGTTATACCTCTATTGTCAAATATTCTAAAAGAGAATATACAAGTTCTGCTTTACAGGTTAGTTCATTTCTACATTTGAAGTTACAATAATCAAATTTCCTCTAATTATCACTATTGTAAACAGACATAATACATAAATAAACATTCAAATTTGGCATCACATGGCAAGTATTAAATATTCCAATTGAGTATGCACCTAAATCCGTCTCCACTCTGTCAAGTGAACACTCCAACATAGAAAATGATCATCTAGAAACTCCAGTATCACGTTAGAATCGGAGGTCTACGAGATACTGTAAGGTAATTAGTTTGATTGTTTAATTGTCAATTGAGACAAGTCAAGGTATCTACATGTGCACTCTCAAAGTTAGAGTGCTTACTTGTCGGCTGAGAACAAGTTTTAGTGTGTTCATGCATTATGCATTGTAAAAGGGGAAAAGGAACAAAAATATCGGGAGTTATTTGAAATAGGTCAACTTTACCCCGTTATGTTTTTTGGCAAAAAATTGCCCTCGTTGTTCGTCAACTAGCTCAAAATGGCCCCCCAATTAGTTGGGTAACGGAAATGACATTTTTTTTCAAAACATAATGGAGGTTAAAATTAACATATTTTAAATAGTTCAGAGGTATTTTTGATCATTTTCCCTTGAAAAAACTATATATTTACTCTTGGTGCTTTATTAAACTTTGTTATAGCTGTTACTCTGTAATAAGATTGTGTATGTTTTTTTGTGTTTTTTTTTTTTGCCAGTGGAGACCAAGATACAAAAATCCCACTGACCCAAACTAGGAAAATTGCTAAACTACTTGCTAGAGATTTAAAGCTAGTTGCTTTAGATAAATATGGTCCCTGGTATGATGGCTTGCAGGTATGTGACTACATCCATTGTTTTCAATTTTGGACCATATGTTTTAAAATAATTTTAAAATCATATGTTTATAACAAAGAAGAAAGGCACTCAAACTTGTGTAAAATTACACAGTAGACACAAAAGTCCTTGTAGTATAATACATGTAGGACACCATTTAGGAAACAAACTTATAACAAAACAATTTTTAGCGGCATTAAATATTGACATTCATAAAGAGTGCTAAAGTCTTTACCGGCATTAGTTAAGTGTCATTAGAATCAATGTCGCTAAAGGCTTTAGGAACATATACAAAGAGTGTCAATTGCCGCTAAAAATACATATTTAGCGGTAATTAAAAATTAATTGCCACTAATGATCATATTTGTTGTAGTAAAATTGACATGTGAGATGCTATGTATGACGTGTGTCTATTTGTACAATTTTATACAAGTTTAAGTGGTTATTTTGTACATACCCAAAATTGAAGGACATGAATATGAAATAAGACCAGAGTTGAAATGTATATATTTATGTATTATGCCTAAAATCTATCATTCCTTCTAATACCTACTGAAATGATGATATATATTGTAATTTCAAAGAGGCTCAATCGGACATAAGGACCTGAATGAAGACATGCTTCACTATGATATGTCGTGCAAATTCTAGTTAATGACTTTGAAACAAATAAATCACTAATTTATGCTATTGATCTTGTCTTAGCCTTACATAACAATGAAACTTTTTAATACTTTAGAAAATATAGTCCTAAAGTGGTGTTAAGCTTAGAACAATCCGAGGATATTTGAATATAAGGAAAGAAAGACATTTCCATCTAGAATATATAAAAAGAAAAATCCAATTTCCTTTTTTTGGATAAAACTTTAATTAAGAACTGATTCTAGGTGGTCCATTTGATAAGTTTAAACTTTTTTTTGCTTTTAATTTCATAGTAATAAGTAATAACTACTCCCTCTTGTTCTTTACAAGGACCTTTCTAGTCCTTTAAAGTAGTTCAAAATAAGTGTCATTTATAAAAGAGAAAAGGGTCTGATATACCCCTCAATTTTGTTATTTGGAGCTGATATACCTCTCGTTATAAAAGTGACTCATATATGCCCTTACCGTTATACAAACGGCTCACATATACCCCTGCCGTTACAAAATGGCTCACATATACCCTTCATTTAACAAATTTAAAAAAATTAGTTTTAAATTTATATTTATTACTTCTAATTTTTTTTAAAAAATTATTTAGGGGTATATATGATTCTTCTATCAAAGTTCAAGGTATATTTTAACTTTTTTCATACATAAATTATTTTTTGACTTCTTTTATTATAATTATTTGAATTTCTTATTCTTATTTTGTTTTTTCTTTCATTCCTTAGTTTAAAGAATAAAAAATTAAACTATTTTTTTTGTGTGTATTGTAATTTAATTTCGTTTTCGAAGAAAAAATTTGATCATCTACAATAAGTTTTACAAGAATATTAGTGAAACATAAATAAATTTGATTATCAAAATAATAATTATAAATTAGTCATTGAAACAAAAAAAAGTAAAAAAAAATATGTTTGATGAGGATTAAATTTACTCATATGGGATTATATTTTTTAGAAAAAAATAATAAAAATTTAGATTAAAATTATTATTATTTTCATTTCCGTTAGAGAAAAGGGTATATGGGAGTCATTTGTTTACAAGTAGGGGTATATATGAGCCACTTTTATAACAAGGGGTATATCAGCTCTAAATGACAAAGTTGAGGGCTATATCAGACCCTTTTCCCTTTATAAAAAAAACAAACATATTTCTTGTTTTCCCAACTTATCCTTGATATAATAAATAAAGCGAACGATTTTTTAAAAAGGTCTTTCAACTATAAAGGAAAGATAAAGGACAATGTAGTCAAAATGACCCTTTAATTTTATTAAGGGAATCAATTTGATTTCTTAATAGACGTGTCATCATAAAAAAATACTTTAAAATGATGGAAAGGAGTAATAAGGTAAGCATTCAACTCGCGATACGGAATTACTACTTTGTAATTTGTTGATTAATTTGCAGATTGGAGGATGGAGTCAATCATTTGGAGGGGTTAGAGAAGGCAAAAATGTAACATATTTAACATTTGCTACGATTAGGGGTGCGGCTCATGAAGTGCCTTATACTTCTCCTTCACAAGCTCTTACTCTTTTCAGAACATTTCTAAAAGGACAATCTCCATCGCGAAAGAATAACACCATTCGAGCCAAGAAGTTGCATAGCTCTATCGACCTCTTTTCAACTGCAATTTAGATGTTTAATTTGTTATCTTTGTTGTATACTTTTCTTTTTTAAATTGTGAGTTTGAAAAATTTAAA</genome_strand>
        <mrna_strand>GTGATACAGATACAGGCGATCTGCTCGCGCCAATATGTGTATCTTCTGGTGTAGCAGGACAATTAGGAGTCCTTGGAAAACTTGCCTCAATACATGAAAAG.........................................................................GACGTGAGAGAAATTGGCGATCCATGCCTTACTGATAGGATATATATGTATCTTAACAAGCCAGAAGTTCAAAAGGCATTACATGCCAACACTACTCACTTGCCATATGCCTGGGATTTTTGTTTAGG..................................................................................................................................GCACCTTCAGTATCAAAGAGGTGATTTAGCTATAAATGTTATACCTCTATTGTCAAATATTCTAAAAGAGAATATACAAGTTCTGCTTTACAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGGAGACCAAGATACAAAAATCCCACTGACCCAAACTAGGAAAATTGCTAAACTACTTGCTAGAGATTTAAAGCTAGTTGCTTTAGATAAATATGGTCCCTGGTATGATGGCTTGCAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGATGGAGTCAATCATTTGGAGGGGTTAGAGAAGGCAAAAATGTAACATATTTAACATTTGCTACGATTAGGGGTGCGGCTCATGAAGTGCCTTATACTTCTCCTTCACAAGCTCTTACTCTTTTCAGAACATTTCTAAAAGGACAATCTCCATCGCGAAAGAATAACACCATTCGAGCCAAGAAGTTGCATAGCTCTATCGACCTCTTTTCAACTGCAATTTAGATGTTTAATTTGTTATCTTTGTTGTATACTTTTCTTTTTTAAATTGTGAG-TTGAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E243215" ref_strand="+" ref_description="SGN-E243215 [cLEE-2-E2]">
      <seq>ttattgtagatgaccaattttttcttcgaatacgaaattaaattacaatacacacaaaaaaaatatttgaattttttttatttaaactaaggaatgaaagaaaaaaacaaaataagaataagaaactcaaattattataataaaagaagtcaaaaaataatttttgtatgaaaaaattaaaatataccttgaactttgatagaagaatcatatatatccctaaatattttttttaaaaaaaaattagaagtaacaaatataaatttaaaactaattttttaactttcgttaaatgaagggtatatgtgagccattttctaacggcaggggtatatgtgagccgtttgtataacgataagggcatatatgaaccacttttattacgagggatatatcagctctaaatgacaaagttgagaggtatatcagacccttttccctattttttaaaatttcatac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="-" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="54615" stop="53562"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="54315" g_stop="53872" g_length="444"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="444" r_length="444" r_score="0.917"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="-" ref_id="SGN-E243215" ref_strand="+">
        <total_alignment_score>0.917</total_alignment_score>
        <cumulative_length_of_scored_exons>444</cumulative_length_of_scored_exons>
        <coverage percentage="0.965" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E243215" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="54315" e_stop="53872"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATTGTAGATGATCAAATTTTTTCTTCGAAAACGAAATTAAATTACAATACACACAAAAAAAATAGTTTAATTTTTTATTCTTTAAACTAAGGAATGAAAG-AAAAAACAAAATAAGAATAAGAAATTCAAATAATTATAATAAAAGAAGTCAAAAAATAATTTATGTATGAAAAAAGTTAAAATATACCTTGAACTTTGATAGAAGAATCATATATACCCCTAAATA-ATTTTTT-AAAAAAAATTAGAAGTAATAAATATAAATTTAAAACTAATTTTTTTAAATTTGTTAAATGAAGGGTATATGTGAGCCATTTTGTAACGGCAGGGGTATATGTGAGCCGTTTGTATAACGGTAAGGGCATATATGAGTCACTTTTATAACGAGAGGTATATCAGCTCCAAATAACAAAATTGAGGGGTATATCAGACCCTTTTCTCTTTT</genome_strand>
        <mrna_strand>TTATTGTAGATGA-CCAATTTTTTCTTCGAATACGAAATTAAATTACAATACACACAAAAAAAATATTTGAATTTTTT-TTATTTAAACTAAGGAATGAAAGAAAAAAACAAAATAAGAATAAGAAACTCAAATTATTATAATAAAAGAAGTCAAAAAATAATTTTTGTATGAAAAAA-TTAAAATATACCTTGAACTTTGATAGAAGAATCATATATATCCCTAAATATTTTTTTTAAAAAAAAATTAGAAGTAACAAATATAAATTTAAAACTAATTTTTTAACTTTCGTTAAATGAAGGGTATATGTGAGCCATTTTCTAACGGCAGGGGTATATGTGAGCCGTTTGTATAACGATAAGGGCATATATGAACCACTTTTATTACGAGGGATATATCAGCTCTAAATGACAAAGTTGAGAGGTATATCAGACCCTTTTCCCTATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E318593" ref_strand="-" ref_description="SGN-E318593 [cTOB-9-E12]">
      <seq>atacttctccttcacaagctcttactcttttcagaacatttctaaaaggacaatctccatcgcgaaagaataacaccattcgagccaagaagttgcatagctctatcgacctcttttcaactgcaatttagatgtttaatttgttatctttgttgaaaacttttcttttttaaattgtgagtttgaaaaatttaaagctaaattactttatagaaatgtgtagttttcaactcgactaatgaagaaataatgtcatgtaaaataagattctcaaagagggtggtttgtcccaaatgtaactagccgaatgagtattaccaccaagcgttaatgtagtagtcctctacttagtgcggactgcaggacagttccatttaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="54707" stop="55683"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="55007" g_stop="55382" g_length="376"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="376" r_length="376" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="377" polyA_stop="401"/>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E318593" ref_strand="-">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>376</cumulative_length_of_scored_exons>
        <coverage percentage="0.938" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E318593" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="55007" e_stop="55382"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATACTTCTCCTTCACAAGCTCTTACTCTTTTCAGAACATTTCTAAAAGGACAATCTCCATCGCGAAAGAATAACACCATTCGAGCCAAGAAGTTGCATAGCTCTATCGACCTCTTTTCAACTGCAATTTAGATGTTTAATTTGTTATCTTTGTTGTATACTTTTCTTTTTTAAATTGTGAGTTTGAAAAATTTAAAGCTAAATTACTTTATAGAAATGTGTAGTTTTCAACTCGACTAATGAAGAAATAATGTCATGTAAAATAAGATTCTCAAAGAGGGTGGTTTGTCACAAATGTAACTAGACGAATGAGTATTACCACCAAGCGTTAATGTAGTAGTCCTCTACTTAGTGCGGACTGCAGGACAGTTCCATTT</genome_strand>
        <mrna_strand>ATACTTCTCCTTCACAAGCTCTTACTCTTTTCAGAACATTTCTAAAAGGACAATCTCCATCGCGAAAGAATAACACCATTCGAGCCAAGAAGTTGCATAGCTCTATCGACCTCTTTTCAACTGCAATTTAGATGTTTAATTTGTTATCTTTGTTGAAAACTTTTCTTTTTTAAATTGTGAGTTTGAAAAATTTAAAGCTAAATTACTTTATAGAAATGTGTAGTTTTCAACTCGACTAATGAAGAAATAATGTCATGTAAAATAAGATTCTCAAAGAGGGTGGTTTGTCCCAAATGTAACTAGCCGAATGAGTATTACCACCAAGCGTTAATGTAGTAGTCCTCTACTTAGTGCGGACTGCAGGACAGTTCCATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727506" ref_strand="+" ref_description="SGN-E727506 [LA14DF03]">
      <seq>cgatctcactctctatcaagcacaaaaattaaaacctctgcacagcagcctcacaggaatatattcttagagccaggtccccttctctgtgtatattgaagtaaatggcacaagcaaaaattacggaaaatacgtcgaaacttgcaagttatgatgcttattttgaaaaggcccagaaaagaaagaaattgccccgtaatttgcaggaaactttgactgatgcatttgcaaatattccagtttcatccttccctcaagtccctggaggaaaagtaattgaaatagacgccgagacttctataggcgatgctgtcaaaattctttcagaatcgaacatcctctcagttcctgtgaagaatccagtggctaagaatagtttggattggagagaaaggtacttaggtgtccttgattactccgctattgttctttgggtgctggagggtgcggaaacagcagcagctgccatatcagcaagttcggcagcagcagccggagttggagcaggtaccgctggtgctcttggagcactggcattaggtgcaacaggtcctgctgcagttgctggtctaacggttgctgcagtcggtgcagctgtggcaggtggagtggctgcagatcgaggagcgggaaaggatgctccaactgcggccaataacttgggtgaggatttctacaaggttatccttcaagaagaaccctttaagtcaacaaaggtgagctccatcataaaatcctatcgatgggcaccatttgttccagtagcaatggacagttctatgttgagtgtgttgctgctgttatcaaatataggctgcggaatgtacctgtgatagaaagaggaagtccataccttaagaactttataact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="64542" stop="68329"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="64840" g_stop="64895" g_length="56"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="56" r_length="56" r_score="0.964"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="64896" i_stop="66916" i_length="2021">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.872" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="66917" g_stop="67133" g_length="217"/>
          <reference_exon_boundary r_type="cDNA" r_start="57" r_stop="273" r_length="217" r_score="0.995"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67134" i_stop="67218" i_length="85">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.423" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67219" g_stop="67661" g_length="443"/>
          <reference_exon_boundary r_type="cDNA" r_start="274" r_stop="716" r_length="443" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="67662" i_stop="67873" i_length="212">
            <donor d_prob="0.067" d_score="1.00"/>
            <acceptor a_prob="0.091" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="67874" g_stop="68029" g_length="156"/>
          <reference_exon_boundary r_type="cDNA" r_start="717" r_stop="871" r_length="155" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E727506" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>872</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E727506" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="64840" e_stop="64895"/>
          <exon e_start="66917" e_stop="67133"/>
          <exon e_start="67219" e_stop="67661"/>
          <exon e_start="67874" e_stop="68029"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACATCTCACTCTCTATCAAGCACAAAAATTAAAACCTCTGCACAGCAGCCTCACAGGTACCTATATATATACATATATTTTTTTTCTTCAATTTTACACTATCTATTATCATTATTATTATTACTATATCTTATTAGTGTGTGGGTTTAGCAATTGATTAGAATGTTCATAATTAGGTAATTGAATGTGAAAAGAGATCTTTTTTAAAAAAAATTTGATTAGGTTTGGTTTTGGTCCAATATTTTGAGAAATTGATATACGGAATTGAATACTCTTGATTGGGAAGTAGAAAAGGTGATAAATACTCTTAAATGTTTTGAGCTGTTTTGGGGAAAACTAATATCACACTGAGGGAGGAGTTTACAGGCTAAAAAGGGGCACGTAAAATTAGATATTTTATGTAAATATTTTTTGTATTGACACCTATCCGAAGGCTAAATAGTGCAATTGGTTGGATTGTTTAGTTATTTACTTGTGTTTAGTTCTCACTTAATACATGTTTTTTTTTTTAAGTGTATCCATGTTGTACAAATTCTAGCTTCGCCTATGATTACATTATGTTTGGACAGCATCACACCATCTTTTTGGACTGTTTTAGCCCAATATTATACTACCTGGTTATAATTATTTTTCATGAAAGCATGTATATTAGATGTCGAATTCTTTGTGCTAGTTCGTGTGTTCAAGTTTTCAAATTTTGAACCTCTTCGACATATGTTCTTCCCCTATGGCTTTTTGCAAGGACAGTCCAATAAAATTCTTCTCTAGTGTAACTCTCACTTACTCATTGTGGTTGCGTTTAGCGCGGCTTTCAAATCTATACATAGCTAATTAAGCAAGTAATGTGTTGATCAACGTACTCTGATTAAACTCTGCATAAATTGTTGCAACTGTCCTATTTATGATTTTGTTCCGACTTTTGCTGGGGGGAGGAGCTTCTCAGGAACAGAGTTTCTGATACCCTATTCACAATATAAACATAATTACAGAGTTATTATGATGCTTATTTTTGAGATGGTACTGAGCAGAAAGAGATTTTATTGTTACCATTAGTTTCAATCTTTCATTATTATTCTTAAGTGGAAATACAAAGTTACAGACATTTGTAATAAGAACTAATGAGTCACTGAATCCTTCAATCGAGTGTAGGCATAAGTTTGTAGCAATGATGTTTTCCTATCAATTCTTGTCATAGAAAGTTACTCGACTTTCATTTTCAATTCAAAAAGTCACTTAACTATGACTTCTTTGCACAGAAAGTCACTCAAATTATTTATTGTTTAAAATTTGCTGACATGAAATTTTAATTATTAACTAAAAATTTAAGAACCAAATATATATCCATTTAAACCATTTAATGACCCACCCGATTTACCCGGAGCCACTGAAATATAATACTGAACTTTTTATTTTGCCATTAATTCCCTGATGATTCTCCCTTTGTCTCCCCATCCTTTCCCTTTACGTTCTTCTCTTGTTTTTTTTTTCTTTCTAAATTTGTCAATTTAGTGGTTATTGAATACATGCACATTATCACAAATTTTGCATTGGGGCACATTTAATAGTCGAGGTTTGCTAGTGACACACCAACTGGATATAGAAATGTTTTATTCAAACTCCGTTCTCGCAAGTCCCACCATATCCCATTCGCTTTCAAATTTCTTAGATTTTTTTTCAAATCCCCTATTTTTCTCATACTCAATTTACTACTACAACTGCTACTGCGAATTTTTCATAGAACAGAAAAGCACAAAATGAAAGGTTAAATGAGGCAAGTAATTAAATGGTTTAAATGGATATATATTTAGTTCTTAAATTTTTGGTTAATAATTAAAATTCTATGTCAGCAAATTTAAAGAAAAAAATAATAAAATAGCTTGAGTGATTTTTTGTGCAAAGAAGTCATAGTTAAGTGACTTTTGAGTTTAAAATGAAAGTTGAGTGACTTTCTATGAAAAGAATTGATAGTTGAGTGACCATCAAAGTTATTAACTCAATTTGATGGTCAGAGATTCTACCGACTATCACTATCTTCTTTAAAGTTTATGGATCTGATTGTTGTCATGGTGCTTCTCAGGAATATATTCTTAGAGCCAGGTCCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCATTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAGGTATATAAAATATACAAGTTTTCTCGTGATTATGTTTTTGATATCCAATGTTGTATCCTAAACGGCTACGTATACCTCATTCCAGTAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCAGCTGTGGCAGGTGGAGTGGCTGCAGATCGAGGAGCGGGAAAGGATGCTCCAACTGCGGCCAATAACTTGGGTGAGGATTTCTACAAGGTTATCCTTCAAGAAGAACCCTTTAAGTCAACAAAGGTGGGCATGCCTTCTAAAGGATTGAATTGATTGATTAAGAGAGACTTTACCCTTCTTATTTAGGGTGCTTATGTCTAAATTATTTGCAGCTGCTTCGCGTCTTTAGTACTCTTTAACATGAAAAATAATGATCATATCAAAGCGCTATTACAGATATATTCAGAGAATTTGACATGAATACACATGACAAGGTCAAGTAATTACATTCGCAGGTGAGCTCCATCATAAAATCCTATCGATGGGCACCATTTGTTCCAGTAGCAATGGACAGTTCTATGTTGAGTGTGTTGCTGCTGTTATCAAAATATAGGCTGCGGAATGTACCTGTGATAGAAAGAGGAAGTCCATACCTTAAGAACTTTATAACT</genome_strand>
        <mrna_strand>CGATCTCACTCTCTATCAAGCACAAAAATTAAAACCTCTGCACAGCAGCCTCACAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAATATATTCTTAGAGCCAGGTCCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCAGTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAG.....................................................................................TAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCAGCTGTGGCAGGTGGAGTGGCTGCAGATCGAGGAGCGGGAAAGGATGCTCCAACTGCGGCCAATAACTTGGGTGAGGATTTCTACAAGGTTATCCTTCAAGAAGAACCCTTTAAGTCAACAAAG....................................................................................................................................................................................................................GTGAGCTCCATCATAAAATCCTATCGATGGGCACCATTTGTTCCAGTAGCAATGGACAGTTCTATGTTGAGTGTGTTGCTGCTGTTATC-AAATATAGGCTGCGGAATGTACCTGTGATAGAAAGAGGAAGTCCATACCTTAAGAACTTTATAACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726117" ref_strand="+" ref_description="SGN-E726117 [LA10BE04]">
      <seq>atctcactctctatcaagcacaaaaattaaaacctctgcacagcagcctcacaggaatatattcttagagccaggtccccttctctgtgtatattgaagtaaatggcacaagcaaaaattacggaaaatacgtcgaaacttgcaagttatgatgcttattttgaaaaggcccagaaaagaaagaaattgccccgtaatttgcaggaaactttgactgatgcatttgcaaatattccagtttcatccttccctcaagtccctggaggaaaagtaattgaaatagacgccgagacttctataggcgatgctgtcaaaattctttcagaatcgaacatcctctcagttcctgtgaagaatccagtggctaagaatagtttggattggagagaaaggtacttaggtgtccttgattactccgctattgttctttgggtgctggagggtgcggaaacagcagcagctgccatatcagcaagttcggcagcagcagccgcagtggnagcaggtaccgctggtgctcttggagcactggcattagg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="64542" stop="67786"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="64842" g_stop="64895" g_length="54"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="54" r_length="54" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="64896" i_stop="66916" i_length="2021">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.872" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="66917" g_stop="67133" g_length="217"/>
          <reference_exon_boundary r_type="cDNA" r_start="55" r_stop="271" r_length="217" r_score="0.995"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67134" i_stop="67218" i_length="85">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.423" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67219" g_stop="67486" g_length="268"/>
          <reference_exon_boundary r_type="cDNA" r_start="272" r_stop="539" r_length="268" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E726117" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>539</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E726117" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="64842" e_stop="64895"/>
          <exon e_start="66917" e_stop="67133"/>
          <exon e_start="67219" e_stop="67486"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCTCACTCTCTATCAAGCACAAAAATTAAAACCTCTGCACAGCAGCCTCACAGGTACCTATATATATACATATATTTTTTTTCTTCAATTTTACACTATCTATTATCATTATTATTATTACTATATCTTATTAGTGTGTGGGTTTAGCAATTGATTAGAATGTTCATAATTAGGTAATTGAATGTGAAAAGAGATCTTTTTTAAAAAAAATTTGATTAGGTTTGGTTTTGGTCCAATATTTTGAGAAATTGATATACGGAATTGAATACTCTTGATTGGGAAGTAGAAAAGGTGATAAATACTCTTAAATGTTTTGAGCTGTTTTGGGGAAAACTAATATCACACTGAGGGAGGAGTTTACAGGCTAAAAAGGGGCACGTAAAATTAGATATTTTATGTAAATATTTTTTGTATTGACACCTATCCGAAGGCTAAATAGTGCAATTGGTTGGATTGTTTAGTTATTTACTTGTGTTTAGTTCTCACTTAATACATGTTTTTTTTTTTAAGTGTATCCATGTTGTACAAATTCTAGCTTCGCCTATGATTACATTATGTTTGGACAGCATCACACCATCTTTTTGGACTGTTTTAGCCCAATATTATACTACCTGGTTATAATTATTTTTCATGAAAGCATGTATATTAGATGTCGAATTCTTTGTGCTAGTTCGTGTGTTCAAGTTTTCAAATTTTGAACCTCTTCGACATATGTTCTTCCCCTATGGCTTTTTGCAAGGACAGTCCAATAAAATTCTTCTCTAGTGTAACTCTCACTTACTCATTGTGGTTGCGTTTAGCGCGGCTTTCAAATCTATACATAGCTAATTAAGCAAGTAATGTGTTGATCAACGTACTCTGATTAAACTCTGCATAAATTGTTGCAACTGTCCTATTTATGATTTTGTTCCGACTTTTGCTGGGGGGAGGAGCTTCTCAGGAACAGAGTTTCTGATACCCTATTCACAATATAAACATAATTACAGAGTTATTATGATGCTTATTTTTGAGATGGTACTGAGCAGAAAGAGATTTTATTGTTACCATTAGTTTCAATCTTTCATTATTATTCTTAAGTGGAAATACAAAGTTACAGACATTTGTAATAAGAACTAATGAGTCACTGAATCCTTCAATCGAGTGTAGGCATAAGTTTGTAGCAATGATGTTTTCCTATCAATTCTTGTCATAGAAAGTTACTCGACTTTCATTTTCAATTCAAAAAGTCACTTAACTATGACTTCTTTGCACAGAAAGTCACTCAAATTATTTATTGTTTAAAATTTGCTGACATGAAATTTTAATTATTAACTAAAAATTTAAGAACCAAATATATATCCATTTAAACCATTTAATGACCCACCCGATTTACCCGGAGCCACTGAAATATAATACTGAACTTTTTATTTTGCCATTAATTCCCTGATGATTCTCCCTTTGTCTCCCCATCCTTTCCCTTTACGTTCTTCTCTTGTTTTTTTTTTCTTTCTAAATTTGTCAATTTAGTGGTTATTGAATACATGCACATTATCACAAATTTTGCATTGGGGCACATTTAATAGTCGAGGTTTGCTAGTGACACACCAACTGGATATAGAAATGTTTTATTCAAACTCCGTTCTCGCAAGTCCCACCATATCCCATTCGCTTTCAAATTTCTTAGATTTTTTTTCAAATCCCCTATTTTTCTCATACTCAATTTACTACTACAACTGCTACTGCGAATTTTTCATAGAACAGAAAAGCACAAAATGAAAGGTTAAATGAGGCAAGTAATTAAATGGTTTAAATGGATATATATTTAGTTCTTAAATTTTTGGTTAATAATTAAAATTCTATGTCAGCAAATTTAAAGAAAAAAATAATAAAATAGCTTGAGTGATTTTTTGTGCAAAGAAGTCATAGTTAAGTGACTTTTGAGTTTAAAATGAAAGTTGAGTGACTTTCTATGAAAAGAATTGATAGTTGAGTGACCATCAAAGTTATTAACTCAATTTGATGGTCAGAGATTCTACCGACTATCACTATCTTCTTTAAAGTTTATGGATCTGATTGTTGTCATGGTGCTTCTCAGGAATATATTCTTAGAGCCAGGTCCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCATTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAGGTATATAAAATATACAAGTTTTCTCGTGATTATGTTTTTGATATCCAATGTTGTATCCTAAACGGCTACGTATACCTCATTCCAGTAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGG</genome_strand>
        <mrna_strand>ATCTCACTCTCTATCAAGCACAAAAATTAAAACCTCTGCACAGCAGCCTCACAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAATATATTCTTAGAGCCAGGTCCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCAGTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAG.....................................................................................TAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGCAGTGGNAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E698768" ref_strand="+" ref_description="SGN-E698768 [FA07CB05]">
      <seq>cccctttctctagcacaaaaattaaaacctctgcacagcagcctcataggaatatattcttagagccaggtccccttctctgtgtatattgaagtaaatggcacaagcaaaaattacggaaaatacgtcgaaacttgcaagttatgatgcttattttgaaaaggcccagaaaagaaagaaattgccccgtaatttgcaggaaactttgactgatgcatttgcaaatattccagtttcatccttccctcaagtccctggaggaaaagtaattgaaatagacgccgagacttctataggcgatgctgtcaaaattctttcagaatcgaacatcctctcagttcctgtgaagaatccagtggctaagaatagtttggattggagagaaaggtacttaggtgtccttgattactccgctattgttctttgggtgctggagggtgcggaaacagcagcagctgccatatcaccaagttcggcagcagccagccggagttggagcaggtaccgctggtgctcttggagcactggcattaggtgcaacaggtcctgctgcagttgctggtctaacggttgctgcagtcggtgcacctgtggcaggtggagtggctgcagatccaggagcgggaaaggatgctcccactgccgccaataactt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="64548" stop="67906"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="64847" g_stop="64895" g_length="49"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="49" r_length="49" r_score="0.878"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="64896" i_stop="66916" i_length="2021">
            <donor d_prob="1.000" d_score="0.88"/>
            <acceptor a_prob="0.872" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="66917" g_stop="67133" g_length="217"/>
          <reference_exon_boundary r_type="cDNA" r_start="50" r_stop="266" r_length="217" r_score="0.995"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67134" i_stop="67218" i_length="85">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.423" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67219" g_stop="67606" g_length="388"/>
          <reference_exon_boundary r_type="cDNA" r_start="267" r_stop="655" r_length="389" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E698768" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>654</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E698768" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="64847" e_stop="64895"/>
          <exon e_start="66917" e_stop="67133"/>
          <exon e_start="67219" e_stop="67606"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTCTCTATCAAGCACAAAAATTAAAACCTCTGCACAGCAGCCTCACAGGTACCTATATATATACATATATTTTTTTTCTTCAATTTTACACTATCTATTATCATTATTATTATTACTATATCTTATTAGTGTGTGGGTTTAGCAATTGATTAGAATGTTCATAATTAGGTAATTGAATGTGAAAAGAGATCTTTTTTAAAAAAAATTTGATTAGGTTTGGTTTTGGTCCAATATTTTGAGAAATTGATATACGGAATTGAATACTCTTGATTGGGAAGTAGAAAAGGTGATAAATACTCTTAAATGTTTTGAGCTGTTTTGGGGAAAACTAATATCACACTGAGGGAGGAGTTTACAGGCTAAAAAGGGGCACGTAAAATTAGATATTTTATGTAAATATTTTTTGTATTGACACCTATCCGAAGGCTAAATAGTGCAATTGGTTGGATTGTTTAGTTATTTACTTGTGTTTAGTTCTCACTTAATACATGTTTTTTTTTTTAAGTGTATCCATGTTGTACAAATTCTAGCTTCGCCTATGATTACATTATGTTTGGACAGCATCACACCATCTTTTTGGACTGTTTTAGCCCAATATTATACTACCTGGTTATAATTATTTTTCATGAAAGCATGTATATTAGATGTCGAATTCTTTGTGCTAGTTCGTGTGTTCAAGTTTTCAAATTTTGAACCTCTTCGACATATGTTCTTCCCCTATGGCTTTTTGCAAGGACAGTCCAATAAAATTCTTCTCTAGTGTAACTCTCACTTACTCATTGTGGTTGCGTTTAGCGCGGCTTTCAAATCTATACATAGCTAATTAAGCAAGTAATGTGTTGATCAACGTACTCTGATTAAACTCTGCATAAATTGTTGCAACTGTCCTATTTATGATTTTGTTCCGACTTTTGCTGGGGGGAGGAGCTTCTCAGGAACAGAGTTTCTGATACCCTATTCACAATATAAACATAATTACAGAGTTATTATGATGCTTATTTTTGAGATGGTACTGAGCAGAAAGAGATTTTATTGTTACCATTAGTTTCAATCTTTCATTATTATTCTTAAGTGGAAATACAAAGTTACAGACATTTGTAATAAGAACTAATGAGTCACTGAATCCTTCAATCGAGTGTAGGCATAAGTTTGTAGCAATGATGTTTTCCTATCAATTCTTGTCATAGAAAGTTACTCGACTTTCATTTTCAATTCAAAAAGTCACTTAACTATGACTTCTTTGCACAGAAAGTCACTCAAATTATTTATTGTTTAAAATTTGCTGACATGAAATTTTAATTATTAACTAAAAATTTAAGAACCAAATATATATCCATTTAAACCATTTAATGACCCACCCGATTTACCCGGAGCCACTGAAATATAATACTGAACTTTTTATTTTGCCATTAATTCCCTGATGATTCTCCCTTTGTCTCCCCATCCTTTCCCTTTACGTTCTTCTCTTGTTTTTTTTTTCTTTCTAAATTTGTCAATTTAGTGGTTATTGAATACATGCACATTATCACAAATTTTGCATTGGGGCACATTTAATAGTCGAGGTTTGCTAGTGACACACCAACTGGATATAGAAATGTTTTATTCAAACTCCGTTCTCGCAAGTCCCACCATATCCCATTCGCTTTCAAATTTCTTAGATTTTTTTTCAAATCCCCTATTTTTCTCATACTCAATTTACTACTACAACTGCTACTGCGAATTTTTCATAGAACAGAAAAGCACAAAATGAAAGGTTAAATGAGGCAAGTAATTAAATGGTTTAAATGGATATATATTTAGTTCTTAAATTTTTGGTTAATAATTAAAATTCTATGTCAGCAAATTTAAAGAAAAAAATAATAAAATAGCTTGAGTGATTTTTTGTGCAAAGAAGTCATAGTTAAGTGACTTTTGAGTTTAAAATGAAAGTTGAGTGACTTTCTATGAAAAGAATTGATAGTTGAGTGACCATCAAAGTTATTAACTCAATTTGATGGTCAGAGATTCTACCGACTATCACTATCTTCTTTAAAGTTTATGGATCTGATTGTTGTCATGGTGCTTCTCAGGAATATATTCTTAGAGCCAGGTCCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCATTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAGGTATATAAAATATACAAGTTTTCTCGTGATTATGTTTTTGATATCCAATGTTGTATCCTAAACGGCTACGTATACCTCATTCCAGTAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAG-CAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCAGCTGTGGCAGGTGGAGTGGCTGCAGATCGAGGAGCGGGAAAGGATGCTCCAACTGCGGCCAATAACTT</genome_strand>
        <mrna_strand>CCCCTTTCTCTAGCACAAAAATTAAAACCTCTGCACAGCAGCCTCATAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAATATATTCTTAGAGCCAGGTCCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCAGTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAG.....................................................................................TAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCACCAAGTTCGGCAGCAGCCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCACCTGTGGCAGGTGGAGTGGCTGCAGATCCAGGAGCGGGAAAGGATGCTCCCACTGCCGCCAATAACTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297535" ref_strand="+" ref_description="SGN-E297535 [cLET-28-J18]">
      <seq>aaaaattaaaacctctgcacagcagcctcacaggaatatattcttagagccaggtccccttctctgtgtatattgaagtaaatggcacaagcaaaaattacggaaaatacgtcgaaacttgcaagttatgatgcttattttgaaaaggcccagaaaagaaagaaattgccccgtaatttgcaggaaactttgactgatgcatttgcaaatattccagtttcatccttccctcaagtccctggaggaaaagtaattgaaatagacgccgagacttctataggcgatgctgtcaaaattctttcagaatcgaacatcctctcagttcctgtgaagaatccagtggctaagaatagtttggattggagagaaaggtacttaggtgtccttgattactccgctattgttctttgggtgctggagggtgcggaaacagcagcagctgccatatcagcaagttcggcagcagcagccggagttggagcaggtaccgctggtgctcttggagcactggcattaggtgcaacaggtcctgctgcagttgctggtctaacggttgctgcagtcggtgcagctgtggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="64563" stop="67846"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="64863" g_stop="64895" 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="64896" i_stop="66916" i_length="2021">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="0.872" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="66917" g_stop="67133" g_length="217"/>
          <reference_exon_boundary r_type="cDNA" r_start="34" r_stop="250" r_length="217" r_score="0.995"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67134" i_stop="67218" i_length="85">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.423" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67219" g_stop="67546" g_length="328"/>
          <reference_exon_boundary r_type="cDNA" r_start="251" r_stop="578" r_length="328" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E297535" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>578</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E297535" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="64863" e_stop="64895"/>
          <exon e_start="66917" e_stop="67133"/>
          <exon e_start="67219" e_stop="67546"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAAATTAAAACCTCTGCACAGCAGCCTCACAGGTACCTATATATATACATATATTTTTTTTCTTCAATTTTACACTATCTATTATCATTATTATTATTACTATATCTTATTAGTGTGTGGGTTTAGCAATTGATTAGAATGTTCATAATTAGGTAATTGAATGTGAAAAGAGATCTTTTTTAAAAAAAATTTGATTAGGTTTGGTTTTGGTCCAATATTTTGAGAAATTGATATACGGAATTGAATACTCTTGATTGGGAAGTAGAAAAGGTGATAAATACTCTTAAATGTTTTGAGCTGTTTTGGGGAAAACTAATATCACACTGAGGGAGGAGTTTACAGGCTAAAAAGGGGCACGTAAAATTAGATATTTTATGTAAATATTTTTTGTATTGACACCTATCCGAAGGCTAAATAGTGCAATTGGTTGGATTGTTTAGTTATTTACTTGTGTTTAGTTCTCACTTAATACATGTTTTTTTTTTTAAGTGTATCCATGTTGTACAAATTCTAGCTTCGCCTATGATTACATTATGTTTGGACAGCATCACACCATCTTTTTGGACTGTTTTAGCCCAATATTATACTACCTGGTTATAATTATTTTTCATGAAAGCATGTATATTAGATGTCGAATTCTTTGTGCTAGTTCGTGTGTTCAAGTTTTCAAATTTTGAACCTCTTCGACATATGTTCTTCCCCTATGGCTTTTTGCAAGGACAGTCCAATAAAATTCTTCTCTAGTGTAACTCTCACTTACTCATTGTGGTTGCGTTTAGCGCGGCTTTCAAATCTATACATAGCTAATTAAGCAAGTAATGTGTTGATCAACGTACTCTGATTAAACTCTGCATAAATTGTTGCAACTGTCCTATTTATGATTTTGTTCCGACTTTTGCTGGGGGGAGGAGCTTCTCAGGAACAGAGTTTCTGATACCCTATTCACAATATAAACATAATTACAGAGTTATTATGATGCTTATTTTTGAGATGGTACTGAGCAGAAAGAGATTTTATTGTTACCATTAGTTTCAATCTTTCATTATTATTCTTAAGTGGAAATACAAAGTTACAGACATTTGTAATAAGAACTAATGAGTCACTGAATCCTTCAATCGAGTGTAGGCATAAGTTTGTAGCAATGATGTTTTCCTATCAATTCTTGTCATAGAAAGTTACTCGACTTTCATTTTCAATTCAAAAAGTCACTTAACTATGACTTCTTTGCACAGAAAGTCACTCAAATTATTTATTGTTTAAAATTTGCTGACATGAAATTTTAATTATTAACTAAAAATTTAAGAACCAAATATATATCCATTTAAACCATTTAATGACCCACCCGATTTACCCGGAGCCACTGAAATATAATACTGAACTTTTTATTTTGCCATTAATTCCCTGATGATTCTCCCTTTGTCTCCCCATCCTTTCCCTTTACGTTCTTCTCTTGTTTTTTTTTTCTTTCTAAATTTGTCAATTTAGTGGTTATTGAATACATGCACATTATCACAAATTTTGCATTGGGGCACATTTAATAGTCGAGGTTTGCTAGTGACACACCAACTGGATATAGAAATGTTTTATTCAAACTCCGTTCTCGCAAGTCCCACCATATCCCATTCGCTTTCAAATTTCTTAGATTTTTTTTCAAATCCCCTATTTTTCTCATACTCAATTTACTACTACAACTGCTACTGCGAATTTTTCATAGAACAGAAAAGCACAAAATGAAAGGTTAAATGAGGCAAGTAATTAAATGGTTTAAATGGATATATATTTAGTTCTTAAATTTTTGGTTAATAATTAAAATTCTATGTCAGCAAATTTAAAGAAAAAAATAATAAAATAGCTTGAGTGATTTTTTGTGCAAAGAAGTCATAGTTAAGTGACTTTTGAGTTTAAAATGAAAGTTGAGTGACTTTCTATGAAAAGAATTGATAGTTGAGTGACCATCAAAGTTATTAACTCAATTTGATGGTCAGAGATTCTACCGACTATCACTATCTTCTTTAAAGTTTATGGATCTGATTGTTGTCATGGTGCTTCTCAGGAATATATTCTTAGAGCCAGGTCCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCATTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAGGTATATAAAATATACAAGTTTTCTCGTGATTATGTTTTTGATATCCAATGTTGTATCCTAAACGGCTACGTATACCTCATTCCAGTAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCAGCTGTGGC</genome_strand>
        <mrna_strand>AAAAATTAAAACCTCTGCACAGCAGCCTCACAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAATATATTCTTAGAGCCAGGTCCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCAGTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAG.....................................................................................TAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCAGCTGTGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295904" ref_strand="+" ref_description="SGN-E295904 [cLET-27-I18]">
      <seq>aaaaattaaaacctctgcacagcagcctcacaggaatatattcttagagccaggtccccttctctgtgtatattgaagtaaatggcacaagcaaaaattacggaaaatacgtcgaaacttgcaagttatgatgcttattttgaaaaggcccagaaaagaaagaaattgccccgtaatttgcaggaaactttgactgatgcatttgcaaatattccagtttcatccttccctcaagtccctggaggaaaagtaattgaaatagacgccgagacttctataagcgatgcttgccaaaattttttcagaatcgaacatcctctcagttcctgtgaagaatccagtggctaagaatagtttggattggagagaaaggtacttaggtgtccttgattactccgctattgttctttgggtgctggagggtgcggaaacagcagcagctgccatatcagcaagttcggcagcagcagccggagttggagcaggtaccgctggtgctcttggagcactggcattaggtgca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="64563" stop="67790"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="64863" g_stop="64895" 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="64896" i_stop="66916" i_length="2021">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="0.872" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="66917" g_stop="67133" g_length="217"/>
          <reference_exon_boundary r_type="cDNA" r_start="34" r_stop="250" r_length="217" r_score="0.995"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67134" i_stop="67218" i_length="85">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.423" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67219" g_stop="67490" g_length="272"/>
          <reference_exon_boundary r_type="cDNA" r_start="251" r_stop="523" r_length="273" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E295904" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>522</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E295904" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="64863" e_stop="64895"/>
          <exon e_start="66917" e_stop="67133"/>
          <exon e_start="67219" e_stop="67490"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAAATTAAAACCTCTGCACAGCAGCCTCACAGGTACCTATATATATACATATATTTTTTTTCTTCAATTTTACACTATCTATTATCATTATTATTATTACTATATCTTATTAGTGTGTGGGTTTAGCAATTGATTAGAATGTTCATAATTAGGTAATTGAATGTGAAAAGAGATCTTTTTTAAAAAAAATTTGATTAGGTTTGGTTTTGGTCCAATATTTTGAGAAATTGATATACGGAATTGAATACTCTTGATTGGGAAGTAGAAAAGGTGATAAATACTCTTAAATGTTTTGAGCTGTTTTGGGGAAAACTAATATCACACTGAGGGAGGAGTTTACAGGCTAAAAAGGGGCACGTAAAATTAGATATTTTATGTAAATATTTTTTGTATTGACACCTATCCGAAGGCTAAATAGTGCAATTGGTTGGATTGTTTAGTTATTTACTTGTGTTTAGTTCTCACTTAATACATGTTTTTTTTTTTAAGTGTATCCATGTTGTACAAATTCTAGCTTCGCCTATGATTACATTATGTTTGGACAGCATCACACCATCTTTTTGGACTGTTTTAGCCCAATATTATACTACCTGGTTATAATTATTTTTCATGAAAGCATGTATATTAGATGTCGAATTCTTTGTGCTAGTTCGTGTGTTCAAGTTTTCAAATTTTGAACCTCTTCGACATATGTTCTTCCCCTATGGCTTTTTGCAAGGACAGTCCAATAAAATTCTTCTCTAGTGTAACTCTCACTTACTCATTGTGGTTGCGTTTAGCGCGGCTTTCAAATCTATACATAGCTAATTAAGCAAGTAATGTGTTGATCAACGTACTCTGATTAAACTCTGCATAAATTGTTGCAACTGTCCTATTTATGATTTTGTTCCGACTTTTGCTGGGGGGAGGAGCTTCTCAGGAACAGAGTTTCTGATACCCTATTCACAATATAAACATAATTACAGAGTTATTATGATGCTTATTTTTGAGATGGTACTGAGCAGAAAGAGATTTTATTGTTACCATTAGTTTCAATCTTTCATTATTATTCTTAAGTGGAAATACAAAGTTACAGACATTTGTAATAAGAACTAATGAGTCACTGAATCCTTCAATCGAGTGTAGGCATAAGTTTGTAGCAATGATGTTTTCCTATCAATTCTTGTCATAGAAAGTTACTCGACTTTCATTTTCAATTCAAAAAGTCACTTAACTATGACTTCTTTGCACAGAAAGTCACTCAAATTATTTATTGTTTAAAATTTGCTGACATGAAATTTTAATTATTAACTAAAAATTTAAGAACCAAATATATATCCATTTAAACCATTTAATGACCCACCCGATTTACCCGGAGCCACTGAAATATAATACTGAACTTTTTATTTTGCCATTAATTCCCTGATGATTCTCCCTTTGTCTCCCCATCCTTTCCCTTTACGTTCTTCTCTTGTTTTTTTTTTCTTTCTAAATTTGTCAATTTAGTGGTTATTGAATACATGCACATTATCACAAATTTTGCATTGGGGCACATTTAATAGTCGAGGTTTGCTAGTGACACACCAACTGGATATAGAAATGTTTTATTCAAACTCCGTTCTCGCAAGTCCCACCATATCCCATTCGCTTTCAAATTTCTTAGATTTTTTTTCAAATCCCCTATTTTTCTCATACTCAATTTACTACTACAACTGCTACTGCGAATTTTTCATAGAACAGAAAAGCACAAAATGAAAGGTTAAATGAGGCAAGTAATTAAATGGTTTAAATGGATATATATTTAGTTCTTAAATTTTTGGTTAATAATTAAAATTCTATGTCAGCAAATTTAAAGAAAAAAATAATAAAATAGCTTGAGTGATTTTTTGTGCAAAGAAGTCATAGTTAAGTGACTTTTGAGTTTAAAATGAAAGTTGAGTGACTTTCTATGAAAAGAATTGATAGTTGAGTGACCATCAAAGTTATTAACTCAATTTGATGGTCAGAGATTCTACCGACTATCACTATCTTCTTTAAAGTTTATGGATCTGATTGTTGTCATGGTGCTTCTCAGGAATATATTCTTAGAGCCAGGTCCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCATTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAGGTATATAAAATATACAAGTTTTCTCGTGATTATGTTTTTGATATCCAATGTTGTATCCTAAACGGCTACGTATACCTCATTCCAGTAATTGAAATAGACGCCGAGACTTCTATAGGCGATGC-TGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCA</genome_strand>
        <mrna_strand>AAAAATTAAAACCTCTGCACAGCAGCCTCACAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAATATATTCTTAGAGCCAGGTCCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCAGTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAG.....................................................................................TAATTGAAATAGACGCCGAGACTTCTATAAGCGATGCTTGCCAAAATTTTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E209791" ref_strand="+" ref_description="SGN-E209791 [cLEC-52-N5]">
      <seq>aaacctctgtacagcagcctcacaggaatatattcttagagccaggtccccttctctgtgtatattgaagtaaatggcacaagcaaaaattacggaaaatacgtcgaaacttgcaagttatgatgcttattttgaaaaggcccagaaaagaaagaaattgccccgtaatttgcaggaaactttgactgatgcatttgcaaatattccagtttcatccttccctcaagtccctggaggaaaagtaattgaaatagacgccgagacttctataggcgatgctgtcaaaattctttcagaatcgaacatcctctcagttcctgtgaagaatccagtggctaagaatagtttggattggagagaaaggtacttaggtgtccttgattactccgctattgttctttgggtgctggagggtgcggaaacagcagcagctgccatatcagcaagttcggcagcagcagccggagttggagcaggtaccgctggtgctcttggagcactggcattaggtgcaacaggtcctgctgcagttgctggtctaacggttgctgcagtcggtgcagctgtggcaggtggagtggctgcagatcgaggagcgggaaaggatgctccaactgcggccaataacttgggtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="66599" stop="67911"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="66917" g_stop="67133" g_length="217"/>
          <reference_exon_boundary r_type="cDNA" r_start="26" r_stop="242" r_length="217" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67134" i_stop="67218" i_length="85">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.423" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67219" g_stop="67611" g_length="393"/>
          <reference_exon_boundary r_type="cDNA" r_start="243" r_stop="635" r_length="393" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E209791" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>610</cumulative_length_of_scored_exons>
        <coverage percentage="0.961" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E209791" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="66917" e_stop="67133"/>
          <exon e_start="67219" e_stop="67611"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAATATATTCTTAGAGCCAGGTCCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCATTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAGGTATATAAAATATACAAGTTTTCTCGTGATTATGTTTTTGATATCCAATGTTGTATCCTAAACGGCTACGTATACCTCATTCCAGTAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCAGCTGTGGCAGGTGGAGTGGCTGCAGATCGAGGAGCGGGAAAGGATGCTCCAACTGCGGCCAATAACTTGGGTG</genome_strand>
        <mrna_strand>GAATATATTCTTAGAGCCAGGTCCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCAGTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAG.....................................................................................TAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCAGCTGTGGCAGGTGGAGTGGCTGCAGATCGAGGAGCGGGAAAGGATGCTCCAACTGCGGCCAATAACTTGGGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E689441" ref_strand="+" ref_description="SGN-E689441 [t3_tus_84_M22]">
      <seq>ttgagccaggtccccttctctgtgtatattgaagtaaatggcacaagcaaaaattacggaaaatacgtcgaaacttgcaagttatgatgcttattttgaaaaggcccagaaaagaaagaaattgccccgtaatttgcaggaaactttgactgatgcatttgcaaatattccagtttcatccttccctcaagtccctggaggaaaagtaattgaaatagacgccgagacttctataggcgatgctgtcaaaattctttcagaatcgaacatcctctcagttcctgtgaagaatccagtggctaagaatagtttggattggagagaaaggtacttaggtgtccttgattactccgctattgttctttgggtgctggagggtgcggaaacagcagcagctgccatatcagcaagttcggcagcagcagccggagttggagcaggtaccgctggtgctcttggagcactggcattaggtgcaacaggtcctgctgcagttgctggtctaacggttgctgcagtcggtgcagctgtggcaggtggagtggctgcagatcgaggagcgggaaaggatgctccaactgcggccaataacttgggtgaggatttctacaaggttatccttcaagaagaaccctttaagtcaacaaaggtgagctccatcataaaatcctatcgatgggcaccatttgttccagtagcaatggacagttctatgttgagtgtgttgctgctgttatcaaaatataggctgcggaatgtacctgtgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="66628" stop="68292"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="66928" g_stop="67133" g_length="206"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="206" r_length="206" r_score="0.990"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67134" i_stop="67218" i_length="85">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.423" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67219" g_stop="67661" g_length="443"/>
          <reference_exon_boundary r_type="cDNA" r_start="207" r_stop="649" r_length="443" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67662" i_stop="67873" i_length="212">
            <donor d_prob="0.067" d_score="1.00"/>
            <acceptor a_prob="0.091" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67874" g_stop="67992" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="650" r_stop="768" r_length="119" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E689441" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>768</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E689441" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="66928" e_stop="67133"/>
          <exon e_start="67219" e_stop="67661"/>
          <exon e_start="67874" e_stop="67992"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAGAGCCAGGTCCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCATTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAGGTATATAAAATATACAAGTTTTCTCGTGATTATGTTTTTGATATCCAATGTTGTATCCTAAACGGCTACGTATACCTCATTCCAGTAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCAGCTGTGGCAGGTGGAGTGGCTGCAGATCGAGGAGCGGGAAAGGATGCTCCAACTGCGGCCAATAACTTGGGTGAGGATTTCTACAAGGTTATCCTTCAAGAAGAACCCTTTAAGTCAACAAAGGTGGGCATGCCTTCTAAAGGATTGAATTGATTGATTAAGAGAGACTTTACCCTTCTTATTTAGGGTGCTTATGTCTAAATTATTTGCAGCTGCTTCGCGTCTTTAGTACTCTTTAACATGAAAAATAATGATCATATCAAAGCGCTATTACAGATATATTCAGAGAATTTGACATGAATACACATGACAAGGTCAAGTAATTACATTCGCAGGTGAGCTCCATCATAAAATCCTATCGATGGGCACCATTTGTTCCAGTAGCAATGGACAGTTCTATGTTGAGTGTGTTGCTGCTGTTATCAAAATATAGGCTGCGGAATGTACCTGTGAT</genome_strand>
        <mrna_strand>TTGAGCCAGGTCCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCAGTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAG.....................................................................................TAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCAGCTGTGGCAGGTGGAGTGGCTGCAGATCGAGGAGCGGGAAAGGATGCTCCAACTGCGGCCAATAACTTGGGTGAGGATTTCTACAAGGTTATCCTTCAAGAAGAACCCTTTAAGTCAACAAAG....................................................................................................................................................................................................................GTGAGCTCCATCATAAAATCCTATCGATGGGCACCATTTGTTCCAGTAGCAATGGACAGTTCTATGTTGAGTGTGTTGCTGCTGTTATCAAAATATAGGCTGCGGAATGTACCTGTGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E333229" ref_strand="+" ref_description="SGN-E333229 [cTOD-20-D7]">
      <seq>agccaggtccccttctctgtgtatattgaagtaaatggcacaagcaaaaattacggaaaatacgtcgaaacttgcaagttatgatgcttattttgaaaaggcccagaaaagaaagaaattgccccgtaatttgcaggaaactttgactgatgcatttgcaaatattccagtttcatccttccctcaagtccctggaggaaaagtaattgaaatagacgccgagacttctataggcgatgctgtcaaaattctttcagaatcgaacatcctctcagttcctgtgaagaatccagtggctaagaatagtttggattggagagaaaggtacttaggtgtccttgattactccgctattgttctttgggtgctggagggtgcggaaacagcagcagctgccatatcagcaagttcggcagcagcagccggagttggagcaggtaccgctggtgctcttggagcactggcattaggtgcaacaggtcctgctgcagttgctggtctaacggttgctgcagtcggtgcagctgtggcaggtggagtggctgcagatcgaggaagcggaaaggatgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="66631" stop="67885"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="66931" g_stop="67133" g_length="203"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="203" r_length="203" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67134" i_stop="67218" i_length="85">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.423" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67219" g_stop="67585" g_length="367"/>
          <reference_exon_boundary r_type="cDNA" r_start="204" r_stop="570" r_length="367" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E333229" ref_strand="+">
        <total_alignment_score>0.993</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="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E333229" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="66931" e_stop="67133"/>
          <exon e_start="67219" e_stop="67585"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCCAGGTCCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCATTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAGGTATATAAAATATACAAGTTTTCTCGTGATTATGTTTTTGATATCCAATGTTGTATCCTAAACGGCTACGTATACCTCATTCCAGTAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCAGCTGTGGCAGGTGGAGTGGCTGCAGATCGAGGAGCGGGAAAGGATGC</genome_strand>
        <mrna_strand>AGCCAGGTCCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCAGTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAG.....................................................................................TAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCAGCTGTGGCAGGTGGAGTGGCTGCAGATCGAGGAAGCGGAAAGGATGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E721313" ref_strand="+" ref_description="SGN-E721313 [FC13BH02]">
      <seq>ccccttctctgtgtatattgaagtaaatgggacaagcaaaaattacggaaaatacgtcgaaacttgcaagttatgatgcttattttgaaaaggcccagaaaagaaagaaattgccccgtaatttgcaggaaactttgactgatgcatttgcaaatattccagtttcatccttccctcaagtccctggaggaaaagtaattgaaatagacgccgagacttctataggcgatgctgtcaaaattctttcagaatcgaacatcctctcagttcctgtgaaaaacccagtggctaaaaatagtttgaattggagagaaaggtacttaggtgtccttgattactccgctattgttctttgggtgctggagggtgcggaaacagcagcagctgccatatcatcaagttcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="66639" stop="67727"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="66939" g_stop="67133" g_length="195"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="195" r_length="195" r_score="0.990"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67134" i_stop="67218" i_length="85">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.423" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67219" g_stop="67427" g_length="209"/>
          <reference_exon_boundary r_type="cDNA" r_start="196" r_stop="404" r_length="209" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E721313" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>404</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E721313" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="66939" e_stop="67133"/>
          <exon e_start="67219" e_stop="67427"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCATTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAGGTATATAAAATATACAAGTTTTCTCGTGATTATGTTTTTGATATCCAATGTTGTATCCTAAACGGCTACGTATACCTCATTCCAGTAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCG</genome_strand>
        <mrna_strand>CCCCTTCTCTGTGTATATTGAAGTAAATGGGACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCAGTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAG.....................................................................................TAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAAAACCCAGTGGCTAAAAATAGTTTGAATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCATCAAGTTCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E707428" ref_strand="+" ref_description="SGN-E707428 [FA32DH09]">
      <seq>ccctttcggtcaagtccctggaggaaaagtaattgaaatagacgccgagacttctataggcgatgctgtcaaaattctttcagaatcgaacatcctctcagttcctgtgaagaatccagtggctaagaatagtttggattggagagaaaggtacttaggtgtccttgattactccgctattgttctttgggtgctggagggtgcggaaacagcagcagctgccatatcagcaagttcggcagcagcagccggagttggagcaggtaccgctggtgctcttggagcactggcattaggtgcaacaggtcctgctgcagttgctggactgacggttgctgcaatcggtgcagctgtggcaggtggagtggctgcagatcgaggagcgggaaaggatgctccaactgcggccaataacttgggtgaggatttctacaaggttatccttcaagaagaaccctttaagtcaacaaaggtgagctccatcataaaatcctatcgatgggcaccatttgttccagtagcaatggacagatctatgttgagtgtgttgctgctgttatcaaaatataagctgcggaatgtacctgtgatagaaagaggaagtccataccttaagaactttataactcaatcagccgtggtacggggtcttgtaggatgcacagggacggattggcttgactgcatctccgctcaccct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="66807" stop="68401"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67105" g_stop="67133" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="29" r_length="29" r_score="0.828"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67134" i_stop="67218" i_length="85">
            <donor d_prob="0.999" d_score="0.00"/>
            <acceptor a_prob="0.423" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67219" g_stop="67661" g_length="443"/>
          <reference_exon_boundary r_type="cDNA" r_start="30" r_stop="472" r_length="443" r_score="0.993"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="67662" i_stop="67873" i_length="212">
            <donor d_prob="0.067" d_score="1.00"/>
            <acceptor a_prob="0.091" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67874" g_stop="68101" g_length="228"/>
          <reference_exon_boundary r_type="cDNA" r_start="473" r_stop="700" r_length="228" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E707428" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>700</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E707428" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67105" e_stop="67133"/>
          <exon e_start="67219" e_stop="67661"/>
          <exon e_start="67874" e_stop="68101"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCCTTCCCTCAAGTCCCTGGAGGAAAAGGTATATAAAATATACAAGTTTTCTCGTGATTATGTTTTTGATATCCAATGTTGTATCCTAAACGGCTACGTATACCTCATTCCAGTAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCAGCTGTGGCAGGTGGAGTGGCTGCAGATCGAGGAGCGGGAAAGGATGCTCCAACTGCGGCCAATAACTTGGGTGAGGATTTCTACAAGGTTATCCTTCAAGAAGAACCCTTTAAGTCAACAAAGGTGGGCATGCCTTCTAAAGGATTGAATTGATTGATTAAGAGAGACTTTACCCTTCTTATTTAGGGTGCTTATGTCTAAATTATTTGCAGCTGCTTCGCGTCTTTAGTACTCTTTAACATGAAAAATAATGATCATATCAAAGCGCTATTACAGATATATTCAGAGAATTTGACATGAATACACATGACAAGGTCAAGTAATTACATTCGCAGGTGAGCTCCATCATAAAATCCTATCGATGGGCACCATTTGTTCCAGTAGCAATGGACAGTTCTATGTTGAGTGTGTTGCTGCTGTTATCAAAATATAGGCTGCGGAATGTACCTGTGATAGAAAGAGGAAGTCCATACCTTAAGAACTTTATAACTCAATCAGCCGTGGTACGGGGTCTTGTAGGATGCAAAGGGAGGGATTGGTTTGACTGCATCTCCGCTCACCCT</genome_strand>
        <mrna_strand>CCCTTTCGGTCAAGTCCCTGGAGGAAAAG.....................................................................................TAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGACTGACGGTTGCTGCAATCGGTGCAGCTGTGGCAGGTGGAGTGGCTGCAGATCGAGGAGCGGGAAAGGATGCTCCAACTGCGGCCAATAACTTGGGTGAGGATTTCTACAAGGTTATCCTTCAAGAAGAACCCTTTAAGTCAACAAAG....................................................................................................................................................................................................................GTGAGCTCCATCATAAAATCCTATCGATGGGCACCATTTGTTCCAGTAGCAATGGACAGATCTATGTTGAGTGTGTTGCTGCTGTTATCAAAATATAAGCTGCGGAATGTACCTGTGATAGAAAGAGGAAGTCCATACCTTAAGAACTTTATAACTCAATCAGCCGTGGTACGGGGTCTTGTAGGATGCACAGGGACGGATTGGCTTGACTGCATCTCCGCTCACCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E703230" ref_strand="+" ref_description="SGN-E703230 [FA20DG01]">
      <seq>ccgagacttctataggcgatgctgtcaaaattctttcagaatcgaacatcctctcagttcctgtgaagaatccagtggctaagaatagtttggattggagagaaaggtacttacgtgtccttgattactccgctattgttctttgggtgctggagggtgcggaaacagcagcagctgccatatcagcaagttcggcagcagcagccggagttggagcaggtaccgctggtgctcttggagcactggcattaggtgcaacaggtcctgctgcagttgctggtctaacggttgctgcagtcggtgcagctgtggcaggtggagtggctgcagatcgaggagcgggaaaggatgctccaactgcggccaataacttgggtgaggatttctacaaggttatccttcaagaagaaccctttaagtcaacaaaggtgagctccatcataaaatcctatcgatgggcaccatttgttccagtagcaatggacagttctatgttgagtgtgttgctgctgttatcaaaatataggctgcggaatgtacctgtgatagaaagaggaagtccataccttaagaactttataactcaatcagccgtggtacggggtcttgtaggatgcaaagggagggattggtttgactgcatctccgctcaccctatatcagaacttggcctcccatacatgtccgctgacgaggttattagtgtccgagacgatgaactgattctggaagcattcaagaaaatgagagataataatatcggaggtctgccggttgttgaaggatcaaagaagaagatagttggcaatgtaagcata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="66934" stop="68659"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67234" g_stop="67661" g_length="428"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="428" r_length="428" r_score="0.998"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67662" i_stop="67873" i_length="212">
            <donor d_prob="0.067" d_score="1.00"/>
            <acceptor a_prob="0.091" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67874" g_stop="68140" g_length="267"/>
          <reference_exon_boundary r_type="cDNA" r_start="429" r_stop="695" r_length="267" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68141" i_stop="68236" i_length="96">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68237" g_stop="68359" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="696" r_stop="818" r_length="123" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E703230" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>818</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E703230" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67234" e_stop="67661"/>
          <exon e_start="67874" e_stop="68140"/>
          <exon e_start="68237" e_stop="68359"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCAGCTGTGGCAGGTGGAGTGGCTGCAGATCGAGGAGCGGGAAAGGATGCTCCAACTGCGGCCAATAACTTGGGTGAGGATTTCTACAAGGTTATCCTTCAAGAAGAACCCTTTAAGTCAACAAAGGTGGGCATGCCTTCTAAAGGATTGAATTGATTGATTAAGAGAGACTTTACCCTTCTTATTTAGGGTGCTTATGTCTAAATTATTTGCAGCTGCTTCGCGTCTTTAGTACTCTTTAACATGAAAAATAATGATCATATCAAAGCGCTATTACAGATATATTCAGAGAATTTGACATGAATACACATGACAAGGTCAAGTAATTACATTCGCAGGTGAGCTCCATCATAAAATCCTATCGATGGGCACCATTTGTTCCAGTAGCAATGGACAGTTCTATGTTGAGTGTGTTGCTGCTGTTATCAAAATATAGGCTGCGGAATGTACCTGTGATAGAAAGAGGAAGTCCATACCTTAAGAACTTTATAACTCAATCAGCCGTGGTACGGGGTCTTGTAGGATGCAAAGGGAGGGATTGGTTTGACTGCATCTCCGCTCACCCTATATCAGAACTTGGCCTCCCATACATGTCCGCTGACGAGGTCTGTCATTTGTTACATCTGAATACTATGTATTTTTTAATTTTAATAATACAAAAGTTGGTGACTGGAAGTCTTGTCTTTCAATGTGTATGCCAGGTTATTAGTGTCCGAGACGATGAACTGATTCTGGAAGCATTCAAGAAAATGAGAGATAATAATATCGGAGGTCTGCCGGTTGTTGAAGGATCAAAGAAGAAGATAGTTGGCAATGTAAGCATA</genome_strand>
        <mrna_strand>CCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTACGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCAGCTGTGGCAGGTGGAGTGGCTGCAGATCGAGGAGCGGGAAAGGATGCTCCAACTGCGGCCAATAACTTGGGTGAGGATTTCTACAAGGTTATCCTTCAAGAAGAACCCTTTAAGTCAACAAAG....................................................................................................................................................................................................................GTGAGCTCCATCATAAAATCCTATCGATGGGCACCATTTGTTCCAGTAGCAATGGACAGTTCTATGTTGAGTGTGTTGCTGCTGTTATCAAAATATAGGCTGCGGAATGTACCTGTGATAGAAAGAGGAAGTCCATACCTTAAGAACTTTATAACTCAATCAGCCGTGGTACGGGGTCTTGTAGGATGCAAAGGGAGGGATTGGTTTGACTGCATCTCCGCTCACCCTATATCAGAACTTGGCCTCCCATACATGTCCGCTGACGAG................................................................................................GTTATTAGTGTCCGAGACGATGAACTGATTCTGGAAGCATTCAAGAAAATGAGAGATAATAATATCGGAGGTCTGCCGGTTGTTGAAGGATCAAAGAAGAAGATAGTTGGCAATGTAAGCATA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E708292" ref_strand="+" ref_description="SGN-E708292 [FA35BE04]">
      <seq>ccattagcagcagctgccatatcagcaagttcggcagcagcagctggagttggagcaggtaccgctggtgctcttggagcactggcattaggtgcaacaggtcctgctgcagttgctggtctaacggttgctgcagtcggtgcagctgtggcaggtggagtggctgcagatcgaggagcgggaaaggatgctccaactgcggccaataacttgggtgaggatttctacaaggttatccttcaagaagaaccctttaagtcaacaaaggtgagctccatcataaaatcctatcgatgggcaccatttgttccagtagcaatggacagttctatgttgagtgtgttgctgctgttatcaaaatataggctgcggaatgtacctgtgatagaaagaggaagtccataccttaagaactttataactcaatcagccgtggtacggggtcttgtaggatgcaaagggagggattggtttgactgcatctccgctcaccctatatcagaacttggcctcccatacatgtccgctgacgaggttattagtgtccgagacgatgaactgattctggaagcattcaagaaaatgagagataataatatcggaggtctgccggttgttgaaggatcaaagaagaagatagttggcaatgtaagcataagagacatcagattcttgttactcaaacctgaactattctccaatttcaggcagctgacagttgcgggtttcatgaacacagttgcttcggcaacccatgatgccacaaaggcagctacgccaataacatgcaagctcggttcaactctttgtactgtgatagacactctcgcgtccaagttagttcacaggatctatgtgacagctgaggatggcgatgaaattgtgggtgtgatcacactcagagatgtcatttcctgcttcat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="67100" stop="69355"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67395" g_stop="67661" g_length="267"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="267" r_length="267" r_score="0.981"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67662" i_stop="67873" i_length="212">
            <donor d_prob="0.067" d_score="1.00"/>
            <acceptor a_prob="0.091" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67874" g_stop="68140" g_length="267"/>
          <reference_exon_boundary r_type="cDNA" r_start="268" r_stop="534" r_length="267" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68141" i_stop="68236" i_length="96">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68237" g_stop="68409" g_length="173"/>
          <reference_exon_boundary r_type="cDNA" r_start="535" r_stop="707" r_length="173" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="68410" i_stop="68839" i_length="430">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="68840" g_stop="69055" g_length="216"/>
          <reference_exon_boundary r_type="cDNA" r_start="708" r_stop="923" r_length="216" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E708292" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>923</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E708292" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67395" e_stop="67661"/>
          <exon e_start="67874" e_stop="68140"/>
          <exon e_start="68237" e_stop="68409"/>
          <exon e_start="68840" e_stop="69055"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCAGCTGTGGCAGGTGGAGTGGCTGCAGATCGAGGAGCGGGAAAGGATGCTCCAACTGCGGCCAATAACTTGGGTGAGGATTTCTACAAGGTTATCCTTCAAGAAGAACCCTTTAAGTCAACAAAGGTGGGCATGCCTTCTAAAGGATTGAATTGATTGATTAAGAGAGACTTTACCCTTCTTATTTAGGGTGCTTATGTCTAAATTATTTGCAGCTGCTTCGCGTCTTTAGTACTCTTTAACATGAAAAATAATGATCATATCAAAGCGCTATTACAGATATATTCAGAGAATTTGACATGAATACACATGACAAGGTCAAGTAATTACATTCGCAGGTGAGCTCCATCATAAAATCCTATCGATGGGCACCATTTGTTCCAGTAGCAATGGACAGTTCTATGTTGAGTGTGTTGCTGCTGTTATCAAAATATAGGCTGCGGAATGTACCTGTGATAGAAAGAGGAAGTCCATACCTTAAGAACTTTATAACTCAATCAGCCGTGGTACGGGGTCTTGTAGGATGCAAAGGGAGGGATTGGTTTGACTGCATCTCCGCTCACCCTATATCAGAACTTGGCCTCCCATACATGTCCGCTGACGAGGTCTGTCATTTGTTACATCTGAATACTATGTATTTTTTAATTTTAATAATACAAAAGTTGGTGACTGGAAGTCTTGTCTTTCAATGTGTATGCCAGGTTATTAGTGTCCGAGACGATGAACTGATTCTGGAAGCATTCAAGAAAATGAGAGATAATAATATCGGAGGTCTGCCGGTTGTTGAAGGATCAAAGAAGAAGATAGTTGGCAATGTAAGCATAAGAGACATCAGATTCTTGTTACTCAAACCTGAACTATTCTCCAATTTCAGGTATGTGTTCATATAAATTGTTAGTTCTTTGCTGATAATGAGCTGCCGTATTAATTTTTTTAGTCGAATACCTTCCTCTATAATCTTTGGTCTCTCTCTCTTTTCGAGAGAAGATCTTCTATCCACTTGTCTATGAAGAACCTCAAGTCTATCGGGAAAGGATGTTGTGATAACCCCCTTTGTCTAGAACCACAGACGTCCAGCCGTGTCGGAAGACTCACCCTCGACCCCACCATTACTATTTGATTACTTCTACGATAAATAATAAGAGTTTCAATTCTTGGGAAACTTTCTTATGGTTGAAGTTGTGCAAGAAAATCGAACAATGATTAAATGGAAAAGCGATTCTGACTTTTATCATTAGGCTCAGAGATGTTCACCTCTTTTTTTTTTGTGTGTATGTACTAAATTTTGCTCGTTCGAATAACAGGCAGCTGACAGTTGCGGGTTTCATGAACACAGTTGCTTCGGCAACCCATGATGCCACAAAGGCAGCTACGCCAATAACATGCAAGCTCGGTTCAACTCTTTGTACTGTGATAGACACTCTCGCGTCCAAGTTAGTTCACAGGATCTATGTGACAGCTGAGGATGGCGATGAAGTTGTTGGTGTGATCACACTCAGAGATGTCATTTCCTGCTTCAT</genome_strand>
        <mrna_strand>CCATTAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCTGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCAGCTGTGGCAGGTGGAGTGGCTGCAGATCGAGGAGCGGGAAAGGATGCTCCAACTGCGGCCAATAACTTGGGTGAGGATTTCTACAAGGTTATCCTTCAAGAAGAACCCTTTAAGTCAACAAAG....................................................................................................................................................................................................................GTGAGCTCCATCATAAAATCCTATCGATGGGCACCATTTGTTCCAGTAGCAATGGACAGTTCTATGTTGAGTGTGTTGCTGCTGTTATCAAAATATAGGCTGCGGAATGTACCTGTGATAGAAAGAGGAAGTCCATACCTTAAGAACTTTATAACTCAATCAGCCGTGGTACGGGGTCTTGTAGGATGCAAAGGGAGGGATTGGTTTGACTGCATCTCCGCTCACCCTATATCAGAACTTGGCCTCCCATACATGTCCGCTGACGAG................................................................................................GTTATTAGTGTCCGAGACGATGAACTGATTCTGGAAGCATTCAAGAAAATGAGAGATAATAATATCGGAGGTCTGCCGGTTGTTGAAGGATCAAAGAAGAAGATAGTTGGCAATGTAAGCATAAGAGACATCAGATTCTTGTTACTCAAACCTGAACTATTCTCCAATTTCAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................GCAGCTGACAGTTGCGGGTTTCATGAACACAGTTGCTTCGGCAACCCATGATGCCACAAAGGCAGCTACGCCAATAACATGCAAGCTCGGTTCAACTCTTTGTACTGTGATAGACACTCTCGCGTCCAAGTTAGTTCACAGGATCTATGTGACAGCTGAGGATGGCGATGAAATTGTGGGTGTGATCACACTCAGAGATGTCATTTCCTGCTTCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E269793" ref_strand="-" ref_description="SGN-E269793 [cLEM-17-G13]">
      <seq>cattccgcagcttatattttggataacaccagcatcacactcaacatagaactgtccattgttactggaacaaatggtgcccatcgataggattttatgatggagctcacctttgttgacttaaagggttcttcttgaaggataacgttgtagaaatcctcacccaagttattggccgcagttggagcatcctttcccgatcctcgatctgcagccactccacctgccacagctgcaccgactgcagcaaccgttagaccagcaactgcagcaggacctgttgcacctaatgccagtgctccaagagcaccagcggtacctgctccaactcaggctgctgctcccccaacttgctgatatggcagctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="-" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="68282" stop="67105"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67982" g_stop="67872" g_length="111"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="112" r_length="112" r_score="0.946"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="67871" i_stop="67660" i_length="212">
            <donor d_prob="0.953" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="67659" g_stop="67405" g_length="255"/>
          <reference_exon_boundary r_type="cDNA" r_start="113" r_stop="368" r_length="256" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="-" ref_id="SGN-E269793" ref_strand="-">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>366</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E269793" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="67982" e_stop="67872"/>
          <exon e_start="67659" e_stop="67405"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATTCCGCAGCCTATATTTT-GATAACAGCAGCAACACACTCAACATAGAACTGTCCATTGCTACTGGAACAAATGGTGCCCATCGATAGGATTTTATGATGGAGCTCACCTGCGAATGTAATTACTTGACCTTGTCATGTGTATTCATGTCAAATTCTCTGAATATATCTGTAATAGCGCTTTGATATGATCATTATTTTTCATGTTAAAGAGTACTAAAGACGCGAAGCAGCTGCAAATAATTTAGACATAAGCACCCTAAATAAGAAGGGTAAAGTCTCTCTTAATCAATCAATTCAATCCTTTAGAAGGCATGCCCACCTTTGTTGACTTAAAGGGTTCTTCTTGAAGGATAACCTTGTAGAAATCCTCACCCAAGTTATTGGCCGCAGTTGGAGCATCCTTTCCCGCTCCTCGATCTGCAGCCACTCCACCTGCCACAGCTGCACCGACTGCAGCAACCGTTAGACCAGCAACTGCAGCAGGACCTGTTGCACCTAATGCCAGTGCTCCAAGAGCACCAGCGGTACCTGCTCCAACTCCGGCTGCTGCT-GCCGAACTTGCTGATATGGCAGCTG</genome_strand>
        <mrna_strand>CATTCCGCAGCTTATATTTTGGATAACACCAGCATCACACTCAACATAGAACTGTCCATTGTTACTGGAACAAATGGTGCCCATCGATAGGATTTTATGATGGAGCTCACCT....................................................................................................................................................................................................................TTGTTGACTTAAAGGGTTCTTCTTGAAGGATAACGTTGTAGAAATCCTCACCCAAGTTATTGGCCGCAGTTGGAGCATCCTTTCCCGATCCTCGATCTGCAGCCACTCCACCTGCCACAGCTGCACCGACTGCAGCAACCGTTAGACCAGCAACTGCAGCAGGACCTGTTGCACCTAATGCCAGTGCTCCAAGAGCACCAGCGGTACCTGCTCCAACTCAGGCTGCTGCTCCCCCAACTTGCTGATATGGCAGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E251888" ref_strand="+" ref_description="SGN-E251888 [cLEG-14-P18]">
      <seq>aaagaggaagttcataccttaagaactttataactcaatcaggggtggtacggggtcttgtaggatgcaaagggagggattggtttgactgcatctccgctcaccctatatcagaacttggcctcccatacatgtccgctgacgaggttattagtgtccgagacgatgaactgattctggaagcattcaagaaaatgagagataataatatcggacgtctgccggttgttgaaggatcaaagaagaagatagttggcaatgtaagcataagagacatcagattcttgttactcaaacctgaactattctccaatttcaggcagctgacagttgcgggtttcatgaacacagttgcttcggcaacccatgatgccacaaaggcagctacgccaataacatgcaagctcggttcaactctttgtactgtgatagacactctcgcgtccaagttagttcacaggatctatgtgacagctgaggatggcgatgaagttgttggtgtgatcacactcagagatgtcatttcctgcttcatctatgaaccatcgaacttcttcgataactattttggattttctgcacaagaaatgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="67695" stop="69411"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67995" g_stop="68140" g_length="146"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="146" r_length="146" r_score="0.979"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="68141" i_stop="68236" i_length="96">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="68237" g_stop="68409" g_length="173"/>
          <reference_exon_boundary r_type="cDNA" r_start="147" r_stop="319" r_length="173" r_score="0.994"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68410" i_stop="68839" i_length="430">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68840" g_stop="69111" g_length="272"/>
          <reference_exon_boundary r_type="cDNA" r_start="320" r_stop="591" r_length="272" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E251888" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>591</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E251888" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67995" e_stop="68140"/>
          <exon e_start="68237" e_stop="68409"/>
          <exon e_start="68840" e_stop="69111"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGAGGAAGTCCATACCTTAAGAACTTTATAACTCAATCAGCCGTGGTACGGGGTCTTGTAGGATGCAAAGGGAGGGATTGGTTTGACTGCATCTCCGCTCACCCTATATCAGAACTTGGCCTCCCATACATGTCCGCTGACGAGGTCTGTCATTTGTTACATCTGAATACTATGTATTTTTTAATTTTAATAATACAAAAGTTGGTGACTGGAAGTCTTGTCTTTCAATGTGTATGCCAGGTTATTAGTGTCCGAGACGATGAACTGATTCTGGAAGCATTCAAGAAAATGAGAGATAATAATATCGGAGGTCTGCCGGTTGTTGAAGGATCAAAGAAGAAGATAGTTGGCAATGTAAGCATAAGAGACATCAGATTCTTGTTACTCAAACCTGAACTATTCTCCAATTTCAGGTATGTGTTCATATAAATTGTTAGTTCTTTGCTGATAATGAGCTGCCGTATTAATTTTTTTAGTCGAATACCTTCCTCTATAATCTTTGGTCTCTCTCTCTTTTCGAGAGAAGATCTTCTATCCACTTGTCTATGAAGAACCTCAAGTCTATCGGGAAAGGATGTTGTGATAACCCCCTTTGTCTAGAACCACAGACGTCCAGCCGTGTCGGAAGACTCACCCTCGACCCCACCATTACTATTTGATTACTTCTACGATAAATAATAAGAGTTTCAATTCTTGGGAAACTTTCTTATGGTTGAAGTTGTGCAAGAAAATCGAACAATGATTAAATGGAAAAGCGATTCTGACTTTTATCATTAGGCTCAGAGATGTTCACCTCTTTTTTTTTTGTGTGTATGTACTAAATTTTGCTCGTTCGAATAACAGGCAGCTGACAGTTGCGGGTTTCATGAACACAGTTGCTTCGGCAACCCATGATGCCACAAAGGCAGCTACGCCAATAACATGCAAGCTCGGTTCAACTCTTTGTACTGTGATAGACACTCTCGCGTCCAAGTTAGTTCACAGGATCTATGTGACAGCTGAGGATGGCGATGAAGTTGTTGGTGTGATCACACTCAGAGATGTCATTTCCTGCTTCATCTATGAACCATCGAACTTCTTCGATAACTATTTTGGATTTTCTGCACAAGAAATGC</genome_strand>
        <mrna_strand>AAAGAGGAAGTTCATACCTTAAGAACTTTATAACTCAATCAGGGGTGGTACGGGGTCTTGTAGGATGCAAAGGGAGGGATTGGTTTGACTGCATCTCCGCTCACCCTATATCAGAACTTGGCCTCCCATACATGTCCGCTGACGAG................................................................................................GTTATTAGTGTCCGAGACGATGAACTGATTCTGGAAGCATTCAAGAAAATGAGAGATAATAATATCGGACGTCTGCCGGTTGTTGAAGGATCAAAGAAGAAGATAGTTGGCAATGTAAGCATAAGAGACATCAGATTCTTGTTACTCAAACCTGAACTATTCTCCAATTTCAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................GCAGCTGACAGTTGCGGGTTTCATGAACACAGTTGCTTCGGCAACCCATGATGCCACAAAGGCAGCTACGCCAATAACATGCAAGCTCGGTTCAACTCTTTGTACTGTGATAGACACTCTCGCGTCCAAGTTAGTTCACAGGATCTATGTGACAGCTGAGGATGGCGATGAAGTTGTTGGTGTGATCACACTCAGAGATGTCATTTCCTGCTTCATCTATGAACCATCGAACTTCTTCGATAACTATTTTGGATTTTCTGCACAAGAAATGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E203362" ref_strand="+" ref_description="SGN-E203362 [cLEB-3-P3](-)">
      <seq>gctggagatggtgcagaaagtaggtgcacacttcccgatggcgtcagaaagtgacccttccaaccaatggcaaagaagtttaggaaagtgacttgcccatataaaaggcactttcctaaacacttttcttcagtttttgcaacttgataaaaacttttcaagaactcttgcaaaggctctacaaagtaaaggcagaattattccaagaacaacagcaatatcttgagcttttcgtctagttgtttaggaatatattctcttgttcttaaactgtaaaccattcctgaatctataaaggatttggtgtgttgtgttaaaagtctaggttgtccaggtgggatagcttagtgggtagattgttttctacttaggcttgttaagcaatagaggactattgcttaacggtaagattcataactctttcttacgtttggtgtaatcgtgttttacttttgcttttgaagattagtgaaaacgattgaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0003D15-wppwW/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0003D15.1" temp_strand="+" temp_description="C01HBa0003D15.1  AC193776.1 htgs_phase:3 submitted_to_sgn_as:100406.C143 sequenced_by:cornell upload_account_name:us 100406.assem.ace.1 (whole contig)">
        <position start="76041" stop="77127"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="76341" g_stop="76826" g_length="486"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="484" r_length="484" r_score="0.949"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="485" polyA_stop="501"/>
      <MATCH_line gen_id="C01HBa0003D15.1" gen_strand="+" ref_id="SGN-E203362" ref_strand="+">
        <total_alignment_score>0.949</total_alignment_score>
        <cumulative_length_of_scored_exons>486</cumulative_length_of_scored_exons>
        <coverage percentage="0.970" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0003D15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E203362" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="76341" e_stop="76826"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGGAGACGGTACAGAAAGTAGGTGCACACTTCCCGATGGCGTCAAAAAGTGTGACTTTTCAGCCAATGGCAAAGAAGTTTAGGAAAGTGCCTTGCTCATATAAAAGGAACTTTCCTAAACATTTTTGTTTAGTTTTTGCAACTTGATAAAAACTTTTCAAGAACTCTTGCAAAGGCTACTACAAAGCAAAGACAGAATTATTCCAAGAACAACAGCAATATCTGGAGCTTTTCGTCTAGTTGTTTAGGAATACATTCTCTTGTTCTTAAATTGTAAACCATTCCTGAATCTATAAAGGAACTGGTGTGTTGTGTTAAAAGTCTAGGTTGTCCAGGTGGGATAGCTTAGTGGGTAGATTGTTTTCTACTTAGGCTTGTTAAGCAATAGAGGACTATTGCTTAATGGTAAGATTGATAACTCTTTCTTACGTTTGGTGTAATCGTGTTTTACTTTTGCTTTTGAAGATTAGTGAAAACGATTGAAA</genome_strand>
        <mrna_strand>GCTGGAGATGGTGCAGAAAGTAGGTGCACACTTCCCGATGGCGTCAGAAAGTG-ACCCTTCCAACCAATGGCAAAGAAGTTTAGGAAAGTGACTTGCCCATATAAAAGGCACTTTCCTAAACACTTTTCTTCAGTTTTTGCAACTTGATAAAAACTTTTCAAGAACTCTTGCAAAGGCT-CTACAAAGTAAAGGCAGAATTATTCCAAGAACAACAGCAATATCTTGAGCTTTTCGTCTAGTTGTTTAGGAATATATTCTCTTGTTCTTAAACTGTAAACCATTCCTGAATCTATAAAGGATTTGGTGTGTTGTGTTAAAAGTCTAGGTTGTCCAGGTGGGATAGCTTAGTGGGTAGATTGTTTTCTACTTAGGCTTGTTAAGCAATAGAGGACTATTGCTTAACGGTAAGATTCATAACTCTTTCTTACGTTTGGTGTAATCGTGTTTTACTTTTGCTTTTGAAGATTAGTGAAAACGATTGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>56</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="7595" PGL_stop="12636"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="7595" e_stop="8243"/>
            <exon e_start="8321" e_stop="8443"/>
            <exon e_start="11262" e_stop="11496"/>
            <exon e_start="12378" e_stop="12636"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.996" acc_prob="0.709" e_score="1.000"/>
          <exon-intron don_prob="0.938" acc_prob="0.988" 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="7595" e_stop="8243" e_length="649"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.998">
            <gDNA_intron_boundary i_start="8244" i_stop="8320" i_length="77"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="8321" e_stop="8443" e_length="123"/>
          </exon>
          <intron i_serial="2" don_prob="0.996" acc_prob="0.709">
            <gDNA_intron_boundary i_start="8444" i_stop="11261" i_length="2818"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="11262" e_stop="11496" e_length="235"/>
          </exon>
          <intron i_serial="3" don_prob="0.938" acc_prob="0.988">
            <gDNA_intron_boundary i_start="11497" i_stop="12377" i_length="881"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="12378" e_stop="12636" e_length="259"/>
          </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="7595" stop="8243"/>
              <exon start="8321" stop="8443"/>
              <exon start="11262" stop="11349"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E720051" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7595" stop="8243"/>
              <exon start="8321" stop="8391"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E721813" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7597" stop="8243"/>
              <exon start="8321" stop="8443"/>
              <exon start="11262" stop="11374"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E720373" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7597" stop="8243"/>
              <exon start="8321" stop="8443"/>
              <exon start="11262" stop="11329"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E722952" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7611" stop="8183"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E706873" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7617" stop="8243"/>
              <exon start="8321" stop="8443"/>
              <exon start="11262" stop="11388"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E702705" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7617" stop="8243"/>
              <exon start="8321" stop="8443"/>
              <exon start="11262" stop="11298"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E706428" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7617" stop="8243"/>
              <exon start="8321" stop="8439"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E708029" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7618" stop="8243"/>
              <exon start="8321" stop="8420"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E729016" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7619" stop="8243"/>
              <exon start="8321" stop="8443"/>
              <exon start="11262" stop="11314"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E699126" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7621" stop="8227"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E718721" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7622" stop="8243"/>
              <exon start="8321" stop="8336"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E214430" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7624" stop="8243"/>
              <exon start="8321" stop="8443"/>
              <exon start="11262" stop="11397"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E704265" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7637" stop="8108"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E697826" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7641" stop="8243"/>
              <exon start="8321" stop="8443"/>
              <exon start="11262" stop="11312"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E538852" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7642" stop="8184"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E278925" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7650" stop="8243"/>
              <exon start="8321" stop="8443"/>
              <exon start="11262" stop="11424"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E707741" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7655" stop="8182"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E268883" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7661" stop="8243"/>
              <exon start="8321" stop="8432"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E309041" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7714" stop="8025"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E721677" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7717" stop="8087"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E201287" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7775" stop="8243"/>
              <exon start="8321" stop="8443"/>
              <exon start="11262" stop="11417"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E708994" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="8006" stop="8243"/>
              <exon start="8321" stop="8443"/>
              <exon start="11262" stop="11439"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E307314" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="8081" stop="8243"/>
              <exon start="8321" stop="8443"/>
              <exon start="11262" stop="11396"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E307386" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="8099" stop="8243"/>
              <exon start="8321" stop="8443"/>
              <exon start="11262" stop="11496"/>
              <exon start="12378" stop="12565"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E347292" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="8132" stop="8243"/>
              <exon start="8321" stop="8443"/>
              <exon start="11262" stop="11496"/>
              <exon start="12378" stop="12591"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E538850" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="8173" stop="8243"/>
              <exon start="8321" stop="8443"/>
              <exon start="11262" stop="11496"/>
              <exon start="12378" stop="12608"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E715344" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="8337" stop="8443"/>
              <exon start="11262" stop="11496"/>
              <exon start="12378" stop="12578"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E397764" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="11294" stop="11496"/>
              <exon start="12378" stop="12636"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E309042" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="11433" stop="11496"/>
              <exon start="12378" stop="12518"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E309038" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="12378" stop="12538"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E220257" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="12433" stop="12591"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E226003" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="12433" stop="12591"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E226099" 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>ATTGTGCTAAAATTTAATAATACTTTATCTATCAATGGAGTATCCTTTTGGCCACCACGGTCACCACCACCACCACCACCGTCGCGACGACGACGACGACCGTCGAGAAGAATTTCCACCTCCCGGCCACCGACCACCCTACGATGAACCACCTCCTCCTCAAGTTGGCCAGGTCTTTCATACTTCTCATGTAGGTGGACCACCACCAATGGAACCTAATTATGACCGGCCTCACTATCCTCCGCCGCCGATGGATGATAATTATGGTCGGACTGAGTATACGCCACCGATGGATGATATTTATGGTCGGACTAACTATCCGCCACCGCCAATGGAGGAGAACTATGGTGGATCTTACAATCGTCCACCGCCGAGATCCGATTACTATGACGCCCCACCACCACCACCTACTTCCGGGTATCCCTCCGTTGAACACGTGTCTCATGAGAGTGAGAGTGGTGATCGGCATCATGATCGTCATCGTTTTCAACCTCATGTGCCTACAGCCTTCCATCATCAAACTTCAGATCCAGAGCTTATGGATAAACCTTCTTTTAGGGTTTATACTAAGGCTGATACTAATTACTCTCTCACCATCCGTGACGGAAAAGTTGTTCTTGCTTCTAATGATCCATCAGATCCATTTCAA : CACTGGTATAAAGATGAGAAGTTCAGTACTAAAGTGAAGGATGAAGAGGGATTTCCAAGCTTTGCTTTGGTTAATAAAGCTTCAGGACTGGCAGTGAAGCACTCTATTGGCGCCTCTCACCCT : GTGCAGCTCACCCCATACAATCCCGACGTTCTTGATGCATCAATCTTATGGACAGAGAGCAGGGATGTGGGTGATGGTTATCGAGCAGTTAGGATGGTCAATAACATTAACCTCAATCTAGATGCATGGAATGCTGATAAAGAGCATGGAGGTGTCCGCGATGGGACCACTGTTTGTCTTTGGGAATGGTGGAAAGGAGACAACAGGAACCAACACTGGAAGATCGTTCGCTTCT : GATATGTTGGCTTGTGAATCATGGCTGGAATTGGGTTGATGCGTGGTATTTTTCTTTCATCATGTGGCTTGTTACCTATGTTGTACTGTATTGTATGTCCCTCCAAAACAGTAAGAAGTAACATTAAAATAAGAGGGGAAATGCTATGTATATTGTGGAGATGTTGGCTACAGCATGTCTGTTCAACTTATATTTATAAAAGCTTGTTTGATGAGTTGTGTTGTTGAATGTATTTTGAATGTCAAAATATATTACTTTC</gDNA_template>
            <first_frame> I  V  L  K  F  N  N  T  L  S  I  N  G  V  S  F  W  P  P  R  S  P  P  P  P  P  P  S  R  R  R  R  R  P  S  R  R  I  S  T  S  R  P  P  T  T  L  R  *  T  T  S  S  S  S  W  P  G  L  S  Y  F  S  C  R  W  T  T  T  N  G  T  *  L  *  P  A  S  L  S  S  A  A  D  G  *  *  L  W  S  D  *  V  Y  A  T  D  G  *  Y  L  W  S  D  *  L  S  A  T  A  N  G  G  E  L  W  W  I  L  Q  S  S  T  A  E  I  R  L  L  *  R  P  T  T  T  T  Y  F  R  V  S  L  R  *  T  R  V  S  *  E  *  E  W  *  S  A  S  *  S  S  S  F  S  T  S  C  A  Y  S  L  P  S  S  N  F  R  S  R  A  Y  G  *  T  F  F  *  G  L  Y  *  G  *  Y  *  L  L  S  H  H  P  *  R  K  S  C  S  C  F  *  *  S  I  R  S  I  S   : T  L  V  *  R  *  E  V  Q  Y  *  S  E  G  *  R  G  I  S  K  L  C  F  G  *  *  S  F  R  T  G  S  E  A  L  Y  W  R  L  S  P   : C  A  A  H  P  I  Q  S  R  R  S  *  C  I  N  L  M  D  R  E  Q  G  C  G  *  W  L  S  S  S  *  D  G  Q  *  H  *  P  Q  S  R  C  M  E  C  *  *  R  A  W  R  C  P  R  W  D  H  C  L  S  L  G  M  V  E  R  R  Q  Q  E  P  T  L  E  D  R  S  L  L :   I  C  W  L  V  N  H  G  W  N  W  V  D  A  W  Y  F  S  F  I  M  W  L  V  T  Y  V  V  L  Y  C  M  S  L  Q  N  S  K  K  *  H  *  N  K  R  G  N  A  M  Y  I  V  E  M  L  A  T  A  C  L  F  N  L  Y  L  *  K  L  V  *  *  V  V  L  L  N  V  F  *  M  S  K  Y  I  T  F </first_frame>
            <second_frame>  L  C  *  N  L  I  I  L  Y  L  S  M  E  Y  P  F  G  H  H  G  H  H  H  H  H  H  R  R  D  D  D  D  D  R  R  E  E  F  P  P  P  G  H  R  P  P  Y  D  E  P  P  P  P  Q  V  G  Q  V  F  H  T  S  H  V  G  G  P  P  P  M  E  P  N  Y  D  R  P  H  Y  P  P  P  P  M  D  D  N  Y  G  R  T  E  Y  T  P  P  M  D  D  I  Y  G  R  T  N  Y  P  P  P  P  M  E  E  N  Y  G  G  S  Y  N  R  P  P  P  R  S  D  Y  Y  D  A  P  P  P  P  P  T  S  G  Y  P  S  V  E  H  V  S  H  E  S  E  S  G  D  R  H  H  D  R  H  R  F  Q  P  H  V  P  T  A  F  H  H  Q  T  S  D  P  E  L  M  D  K  P  S  F  R  V  Y  T  K  A  D  T  N  Y  S  L  T  I  R  D  G  K  V  V  L  A  S  N  D  P  S  D  P  F  Q  :  H  W  Y  K  D  E  K  F  S  T  K  V  K  D  E  E  G  F  P  S  F  A  L  V  N  K  A  S  G  L  A  V  K  H  S  I  G  A  S  H  P  :  V  Q  L  T  P  Y  N  P  D  V  L  D  A  S  I  L  W  T  E  S  R  D  V  G  D  G  Y  R  A  V  R  M  V  N  N  I  N  L  N  L  D  A  W  N  A  D  K  E  H  G  G  V  R  D  G  T  T  V  C  L  W  E  W  W  K  G  D  N  R  N  Q  H  W  K  I  V  R  F   : *  Y  V  G  L  *  I  M  A  G  I  G  L  M  R  G  I  F  L  S  S  C  G  L  L  P  M  L  Y  C  I  V  C  P  S  K  T  V  R  S  N  I  K  I  R  G  E  M  L  C  I  L  W  R  C  W  L  Q  H  V  C  S  T  Y  I  Y  K  S  L  F  D  E  L  C  C  *  M  Y  F  E  C  Q  N  I  L  L   </second_frame>
            <third_frame>   C  A  K  I  *  *  Y  F  I  Y  Q  W  S  I  L  L  A  T  T  V  T  T  T  T  T  T  V  A  T  T  T  T  T  V  E  K  N  F  H  L  P  A  T  D  H  P  T  M  N  H  L  L  L  K  L  A  R  S  F  I  L  L  M  *  V  D  H  H  Q  W  N  L  I  M  T  G  L  T  I  L  R  R  R  W  M  I  I  M  V  G  L  S  I  R  H  R  W  M  I  F  M  V  G  L  T  I  R  H  R  Q  W  R  R  T  M  V  D  L  T  I  V  H  R  R  D  P  I  T  M  T  P  H  H  H  H  L  L  P  G  I  P  P  L  N  T  C  L  M  R  V  R  V  V  I  G  I  M  I  V  I  V  F  N  L  M  C  L  Q  P  S  I  I  K  L  Q  I  Q  S  L  W  I  N  L  L  L  G  F  I  L  R  L  I  L  I  T  L  S  P  S  V  T  E  K  L  F  L  L  L  M  I  H  Q  I  H  F  N :   T  G  I  K  M  R  S  S  V  L  K  *  R  M  K  R  D  F  Q  A  L  L  W  L  I  K  L  Q  D  W  Q  *  S  T  L  L  A  P  L  T  L :   C  S  S  P  H  T  I  P  T  F  L  M  H  Q  S  Y  G  Q  R  A  G  M  W  V  M  V  I  E  Q  L  G  W  S  I  T  L  T  S  I  *  M  H  G  M  L  I  K  S  M  E  V  S  A  M  G  P  L  F  V  F  G  N  G  G  K  E  T  T  G  T  N  T  G  R  S  F  A  S  :  D  M  L  A  C  E  S  W  L  E  L  G  *  C  V  V  F  F  F  H  H  V  A  C  Y  L  C  C  T  V  L  Y  V  P  P  K  Q  *  E  V  T  L  K  *  E  G  K  C  Y  V  Y  C  G  D  V  G  Y  S  M  S  V  Q  L  I  F  I  K  A  C  L  M  S  C  V  V  E  C  I  L  N  V  K  I  Y  Y  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="C01HBa0003D15.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="7605" stop="8243"/>
                    <exon start="8321" stop="8443"/>
                    <exon start="11262" stop="11496"/>
                    <exon start="12378" stop="12379"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>996</number_coding_nucleotides>
                  <number_encoded_amino_acids>332</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>NLIILYLSMEYPFGHHGHHHHHHRRDDDDDRREEFPPPGHRPPYDEPPPPQVGQVFHTSHVGGPPPMEPNYDRPHYPPPPMDDNYGRTEYTPPMDDIYGRTNYPPPPMEENYGGSYNRPPPRSDYYDAPPPPPTSGYPSVEHVSHESESGDRHHDRHRFQPHVPTAFHHQTSDPELMDKPSFRVYTKADTNYSLTIRDGKVVLASNDPSDPFQHWYKDEKFSTKVKDEEGFPSFALVNKASGLAVKHSIGASHPVQLTPYNPDVLDASILWTESRDVGDGYRAVRMVNNINLNLDAWNADKEHGGVRDGTTVCLWEWWKGDNRNQHWKIVRF*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C01HBa0003D15.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="12395" stop="12604"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>207</number_coding_nucleotides>
                  <number_encoded_amino_acids>69</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>IMAGIGLMRGIFLSSCGLLPMLYCIVCPSKTVRSNIKIRGEMLCILWRCWLQHVCSTYIYKSLFDELCC*</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="8116" PGL_stop="7747"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="8116" e_stop="7747"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.995"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.995">
            <gDNA_exon_boundary e_start="8116" e_stop="7747" e_length="370"/>
          </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="8116" stop="7747"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E277691" 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>GTTTGATGATGGAAGGCTGTAGGCACATGAGGTTGAAAACGATGACGATCATGATGCCGATCACCACTCTCACTCTCATGAGACACGTGTTCAACGGAGGGATACCCGGAAGTAGGTGGTGGTGGTGGGGCGTCATAGTAATCGGATCTCGGCGGTGGACGATTGTAAGATCCACCATAGTTCTCCTCCATTGGCGGTGGCGGATAGTTAGTCCGACCATAAATATCATCCATCGGTGGCGTATACTCAGTCCGACCATAATTATCATCCATCGGCGGCGGAGGATAGTGAGGCCGGTCATAATTAGGTTCCATTGGTGGTGGTCCACCTACATGAGAAGTATGAAAGACCTGGCCAACTTGAGGAGGAG</gDNA_template>
            <first_frame> V  *  *  W  K  A  V  G  T  *  G  *  K  R  *  R  S  *  C  R  S  P  L  S  L  S  *  D  T  C  S  T  E  G  Y  P  E  V  G  G  G  G  G  A  S  *  *  S  D  L  G  G  G  R  L  *  D  P  P  *  F  S  S  I  G  G  G  G  *  L  V  R  P  *  I  S  S  I  G  G  V  Y  S  V  R  P  *  L  S  S  I  G  G  G  G  *  *  G  R  S  *  L  G  S  I  G  G  G  P  P  T  *  E  V  *  K  T  W  P  T  *  G  G  </first_frame>
            <second_frame>  F  D  D  G  R  L  *  A  H  E  V  E  N  D  D  D  H  D  A  D  H  H  S  H  S  H  E  T  R  V  Q  R  R  D  T  R  K  *  V  V  V  V  G  R  H  S  N  R  I  S  A  V  D  D  C  K  I  H  H  S  S  P  P  L  A  V  A  D  S  *  S  D  H  K  Y  H  P  S  V  A  Y  T  Q  S  D  H  N  Y  H  P  S  A  A  E  D  S  E  A  G  H  N  *  V  P  L  V  V  V  H  L  H  E  K  Y  E  R  P  G  Q  L  E  E  E </second_frame>
            <third_frame>   L  M  M  E  G  C  R  H  M  R  L  K  T  M  T  I  M  M  P  I  T  T  L  T  L  M  R  H  V  F  N  G  G  I  P  G  S  R  W  W  W  W  G  V  I  V  I  G  S  R  R  W  T  I  V  R  S  T  I  V  L  L  H  W  R  W  R  I  V  S  P  T  I  N  I  I  H  R  W  R  I  L  S  P  T  I  I  I  I  H  R  R  R  R  I  V  R  P  V  I  I  R  F  H  W  W  W  S  T  Y  M  R  S  M  K  D  L  A  N  L  R  R   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C01HBa0003D15.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="8114" stop="7749"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>366</number_coding_nucleotides>
                  <number_encoded_amino_acids>122</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LMMEGCRHMRLKTMTIMMPITTLTLMRHVFNGGIPGSRWWWWGVIVIGSRRWTIVRSTIVLLHWRWRIVSPTINIIHRWRILSPTIIIIHRRRRIVRPVIIRFHWWWSTYMRSMKDLANLRR</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="14074" PGL_stop="15671"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="14074" e_stop="14188"/>
            <exon e_start="15306" e_stop="15671"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.988" e_score="1.000"/>
          <exon-only e_score="0.989"/>
        </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="14074" e_stop="14188" e_length="115"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.988">
            <gDNA_intron_boundary i_start="14189" i_stop="15305" i_length="1117"/>
          </intron>
          <exon e_serial="2" e_score="0.989">
            <gDNA_exon_boundary e_start="15306" e_stop="15671" e_length="366"/>
          </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="14074" stop="14188"/>
              <exon start="15306" stop="15666"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E546935" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="14075" stop="14188"/>
              <exon start="15306" stop="15671"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E363541" 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>CTGAGTTTGATCCATATTTGGAAAAACAAGCTTTGGAAGCCCTCAACTCTTCACTTGAAGCATATACTAATAATCCTGAGGAAATAACTAATGCATTCAACAAAGAAGTTGGAAA : TGCATTGCTGAAGTATAAAAGCTTAAGGAGGCATCTTAAAGAAAAAGATAAATGCATGGCAACCAATCCAATTGATAGATGCTGGAGGTGTGACAAAAATTGGGCTGAAAACAGGATGGATTTGGAAGAGTGTGCTAGGGGATTTGGCCACAAGACGACCGGTGGTAAAAATGGCAAGTACTATGTTGTCACCGATGAATCAGATGATAACGTGCAGGAACCAAAACCAGGGACCCTTCGTCATGCTGTGATTCAAGAGGAGCCATTGTGGATCATCTTTGAGAAATCAATGGTGATCAAGTTGCGACAAGAACTTATGATCACGAGTGACAAGACAATCGATGGCAGGGGAGTCGCTGTTCACAT</gDNA_template>
            <first_frame> L  S  L  I  H  I  W  K  N  K  L  W  K  P  S  T  L  H  L  K  H  I  L  I  I  L  R  K  *  L  M  H  S  T  K  K  L  E   : M  H  C  *  S  I  K  A  *  G  G  I  L  K  K  K  I  N  A  W  Q  P  I  Q  L  I  D  A  G  G  V  T  K  I  G  L  K  T  G  W  I  W  K  S  V  L  G  D  L  A  T  R  R  P  V  V  K  M  A  S  T  M  L  S  P  M  N  Q  M  I  T  C  R  N  Q  N  Q  G  P  F  V  M  L  *  F  K  R  S  H  C  G  S  S  L  R  N  Q  W  *  S  S  C  D  K  N  L  *  S  R  V  T  R  Q  S  M  A  G  E  S  L  F  T  </first_frame>
            <second_frame>  *  V  *  S  I  F  G  K  T  S  F  G  S  P  Q  L  F  T  *  S  I  Y  *  *  S  *  G  N  N  *  C  I  Q  Q  R  S  W  K  :  C  I  A  E  V  *  K  L  K  E  A  S  *  R  K  R  *  M  H  G  N  Q  S  N  *  *  M  L  E  V  *  Q  K  L  G  *  K  Q  D  G  F  G  R  V  C  *  G  I  W  P  Q  D  D  R  W  *  K  W  Q  V  L  C  C  H  R  *  I  R  *  *  R  A  G  T  K  T  R  D  P  S  S  C  C  D  S  R  G  A  I  V  D  H  L  *  E  I  N  G  D  Q  V  A  T  R  T  Y  D  H  E  *  Q  D  N  R  W  Q  G  S  R  C  S  H </second_frame>
            <third_frame>   E  F  D  P  Y  L  E  K  Q  A  L  E  A  L  N  S  S  L  E  A  Y  T  N  N  P  E  E  I  T  N  A  F  N  K  E  V  G  N :   A  L  L  K  Y  K  S  L  R  R  H  L  K  E  K  D  K  C  M  A  T  N  P  I  D  R  C  W  R  C  D  K  N  W  A  E  N  R  M  D  L  E  E  C  A  R  G  F  G  H  K  T  T  G  G  K  N  G  K  Y  Y  V  V  T  D  E  S  D  D  N  V  Q  E  P  K  P  G  T  L  R  H  A  V  I  Q  E  E  P  L  W  I  I  F  E  K  S  M  V  I  K  L  R  Q  E  L  M  I  T  S  D  K  T  I  D  G  R  G  V  A  V  H   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C01HBa0003D15.1" strand="+"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="14076" stop="14188"/>
                    <exon start="15306" stop="15669"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>477</number_coding_nucleotides>
                  <number_encoded_amino_acids>159</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EFDPYLEKQALEALNSSLEAYTNNPEEITNAFNKEVGNALLKYKSLRRHLKEKDKCMATNPIDRCWRCDKNWAENRMDLEECARGFGHKTTGGKNGKYYVVTDESDDNVQEPKPGTLRHAVIQEEPLWIIFEKSMVIKLRQELMITSDKTIDGRGVAVH</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="49636" PGL_stop="51482"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="49636" e_stop="49856"/>
            <exon e_start="50027" e_stop="50131"/>
            <exon e_start="50650" e_stop="50745"/>
            <exon e_start="50836" e_stop="50928"/>
            <exon e_start="51151" e_stop="51236"/>
            <exon e_start="51319" e_stop="51482"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.929" e_score="1.000"/>
          <exon-intron don_prob="0.730" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="0.988" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="0.933" acc_prob="0.983" e_score="1.000"/>
          <exon-intron don_prob="0.837" acc_prob="0.995" 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="49636" e_stop="49856" e_length="221"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.929">
            <gDNA_intron_boundary i_start="49857" i_stop="50026" i_length="170"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="50027" e_stop="50131" e_length="105"/>
          </exon>
          <intron i_serial="2" don_prob="0.730" acc_prob="0.000">
            <gDNA_intron_boundary i_start="50132" i_stop="50649" i_length="518"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="50650" e_stop="50745" e_length="96"/>
          </exon>
          <intron i_serial="3" don_prob="0.988" acc_prob="0.000">
            <gDNA_intron_boundary i_start="50746" i_stop="50835" i_length="90"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="50836" e_stop="50928" e_length="93"/>
          </exon>
          <intron i_serial="4" don_prob="0.933" acc_prob="0.983">
            <gDNA_intron_boundary i_start="50929" i_stop="51150" i_length="222"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="51151" e_stop="51236" e_length="86"/>
          </exon>
          <intron i_serial="5" don_prob="0.837" acc_prob="0.995">
            <gDNA_intron_boundary i_start="51237" i_stop="51318" i_length="82"/>
          </intron>
          <exon e_serial="6" e_score="0.970">
            <gDNA_exon_boundary e_start="51319" e_stop="51482" e_length="164"/>
          </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="49636" stop="49856"/>
              <exon start="50027" stop="50131"/>
              <exon start="50650" stop="50745"/>
              <exon start="50836" stop="50928"/>
              <exon start="51151" stop="51236"/>
              <exon start="51319" stop="51482"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E537462" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="49637" stop="49856"/>
              <exon start="50027" stop="50131"/>
              <exon start="50650" stop="50745"/>
              <exon start="50836" stop="50883"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E266296" 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>GGTTCCATGGTTGTGTATCTTTTTTTCTTACTTGTTGTTCTACAAATCAAGTTGTGAGCTTATAACTTCTCTTCCTGGACAACCTCCAAATATATTCTTCAAACAACACTCTGGTTATATTGTTACAAATTCTCAAAATGGTAGAGCTCTCTTTTATTATTTTGTAGAAGCGGATTCAGAAAATGCAACATCACTTCCCCTTACTCTGTGGCTCAATGGAG : GCCCTGGTTGTTCATCTGTGGGGTTTGGTGTTTTTATGGAACATGGTCCTTTTCAGCCAGGAAAAGATGGGAGACTAATAAAAAACAAGTATTCTTGGAATTTAG : AATCGAACATGTTATACGTTGAGTCCCCGATTGGAGTAGGATTTTCATACTCGAATACAAGCTCGGACTACGTCAATTGGGATGATGTTGCAACAG : CAAAGGAGAATCTCCAATTTCTACTCAACTGGTTAGAGAAATTCCCCGAATATAGGAACTTGGATTTGTTCTTAGCTGGTGAAAGTTATGCAG : GTCACTATATTCCACAGCTTACAGTATTGCTGCTTGATTACAATAGAAAGCCTAATGTTAAACCAATCAAGCTTAAATCAATTGCA : CTGGGGAATCCACTACTAGATCTTGAAATAAGCGTTAAGTCTTCCGAATATTTATGGTCACATGGTGCGATTTCTGATGAATTACTTACTATGAAAAGAACAATCTGTAACGAAACGAGGTTGTTGTTGGAATCAATACATCATAATATGTCTAACGAGTGCTC</gDNA_template>
            <first_frame> G  S  M  V  V  Y  L  F  F  L  L  V  V  L  Q  I  K  L  *  A  Y  N  F  S  S  W  T  T  S  K  Y  I  L  Q  T  T  L  W  L  Y  C  Y  K  F  S  K  W  *  S  S  L  L  L  F  C  R  S  G  F  R  K  C  N  I  T  S  P  Y  S  V  A  Q  W  R :   P  W  L  F  I  C  G  V  W  C  F  Y  G  T  W  S  F  S  A  R  K  R  W  E  T  N  K  K  Q  V  F  L  E  F  R :   I  E  H  V  I  R  *  V  P  D  W  S  R  I  F  I  L  E  Y  K  L  G  L  R  Q  L  G  *  C  C  N  S :   K  G  E  S  P  I  S  T  Q  L  V  R  E  I  P  R  I  *  E  L  G  F  V  L  S  W  *  K  L  C  R :   S  L  Y  S  T  A  Y  S  I  A  A  *  L  Q  *  K  A  *  C  *  T  N  Q  A  *  I  N  C   : T  G  E  S  T  T  R  S  *  N  K  R  *  V  F  R  I  F  M  V  T  W  C  D  F  *  *  I  T  Y  Y  E  K  N  N  L  *  R  N  E  V  V  V  G  I  N  T  S  *  Y  V  *  R  V  L </first_frame>
            <second_frame>  V  P  W  L  C  I  F  F  S  Y  L  L  F  Y  K  S  S  C  E  L  I  T  S  L  P  G  Q  P  P  N  I  F  F  K  Q  H  S  G  Y  I  V  T  N  S  Q  N  G  R  A  L  F  Y  Y  F  V  E  A  D  S  E  N  A  T  S  L  P  L  T  L  W  L  N  G   : G  P  G  C  S  S  V  G  F  G  V  F  M  E  H  G  P  F  Q  P  G  K  D  G  R  L  I  K  N  K  Y  S  W  N  L   : E  S  N  M  L  Y  V  E  S  P  I  G  V  G  F  S  Y  S  N  T  S  S  D  Y  V  N  W  D  D  V  A  T   : A  K  E  N  L  Q  F  L  L  N  W  L  E  K  F  P  E  Y  R  N  L  D  L  F  L  A  G  E  S  Y  A   : G  H  Y  I  P  Q  L  T  V  L  L  L  D  Y  N  R  K  P  N  V  K  P  I  K  L  K  S  I  A  :  L  G  N  P  L  L  D  L  E  I  S  V  K  S  S  E  Y  L  W  S  H  G  A  I  S  D  E  L  L  T  M  K  R  T  I  C  N  E  T  R  L  L  L  E  S  I  H  H  N  M  S  N  E  C   </second_frame>
            <third_frame>   F  H  G  C  V  S  F  F  L  T  C  C  S  T  N  Q  V  V  S  L  *  L  L  F  L  D  N  L  Q  I  Y  S  S  N  N  T  L  V  I  L  L  Q  I  L  K  M  V  E  L  S  F  I  I  L  *  K  R  I  Q  K  M  Q  H  H  F  P  L  L  C  G  S  M  E  :  A  L  V  V  H  L  W  G  L  V  F  L  W  N  M  V  L  F  S  Q  E  K  M  G  D  *  *  K  T  S  I  L  G  I  *  :  N  R  T  C  Y  T  L  S  P  R  L  E  *  D  F  H  T  R  I  Q  A  R  T  T  S  I  G  M  M  L  Q  Q  :  Q  R  R  I  S  N  F  Y  S  T  G  *  R  N  S  P  N  I  G  T  W  I  C  S  *  L  V  K  V  M  Q  :  V  T  I  F  H  S  L  Q  Y  C  C  L  I  T  I  E  S  L  M  L  N  Q  S  S  L  N  Q  L  H :   W  G  I  H  Y  *  I  L  K  *  A  L  S  L  P  N  I  Y  G  H  M  V  R  F  L  M  N  Y  L  L  *  K  E  Q  S  V  T  K  R  G  C  C  W  N  Q  Y  I  I  I  C  L  T  S  A  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C01HBa0003D15.1" strand="+"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="49637" stop="49856"/>
                    <exon start="50027" stop="50131"/>
                    <exon start="50650" stop="50745"/>
                    <exon start="50836" stop="50928"/>
                    <exon start="51151" stop="51236"/>
                    <exon start="51319" stop="51480"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>762</number_coding_nucleotides>
                  <number_encoded_amino_acids>254</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VPWLCIFFSYLLFYKSSCELITSLPGQPPNIFFKQHSGYIVTNSQNGRALFYYFVEADSENATSLPLTLWLNGGPGCSSVGFGVFMEHGPFQPGKDGRLIKNKYSWNLESNMLYVESPIGVGFSYSNTSSDYVNWDDVATAKENLQFLLNWLEKFPEYRNLDLFLAGESYAGHYIPQLTVLLLDYNRKPNVKPIKLKSIALGNPLLDLEISVKSSEYLWSHGAISDELLTMKRTICNETRLLLESIHHNMSNEC</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="51518" PGL_stop="55382"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="51518" e_stop="51618"/>
            <exon e_start="51692" e_stop="51819"/>
            <exon e_start="51950" e_stop="52042"/>
            <exon e_start="52737" e_stop="52854"/>
            <exon e_start="54907" e_stop="55382"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.994" acc_prob="0.990" e_score="1.000"/>
          <exon-intron don_prob="0.900" acc_prob="0.922" e_score="1.000"/>
          <exon-intron don_prob="0.991" 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="0.989"/>
        </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="51518" e_stop="51618" e_length="101"/>
          </exon>
          <intron i_serial="1" don_prob="0.994" acc_prob="0.990">
            <gDNA_intron_boundary i_start="51619" i_stop="51691" i_length="73"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="51692" e_stop="51819" e_length="128"/>
          </exon>
          <intron i_serial="2" don_prob="0.900" acc_prob="0.922">
            <gDNA_intron_boundary i_start="51820" i_stop="51949" i_length="130"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="51950" e_stop="52042" e_length="93"/>
          </exon>
          <intron i_serial="3" don_prob="0.991" acc_prob="1.000">
            <gDNA_intron_boundary i_start="52043" i_stop="52736" i_length="694"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="52737" e_stop="52854" e_length="118"/>
          </exon>
          <intron i_serial="4" don_prob="0.997" acc_prob="1.000">
            <gDNA_intron_boundary i_start="52855" i_stop="54906" i_length="2052"/>
          </intron>
          <exon e_serial="5" e_score="0.989">
            <gDNA_exon_boundary e_start="54907" e_stop="55382" e_length="476"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="51518" stop="51618"/>
              <exon start="51692" stop="51819"/>
              <exon start="51950" stop="52042"/>
              <exon start="52737" stop="52854"/>
              <exon start="54907" stop="55202"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E537459" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="55007" stop="55382"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E318593" 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>GTGATACAGATACAGGCGATCTGCTCGCGCCAATATGTGTATCTTCTGGTGTAGCAGGACAATTAGGAGTCCTTGGAAAACTTGCCTCAATACATGAAAAG : GACGTGAGAGAAATTGGCGATCCATGCCTTACTGATAGGATATATATGTATCTTAACAAGCCAGAAGTTCAAAAGGCATTACATGCCAACACTACTCACTTGCCATATGCCTGGGATTTTTGTTTAGG : GCACCTTCAGTATCAAAGAGGTGATTTAGCTATAAATGTTATACCTCTATTGTCAAATATTCTAAAAGAGAATATACAAGTTCTGCTTTACAG : TGGAGACCAAGATACAAAAATCCCACTGACCCAAACTAGGAAAATTGCTAAACTACTTGCTAGAGATTTAAAGCTAGTTGCTTTAGATAAATATGGTCCCTGGTATGATGGCTTGCAG : ATTGGAGGATGGAGTCAATCATTTGGAGGGGTTAGAGAAGGCAAAAATGTAACATATTTAACATTTGCTACGATTAGGGGTGCGGCTCATGAAGTGCCTTATACTTCTCCTTCACAAGCTCTTACTCTTTTCAGAACATTTCTAAAAGGACAATCTCCATCGCGAAAGAATAACACCATTCGAGCCAAGAAGTTGCATAGCTCTATCGACCTCTTTTCAACTGCAATTTAGATGTTTAATTTGTTATCTTTGTTGTATACTTTTCTTTTTTAAATTGTGAGTTTGAAAAATTTAAAGCTAAATTACTTTATAGAAATGTGTAGTTTTCAACTCGACTAATGAAGAAATAATGTCATGTAAAATAAGATTCTCAAAGAGGGTGGTTTGTCACAAATGTAACTAGACGAATGAGTATTACCACCAAGCGTTAATGTAGTAGTCCTCTACTTAGTGCGGACTGCAGGACAGTTCCATTT</gDNA_template>
            <first_frame> V  I  Q  I  Q  A  I  C  S  R  Q  Y  V  Y  L  L  V  *  Q  D  N  *  E  S  L  E  N  L  P  Q  Y  M  K  R :   T  *  E  K  L  A  I  H  A  L  L  I  G  Y  I  C  I  L  T  S  Q  K  F  K  R  H  Y  M  P  T  L  L  T  C  H  M  P  G  I  F  V  *   : G  T  F  S  I  K  E  V  I  *  L  *  M  L  Y  L  Y  C  Q  I  F  *  K  R  I  Y  K  F  C  F  T   : V  E  T  K  I  Q  K  S  H  *  P  K  L  G  K  L  L  N  Y  L  L  E  I  *  S  *  L  L  *  I  N  M  V  P  G  M  M  A  C  R :   L  E  D  G  V  N  H  L  E  G  L  E  K  A  K  M  *  H  I  *  H  L  L  R  L  G  V  R  L  M  K  C  L  I  L  L  L  H  K  L  L  L  F  S  E  H  F  *  K  D  N  L  H  R  E  R  I  T  P  F  E  P  R  S  C  I  A  L  S  T  S  F  Q  L  Q  F  R  C  L  I  C  Y  L  C  C  I  L  F  F  F  K  L  *  V  *  K  I  *  S  *  I  T  L  *  K  C  V  V  F  N  S  T  N  E  E  I  M  S  C  K  I  R  F  S  K  R  V  V  C  H  K  C  N  *  T  N  E  Y  Y  H  Q  A  L  M  *  *  S  S  T  *  C  G  L  Q  D  S  S  I  </first_frame>
            <second_frame>  *  Y  R  Y  R  R  S  A  R  A  N  M  C  I  F  W  C  S  R  T  I  R  S  P  W  K  T  C  L  N  T  *  K   : G  R  E  R  N  W  R  S  M  P  Y  *  *  D  I  Y  V  S  *  Q  A  R  S  S  K  G  I  T  C  Q  H  Y  S  L  A  I  C  L  G  F  L  F  R  :  A  P  S  V  S  K  R  *  F  S  Y  K  C  Y  T  S  I  V  K  Y  S  K  R  E  Y  T  S  S  A  L  Q  :  W  R  P  R  Y  K  N  P  T  D  P  N  *  E  N  C  *  T  T  C  *  R  F  K  A  S  C  F  R  *  I  W  S  L  V  *  W  L  A   : D  W  R  M  E  S  I  I  W  R  G  *  R  R  Q  K  C  N  I  F  N  I  C  Y  D  *  G  C  G  S  *  S  A  L  Y  F  S  F  T  S  S  Y  S  F  Q  N  I  S  K  R  T  I  S  I  A  K  E  *  H  H  S  S  Q  E  V  A  *  L  Y  R  P  L  F  N  C  N  L  D  V  *  F  V  I  F  V  V  Y  F  S  F  L  N  C  E  F  E  K  F  K  A  K  L  L  Y  R  N  V  *  F  S  T  R  L  M  K  K  *  C  H  V  K  *  D  S  Q  R  G  W  F  V  T  N  V  T  R  R  M  S  I  T  T  K  R  *  C  S  S  P  L  L  S  A  D  C  R  T  V  P  F </second_frame>
            <third_frame>   D  T  D  T  G  D  L  L  A  P  I  C  V  S  S  G  V  A  G  Q  L  G  V  L  G  K  L  A  S  I  H  E  K  :  D  V  R  E  I  G  D  P  C  L  T  D  R  I  Y  M  Y  L  N  K  P  E  V  Q  K  A  L  H  A  N  T  T  H  L  P  Y  A  W  D  F  C  L  G :   H  L  Q  Y  Q  R  G  D  L  A  I  N  V  I  P  L  L  S  N  I  L  K  E  N  I  Q  V  L  L  Y  S :   G  D  Q  D  T  K  I  P  L  T  Q  T  R  K  I  A  K  L  L  A  R  D  L  K  L  V  A  L  D  K  Y  G  P  W  Y  D  G  L  Q  :  I  G  G  W  S  Q  S  F  G  G  V  R  E  G  K  N  V  T  Y  L  T  F  A  T  I  R  G  A  A  H  E  V  P  Y  T  S  P  S  Q  A  L  T  L  F  R  T  F  L  K  G  Q  S  P  S  R  K  N  N  T  I  R  A  K  K  L  H  S  S  I  D  L  F  S  T  A  I  *  M  F  N  L  L  S  L  L  Y  T  F  L  F  *  I  V  S  L  K  N  L  K  L  N  Y  F  I  E  M  C  S  F  Q  L  D  *  *  R  N  N  V  M  *  N  K  I  L  K  E  G  G  L  S  Q  M  *  L  D  E  *  V  L  P  P  S  V  N  V  V  V  L  Y  L  V  R  T  A  G  Q  F  H   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C01HBa0003D15.1" strand="+"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="51520" stop="51618"/>
                    <exon start="51692" stop="51819"/>
                    <exon start="51950" stop="52042"/>
                    <exon start="52737" stop="52854"/>
                    <exon start="54907" stop="55137"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>666</number_coding_nucleotides>
                  <number_encoded_amino_acids>222</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>DTDTGDLLAPICVSSGVAGQLGVLGKLASIHEKDVREIGDPCLTDRIYMYLNKPEVQKALHANTTHLPYAWDFCLGHLQYQRGDLAINVIPLLSNILKENIQVLLYSGDQDTKIPLTQTRKIAKLLARDLKLVALDKYGPWYDGLQIGGWSQSFGGVREGKNVTYLTFATIRGAAHEVPYTSPSQALTLFRTFLKGQSPSRKNNTIRAKKLHSSIDLFSTAI*</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="54315" PGL_stop="53872"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="54315" e_stop="53872"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.917"/>
        </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="0.917">
            <gDNA_exon_boundary e_start="54315" e_stop="53872" e_length="444"/>
          </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="54315" stop="53872"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E243215" 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>TTATTGTAGATGATCAAATTTTTTCTTCGAAAACGAAATTAAATTACAATACACACAAAAAAAATAGTTTAATTTTTTATTCTTTAAACTAAGGAATGAAAGAAAAAACAAAATAAGAATAAGAAATTCAAATAATTATAATAAAAGAAGTCAAAAAATAATTTATGTATGAAAAAAGTTAAAATATACCTTGAACTTTGATAGAAGAATCATATATACCCCTAAATAATTTTTTAAAAAAAATTAGAAGTAATAAATATAAATTTAAAACTAATTTTTTTAAATTTGTTAAATGAAGGGTATATGTGAGCCATTTTGTAACGGCAGGGGTATATGTGAGCCGTTTGTATAACGGTAAGGGCATATATGAGTCACTTTTATAACGAGAGGTATATCAGCTCCAAATAACAAAATTGAGGGGTATATCAGACCCTTTTCTCTTTT</gDNA_template>
            <first_frame> L  L  *  M  I  K  F  F  L  R  K  R  N  *  I  T  I  H  T  K  K  I  V  *  F  F  I  L  *  T  K  E  *  K  K  K  Q  N  K  N  K  K  F  K  *  L  *  *  K  K  S  K  N  N  L  C  M  K  K  V  K  I  Y  L  E  L  *  *  K  N  H  I  Y  P  *  I  I  F  *  K  K  L  E  V  I  N  I  N  L  K  L  I  F  L  N  L  L  N  E  G  Y  M  *  A  I  L  *  R  Q  G  Y  M  *  A  V  C  I  T  V  R  A  Y  M  S  H  F  Y  N  E  R  Y  I  S  S  K  *  Q  N  *  G  V  Y  Q  T  L  F  S  F </first_frame>
            <second_frame>  Y  C  R  *  S  N  F  F  F  E  N  E  I  K  L  Q  Y  T  Q  K  K  *  F  N  F  L  F  F  K  L  R  N  E  R  K  N  K  I  R  I  R  N  S  N  N  Y  N  K  R  S  Q  K  I  I  Y  V  *  K  K  L  K  Y  T  L  N  F  D  R  R  I  I  Y  T  P  K  *  F  F  K  K  N  *  K  *  *  I  *  I  *  N  *  F  F  *  I  C  *  M  K  G  I  C  E  P  F  C  N  G  R  G  I  C  E  P  F  V  *  R  *  G  H  I  *  V  T  F  I  T  R  G  I  S  A  P  N  N  K  I  E  G  Y  I  R  P  F  S  L   </second_frame>
            <third_frame>   I  V  D  D  Q  I  F  S  S  K  T  K  L  N  Y  N  T  H  K  K  N  S  L  I  F  Y  S  L  N  *  G  M  K  E  K  T  K  *  E  *  E  I  Q  I  I  I  I  K  E  V  K  K  *  F  M  Y  E  K  S  *  N  I  P  *  T  L  I  E  E  S  Y  I  P  L  N  N  F  L  K  K  I  R  S  N  K  Y  K  F  K  T  N  F  F  K  F  V  K  *  R  V  Y  V  S  H  F  V  T  A  G  V  Y  V  S  R  L  Y  N  G  K  G  I  Y  E  S  L  L  *  R  E  V  Y  Q  L  Q  I  T  K  L  R  G  I  S  D  P  F  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/">
            <none gDNA_id="C01HBa0003D15.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="7" PGL_strand="+" PGL_start="64840" PGL_stop="69111"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="64840" e_stop="64895"/>
            <exon e_start="66917" e_stop="67133"/>
            <exon e_start="67219" e_stop="67661"/>
            <exon e_start="67874" e_stop="68140"/>
            <exon e_start="68237" e_stop="68409"/>
            <exon e_start="68840" e_stop="69111"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.872" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.423" e_score="0.995"/>
          <exon-intron don_prob="0.067" acc_prob="0.091" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.995" e_score="1.000"/>
          <exon-intron don_prob="0.990" acc_prob="0.999" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="64840" e_stop="64895" e_length="56"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.872">
            <gDNA_intron_boundary i_start="64896" i_stop="66916" i_length="2021"/>
          </intron>
          <exon e_serial="2" e_score="0.995">
            <gDNA_exon_boundary e_start="66917" e_stop="67133" e_length="217"/>
          </exon>
          <intron i_serial="2" don_prob="0.999" acc_prob="0.423">
            <gDNA_intron_boundary i_start="67134" i_stop="67218" i_length="85"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="67219" e_stop="67661" e_length="443"/>
          </exon>
          <intron i_serial="3" don_prob="0.067" acc_prob="0.091">
            <gDNA_intron_boundary i_start="67662" i_stop="67873" i_length="212"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="67874" e_stop="68140" e_length="267"/>
          </exon>
          <intron i_serial="4" don_prob="1.000" acc_prob="0.995">
            <gDNA_intron_boundary i_start="68141" i_stop="68236" i_length="96"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="68237" e_stop="68409" e_length="173"/>
          </exon>
          <intron i_serial="5" don_prob="0.990" acc_prob="0.999">
            <gDNA_intron_boundary i_start="68410" i_stop="68839" i_length="430"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="68840" e_stop="69111" e_length="272"/>
          </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="64840" stop="64895"/>
              <exon start="66917" stop="67133"/>
              <exon start="67219" stop="67661"/>
              <exon start="67874" stop="68029"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E727506" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="64842" stop="64895"/>
              <exon start="66917" stop="67133"/>
              <exon start="67219" stop="67486"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E726117" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="64847" stop="64895"/>
              <exon start="66917" stop="67133"/>
              <exon start="67219" stop="67606"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E698768" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="64863" stop="64895"/>
              <exon start="66917" stop="67133"/>
              <exon start="67219" stop="67546"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297535" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="64863" stop="64895"/>
              <exon start="66917" stop="67133"/>
              <exon start="67219" stop="67490"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295904" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="66917" stop="67133"/>
              <exon start="67219" stop="67611"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E209791" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="66928" stop="67133"/>
              <exon start="67219" stop="67661"/>
              <exon start="67874" stop="67992"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E689441" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="66931" stop="67133"/>
              <exon start="67219" stop="67585"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E333229" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="66939" stop="67133"/>
              <exon start="67219" stop="67427"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E721313" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67105" stop="67133"/>
              <exon start="67219" stop="67661"/>
              <exon start="67874" stop="68101"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E707428" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67234" stop="67661"/>
              <exon start="67874" stop="68140"/>
              <exon start="68237" stop="68359"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E703230" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67395" stop="67661"/>
              <exon start="67874" stop="68140"/>
              <exon start="68237" stop="68409"/>
              <exon start="68840" stop="69055"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E708292" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67995" stop="68140"/>
              <exon start="68237" stop="68409"/>
              <exon start="68840" stop="69111"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E251888" 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>ACATCTCACTCTCTATCAAGCACAAAAATTAAAACCTCTGCACAGCAGCCTCACAG : GAATATATTCTTAGAGCCAGGTCCCCTTCTCTGTGTATATTGAAGTAAATGGCACAAGCAAAAATTACGGAAAATACGTCGAAACTTGCAAGTTATGATGCTTATTTTGAAAAGGCCCAGAAAAGAAAGAAATTGCCCCGTAATTTGCAGGAAACTTTGACTGATGCATTTGCAAATATTCCATTTTCATCCTTCCCTCAAGTCCCTGGAGGAAAAG : TAATTGAAATAGACGCCGAGACTTCTATAGGCGATGCTGTCAAAATTCTTTCAGAATCGAACATCCTCTCAGTTCCTGTGAAGAATCCAGTGGCTAAGAATAGTTTGGATTGGAGAGAAAGGTACTTAGGTGTCCTTGATTACTCCGCTATTGTTCTTTGGGTGCTGGAGGGTGCGGAAACAGCAGCAGCTGCCATATCAGCAAGTTCGGCAGCAGCAGCCGGAGTTGGAGCAGGTACCGCTGGTGCTCTTGGAGCACTGGCATTAGGTGCAACAGGTCCTGCTGCAGTTGCTGGTCTAACGGTTGCTGCAGTCGGTGCAGCTGTGGCAGGTGGAGTGGCTGCAGATCGAGGAGCGGGAAAGGATGCTCCAACTGCGGCCAATAACTTGGGTGAGGATTTCTACAAGGTTATCCTTCAAGAAGAACCCTTTAAGTCAACAAAG : GTGAGCTCCATCATAAAATCCTATCGATGGGCACCATTTGTTCCAGTAGCAATGGACAGTTCTATGTTGAGTGTGTTGCTGCTGTTATCAAAATATAGGCTGCGGAATGTACCTGTGATAGAAAGAGGAAGTCCATACCTTAAGAACTTTATAACTCAATCAGCCGTGGTACGGGGTCTTGTAGGATGCAAAGGGAGGGATTGGTTTGACTGCATCTCCGCTCACCCTATATCAGAACTTGGCCTCCCATACATGTCCGCTGACGAG : GTTATTAGTGTCCGAGACGATGAACTGATTCTGGAAGCATTCAAGAAAATGAGAGATAATAATATCGGAGGTCTGCCGGTTGTTGAAGGATCAAAGAAGAAGATAGTTGGCAATGTAAGCATAAGAGACATCAGATTCTTGTTACTCAAACCTGAACTATTCTCCAATTTCAG : GCAGCTGACAGTTGCGGGTTTCATGAACACAGTTGCTTCGGCAACCCATGATGCCACAAAGGCAGCTACGCCAATAACATGCAAGCTCGGTTCAACTCTTTGTACTGTGATAGACACTCTCGCGTCCAAGTTAGTTCACAGGATCTATGTGACAGCTGAGGATGGCGATGAAGTTGTTGGTGTGATCACACTCAGAGATGTCATTTCCTGCTTCATCTATGAACCATCGAACTTCTTCGATAACTATTTTGGATTTTCTGCACAAGAAATGC</gDNA_template>
            <first_frame> T  S  H  S  L  S  S  T  K  I  K  T  S  A  Q  Q  P  H  R :   N  I  F  L  E  P  G  P  L  L  C  V  Y  *  S  K  W  H  K  Q  K  L  R  K  I  R  R  N  L  Q  V  M  M  L  I  L  K  R  P  R  K  E  R  N  C  P  V  I  C  R  K  L  *  L  M  H  L  Q  I  F  H  F  H  P  S  L  K  S  L  E  E  K  :  *  L  K  *  T  P  R  L  L  *  A  M  L  S  K  F  F  Q  N  R  T  S  S  Q  F  L  *  R  I  Q  W  L  R  I  V  W  I  G  E  K  G  T  *  V  S  L  I  T  P  L  L  F  F  G  C  W  R  V  R  K  Q  Q  Q  L  P  Y  Q  Q  V  R  Q  Q  Q  P  E  L  E  Q  V  P  L  V  L  L  E  H  W  H  *  V  Q  Q  V  L  L  Q  L  L  V  *  R  L  L  Q  S  V  Q  L  W  Q  V  E  W  L  Q  I  E  E  R  E  R  M  L  Q  L  R  P  I  T  W  V  R  I  S  T  R  L  S  F  K  K  N  P  L  S  Q  Q  R :   *  A  P  S  *  N  P  I  D  G  H  H  L  F  Q  *  Q  W  T  V  L  C  *  V  C  C  C  C  Y  Q  N  I  G  C  G  M  Y  L  *  *  K  E  E  V  H  T  L  R  T  L  *  L  N  Q  P  W  Y  G  V  L  *  D  A  K  G  G  I  G  L  T  A  S  P  L  T  L  Y  Q  N  L  A  S  H  T  C  P  L  T  R :   L  L  V  S  E  T  M  N  *  F  W  K  H  S  R  K  *  E  I  I  I  S  E  V  C  R  L  L  K  D  Q  R  R  R  *  L  A  M  *  A  *  E  T  S  D  S  C  Y  S  N  L  N  Y  S  P  I  S   : G  S  *  Q  L  R  V  S  *  T  Q  L  L  R  Q  P  M  M  P  Q  R  Q  L  R  Q  *  H  A  S  S  V  Q  L  F  V  L  *  *  T  L  S  R  P  S  *  F  T  G  S  M  *  Q  L  R  M  A  M  K  L  L  V  *  S  H  S  E  M  S  F  P  A  S  S  M  N  H  R  T  S  S  I  T  I  L  D  F  L  H  K  K  C </first_frame>
            <second_frame>  H  L  T  L  Y  Q  A  Q  K  L  K  P  L  H  S  S  L  T   : G  I  Y  S  *  S  Q  V  P  F  S  V  Y  I  E  V  N  G  T  S  K  N  Y  G  K  Y  V  E  T  C  K  L  *  C  L  F  *  K  G  P  E  K  K  E  I  A  P  *  F  A  G  N  F  D  *  C  I  C  K  Y  S  I  F  I  L  P  S  S  P  W  R  K  S :   N  *  N  R  R  R  D  F  Y  R  R  C  C  Q  N  S  F  R  I  E  H  P  L  S  S  C  E  E  S  S  G  *  E  *  F  G  L  E  R  K  V  L  R  C  P  *  L  L  R  Y  C  S  L  G  A  G  G  C  G  N  S  S  S  C  H  I  S  K  F  G  S  S  S  R  S  W  S  R  Y  R  W  C  S  W  S  T  G  I  R  C  N  R  S  C  C  S  C  W  S  N  G  C  C  S  R  C  S  C  G  R  W  S  G  C  R  S  R  S  G  K  G  C  S  N  C  G  Q  *  L  G  *  G  F  L  Q  G  Y  P  S  R  R  T  L  *  V  N  K   : G  E  L  H  H  K  I  L  S  M  G  T  I  C  S  S  S  N  G  Q  F  Y  V  E  C  V  A  A  V  I  K  I  *  A  A  E  C  T  C  D  R  K  R  K  S  I  P  *  E  L  Y  N  S  I  S  R  G  T  G  S  C  R  M  Q  R  E  G  L  V  *  L  H  L  R  S  P  Y  I  R  T  W  P  P  I  H  V  R  *  R   : G  Y  *  C  P  R  R  *  T  D  S  G  S  I  Q  E  N  E  R  *  *  Y  R  R  S  A  G  C  *  R  I  K  E  E  D  S  W  Q  C  K  H  K  R  H  Q  I  L  V  T  Q  T  *  T  I  L  Q  F  Q  :  A  A  D  S  C  G  F  H  E  H  S  C  F  G  N  P  *  C  H  K  G  S  Y  A  N  N  M  Q  A  R  F  N  S  L  Y  C  D  R  H  S  R  V  Q  V  S  S  Q  D  L  C  D  S  *  G  W  R  *  S  C  W  C  D  H  T  Q  R  C  H  F  L  L  H  L  *  T  I  E  L  L  R  *  L  F  W  I  F  C  T  R  N   </second_frame>
            <third_frame>   I  S  L  S  I  K  H  K  N  *  N  L  C  T  A  A  S  Q  :  E  Y  I  L  R  A  R  S  P  S  L  C  I  L  K  *  M  A  Q  A  K  I  T  E  N  T  S  K  L  A  S  Y  D  A  Y  F  E  K  A  Q  K  R  K  K  L  P  R  N  L  Q  E  T  L  T  D  A  F  A  N  I  P  F  S  S  F  P  Q  V  P  G  G  K   : V  I  E  I  D  A  E  T  S  I  G  D  A  V  K  I  L  S  E  S  N  I  L  S  V  P  V  K  N  P  V  A  K  N  S  L  D  W  R  E  R  Y  L  G  V  L  D  Y  S  A  I  V  L  W  V  L  E  G  A  E  T  A  A  A  A  I  S  A  S  S  A  A  A  A  G  V  G  A  G  T  A  G  A  L  G  A  L  A  L  G  A  T  G  P  A  A  V  A  G  L  T  V  A  A  V  G  A  A  V  A  G  G  V  A  A  D  R  G  A  G  K  D  A  P  T  A  A  N  N  L  G  E  D  F  Y  K  V  I  L  Q  E  E  P  F  K  S  T  K  :  V  S  S  I  I  K  S  Y  R  W  A  P  F  V  P  V  A  M  D  S  S  M  L  S  V  L  L  L  L  S  K  Y  R  L  R  N  V  P  V  I  E  R  G  S  P  Y  L  K  N  F  I  T  Q  S  A  V  V  R  G  L  V  G  C  K  G  R  D  W  F  D  C  I  S  A  H  P  I  S  E  L  G  L  P  Y  M  S  A  D  E  :  V  I  S  V  R  D  D  E  L  I  L  E  A  F  K  K  M  R  D  N  N  I  G  G  L  P  V  V  E  G  S  K  K  K  I  V  G  N  V  S  I  R  D  I  R  F  L  L  L  K  P  E  L  F  S  N  F  R :   Q  L  T  V  A  G  F  M  N  T  V  A  S  A  T  H  D  A  T  K  A  A  T  P  I  T  C  K  L  G  S  T  L  C  T  V  I  D  T  L  A  S  K  L  V  H  R  I  Y  V  T  A  E  D  G  D  E  V  V  G  V  I  T  L  R  D  V  I  S  C  F  I  Y  E  P  S  N  F  F  D  N  Y  F  G  F  S  A  Q  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="C01HBa0003D15.1" strand="+"/>
                <serials PGL_serial="7" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="66965" stop="67133"/>
                    <exon start="67219" stop="67661"/>
                    <exon start="67874" stop="68140"/>
                    <exon start="68237" stop="68409"/>
                    <exon start="68840" stop="69110"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>1323</number_coding_nucleotides>
                  <number_encoded_amino_acids>441</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>MAQAKITENTSKLASYDAYFEKAQKRKKLPRNLQETLTDAFANIPFSSFPQVPGGKVIEIDAETSIGDAVKILSESNILSVPVKNPVAKNSLDWRERYLGVLDYSAIVLWVLEGAETAAAAISASSAAAAGVGAGTAGALGALALGATGPAAVAGLTVAAVGAAVAGGVAADRGAGKDAPTAANNLGEDFYKVILQEEPFKSTKVSSIIKSYRWAPFVPVAMDSSMLSVLLLLSKYRLRNVPVIERGSPYLKNFITQSAVVRGLVGCKGRDWFDCISAHPISELGLPYMSADEVISVRDDELILEAFKKMRDNNIGGLPVVEGSKKKIVGNVSIRDIRFLLLKPELFSNFRQLTVAGFMNTVASATHDATKAATPITCKLGSTLCTVIDTLASKLVHRIYVTAEDGDEVVGVITLRDVISCFIYEPSNFFDNYFGFSAQEM</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="67982" PGL_stop="67405"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="67982" e_stop="67872"/>
            <exon e_start="67659" e_stop="67405"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.953" acc_prob="0.000" e_score="0.946"/>
          <exon-only e_score="0.973"/>
        </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="0.946">
            <gDNA_exon_boundary e_start="67982" e_stop="67872" e_length="111"/>
          </exon>
          <intron i_serial="1" don_prob="0.953" acc_prob="0.000">
            <gDNA_intron_boundary i_start="67871" i_stop="67660" i_length="212"/>
          </intron>
          <exon e_serial="2" e_score="0.973">
            <gDNA_exon_boundary e_start="67659" e_stop="67405" e_length="255"/>
          </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="67982" stop="67872"/>
              <exon start="67659" stop="67405"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E269793" 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>CATTCCGCAGCCTATATTTTGATAACAGCAGCAACACACTCAACATAGAACTGTCCATTGCTACTGGAACAAATGGTGCCCATCGATAGGATTTTATGATGGAGCTCACCT : TTGTTGACTTAAAGGGTTCTTCTTGAAGGATAACCTTGTAGAAATCCTCACCCAAGTTATTGGCCGCAGTTGGAGCATCCTTTCCCGCTCCTCGATCTGCAGCCACTCCACCTGCCACAGCTGCACCGACTGCAGCAACCGTTAGACCAGCAACTGCAGCAGGACCTGTTGCACCTAATGCCAGTGCTCCAAGAGCACCAGCGGTACCTGCTCCAACTCCGGCTGCTGCTGCCGAACTTGCTGATATGGCAGCTG</gDNA_template>
            <first_frame> H  S  A  A  Y  I  L  I  T  A  A  T  H  S  T  *  N  C  P  L  L  L  E  Q  M  V  P  I  D  R  I  L  *  W  S  S  P  :  L  L  T  *  R  V  L  L  E  G  *  P  C  R  N  P  H  P  S  Y  W  P  Q  L  E  H  P  F  P  L  L  D  L  Q  P  L  H  L  P  Q  L  H  R  L  Q  Q  P  L  D  Q  Q  L  Q  Q  D  L  L  H  L  M  P  V  L  Q  E  H  Q  R  Y  L  L  Q  L  R  L  L  L  P  N  L  L  I  W  Q  L </first_frame>
            <second_frame>  I  P  Q  P  I  F  *  *  Q  Q  Q  H  T  Q  H  R  T  V  H  C  Y  W  N  K  W  C  P  S  I  G  F  Y  D  G  A  H  L :   C  *  L  K  G  F  F  L  K  D  N  L  V  E  I  L  T  Q  V  I  G  R  S  W  S  I  L  S  R  S  S  I  C  S  H  S  T  C  H  S  C  T  D  C  S  N  R  *  T  S  N  C  S  R  T  C  C  T  *  C  Q  C  S  K  S  T  S  G  T  C  S  N  S  G  C  C  C  R  T  C  *  Y  G  S   </second_frame>
            <third_frame>   F  R  S  L  Y  F  D  N  S  S  N  T  L  N  I  E  L  S  I  A  T  G  T  N  G  A  H  R  *  D  F  M  M  E  L  T   : F  V  D  L  K  G  S  S  *  R  I  T  L  *  K  S  S  P  K  L  L  A  A  V  G  A  S  F  P  A  P  R  S  A  A  T  P  P  A  T  A  A  P  T  A  A  T  V  R  P  A  T  A  A  G  P  V  A  P  N  A  S  A  P  R  A  P  A  V  P  A  P  T  P  A  A  A  A  E  L  A  D  M  A  A  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C01HBa0003D15.1" strand="-"/>
                <serials PGL_serial="8" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="67626" stop="67405"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>222</number_coding_nucleotides>
                  <number_encoded_amino_acids>74</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>PCRNPHPSYWPQLEHPFPLLDLQPLHLPQLHRLQQPLDQQLQQDLLHLMPVLQEHQRYLLQLRLLLPNLLIWQL</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C01HBa0003D15.1" strand="-"/>
                <serials PGL_serial="8" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="67618" stop="67406"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>213</number_coding_nucleotides>
                  <number_encoded_amino_acids>71</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KSSPKLLAAVGASFPAPRSAATPPATAAPTAATVRPATAAGPVAPNASAPRAPAVPAPTPAAAAELADMAA</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="9" PGL_strand="+" PGL_start="76341" PGL_stop="76826"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="76341" e_stop="76826"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.949"/>
        </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="0.949">
            <gDNA_exon_boundary e_start="76341" e_stop="76826" e_length="486"/>
          </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="76341" stop="76826"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E203362" 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>GCTGGAGACGGTACAGAAAGTAGGTGCACACTTCCCGATGGCGTCAAAAAGTGTGACTTTTCAGCCAATGGCAAAGAAGTTTAGGAAAGTGCCTTGCTCATATAAAAGGAACTTTCCTAAACATTTTTGTTTAGTTTTTGCAACTTGATAAAAACTTTTCAAGAACTCTTGCAAAGGCTACTACAAAGCAAAGACAGAATTATTCCAAGAACAACAGCAATATCTGGAGCTTTTCGTCTAGTTGTTTAGGAATACATTCTCTTGTTCTTAAATTGTAAACCATTCCTGAATCTATAAAGGAACTGGTGTGTTGTGTTAAAAGTCTAGGTTGTCCAGGTGGGATAGCTTAGTGGGTAGATTGTTTTCTACTTAGGCTTGTTAAGCAATAGAGGACTATTGCTTAATGGTAAGATTGATAACTCTTTCTTACGTTTGGTGTAATCGTGTTTTACTTTTGCTTTTGAAGATTAGTGAAAACGATTGAAA</gDNA_template>
            <first_frame> A  G  D  G  T  E  S  R  C  T  L  P  D  G  V  K  K  C  D  F  S  A  N  G  K  E  V  *  E  S  A  L  L  I  *  K  E  L  S  *  T  F  L  F  S  F  C  N  L  I  K  T  F  Q  E  L  L  Q  R  L  L  Q  S  K  D  R  I  I  P  R  T  T  A  I  S  G  A  F  R  L  V  V  *  E  Y  I  L  L  F  L  N  C  K  P  F  L  N  L  *  R  N  W  C  V  V  L  K  V  *  V  V  Q  V  G  *  L  S  G  *  I  V  F  Y  L  G  L  L  S  N  R  G  L  L  L  N  G  K  I  D  N  S  F  L  R  L  V  *  S  C  F  T  F  A  F  E  D  *  *  K  R  L  K </first_frame>
            <second_frame>  L  E  T  V  Q  K  V  G  A  H  F  P  M  A  S  K  S  V  T  F  Q  P  M  A  K  K  F  R  K  V  P  C  S  Y  K  R  N  F  P  K  H  F  C  L  V  F  A  T  *  *  K  L  F  K  N  S  C  K  G  Y  Y  K  A  K  T  E  L  F  Q  E  Q  Q  Q  Y  L  E  L  F  V  *  L  F  R  N  T  F  S  C  S  *  I  V  N  H  S  *  I  Y  K  G  T  G  V  L  C  *  K  S  R  L  S  R  W  D  S  L  V  G  R  L  F  S  T  *  A  C  *  A  I  E  D  Y  C  L  M  V  R  L  I  T  L  S  Y  V  W  C  N  R  V  L  L  L  L  L  K  I  S  E  N  D  *   </second_frame>
            <third_frame>   W  R  R  Y  R  K  *  V  H  T  S  R  W  R  Q  K  V  *  L  F  S  Q  W  Q  R  S  L  G  K  C  L  A  H  I  K  G  T  F  L  N  I  F  V  *  F  L  Q  L  D  K  N  F  S  R  T  L  A  K  A  T  T  K  Q  R  Q  N  Y  S  K  N  N  S  N  I  W  S  F  S  S  S  C  L  G  I  H  S  L  V  L  K  L  *  T  I  P  E  S  I  K  E  L  V  C  C  V  K  S  L  G  C  P  G  G  I  A  *  W  V  D  C  F  L  L  R  L  V  K  Q  *  R  T  I  A  *  W  *  D  *  *  L  F  L  T  F  G  V  I  V  F  Y  F  C  F  *  R  L  V  K  T  I  E  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C01HBa0003D15.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 90 chains have been computed
$ 
$ memory statistics:
$ 117152 bytes spliced alignments in total
$ 56 spliced alignments have been stored
$ 2092 bytes was the average size of a spliced alignment
$ 16120 bytes predicted gene locations in total
$ 9 predicted gene locations have been stored
$ 1791 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 103 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 06:52:18
-->
