<?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 01:51:24"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C03HBa0157P11-OchTs/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C03HBa0157P11-OchTs/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" 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-C03HBa0157P11-OchTs/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="cLEB-7-J7" ref_strand="+" ref_description="cLEB-7-J7">
      <seq>ctcttatcaccaccgccctctaagttcaagccttacccattttcgccgcttccccgagcagttcatagacaggggagaagcactcaaacaacgaaaaatgtaaattccttgtcttgtacttcaatgacaacaaaaattggcgttgttaacaagtggaattgttatggactggaaggaaaagttagatttagcagaagagtaatgctaatgccaatcgtgaatgcagcagtgacgcagcctgtatcagaaaatgaaagagaatcgaactttaagaggattcttctttctgatgtagtcgtgacccggcctagggatgtgctttggggaaggaaatggaattcaatggatatggcctcagctgcggtggtggtgtctatgcatttgctctgtctatttgcaccctttactttcaattacgctgctcttgggattgcatttgggttatatgtaatcactggacttctcggtattacactttcttttcacagaaacctctctcatagaagtttcaaacttcccaaatggcttgaatacttttttgcctattgtggtgtccaagcacttcagggacatccaattgattgggtgagtactcataggtaccaccatcagttttgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0157P11-OchTs/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C03HBa0157P11.1" temp_strand="-" temp_description="C03HBa0157P11.1  AC238454.1 htgs_phase:2 submitted_to_sgn_as:gi|260903626|gb|AC238454.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0157p11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="2590" stop="1287"/>
      </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="2290" g_stop="1724" g_length="567"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="567" r_length="567" r_score="0.998"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="1723" i_stop="1638" i_length="86">
            <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="1637" g_stop="1587" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="568" r_stop="618" r_length="51" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0157P11.1" gen_strand="-" ref_id="cLEB-7-J7" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>618</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0157P11.1" gen_strand="-"/>
        <rDNA rDNA_id="cLEB-7-J7" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2290" e_stop="1724"/>
          <exon e_start="1637" e_stop="1587"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTTATCACCACCGCCCTCTAAGTCCAAGCCTTACCCATTTTCGCCGCTTCCCCGAGCAGTTCATAGACAGGGGAGAAGCACTCAAACAACGAAAAATGTAAATTCCTTGTCTTGTACTTCAATGACAACAAAAATTGGCGTTGTTAACAAGTGGAATTGTTATGGACTGGAAGGAAAAGTTAGATTTAGCAGAAGAGTAATGCTAATGCCAATCGTGAATGCAGCAGTGACGCAGCCTGTATCAGAAAATGAAAGAGAATCGAACTTTAAGAGGATTCTTCTTTCTGATGTAGTCGTGACCCGGCCTAGGGATGTGCTTTGGGGAAGGAAATGGAATTCAATGGATATGGCCTCAGCTGCGGTGGTGGTGTCTATGCATTTGCTCTGTCTATTTGCACCCTTTACTTTCAATTACGCTGCTCTTGGGATTGCATTTGGGTTATATGTAATCACTGGACTTCTCGGTATTACACTTTCTTTTCACAGAAACCTCTCTCATAGAAGTTTCAAACTTCCCAAATGGCTTGAATACTTTTTTGCCTATTGTGGTGTCCAAGCACTTCAGGTAATTCAATAAAACCCCATTATTACAAGTATTGTTTTCTTATTTTCTTGTATTTGGCTTTTGAATTTACAATGTGTCTATTGTAGGGACATCCAATTGATTGGGTGAGTACTCATAGGTACCACCATCAGTTTTGT</genome_strand>
        <mrna_strand>CTCTTATCACCACCGCCCTCTAAGTTCAAGCCTTACCCATTTTCGCCGCTTCCCCGAGCAGTTCATAGACAGGGGAGAAGCACTCAAACAACGAAAAATGTAAATTCCTTGTCTTGTACTTCAATGACAACAAAAATTGGCGTTGTTAACAAGTGGAATTGTTATGGACTGGAAGGAAAAGTTAGATTTAGCAGAAGAGTAATGCTAATGCCAATCGTGAATGCAGCAGTGACGCAGCCTGTATCAGAAAATGAAAGAGAATCGAACTTTAAGAGGATTCTTCTTTCTGATGTAGTCGTGACCCGGCCTAGGGATGTGCTTTGGGGAAGGAAATGGAATTCAATGGATATGGCCTCAGCTGCGGTGGTGGTGTCTATGCATTTGCTCTGTCTATTTGCACCCTTTACTTTCAATTACGCTGCTCTTGGGATTGCATTTGGGTTATATGTAATCACTGGACTTCTCGGTATTACACTTTCTTTTCACAGAAACCTCTCTCATAGAAGTTTCAAACTTCCCAAATGGCTTGAATACTTTTTTGCCTATTGTGGTGTCCAAGCACTTCAG......................................................................................GGACATCCAATTGATTGGGTGAGTACTCATAGGTACCACCATCAGTTTTGT</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-C03HBa0157P11-OchTs/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="cLET-5-O24" ref_strand="+" ref_description="cLET-5-O24">
      <seq>agataaagcttcgaatccccaaaacctttagactcgcaaaaaaccctaattccaattccaatttcatttcatattatcagcaaaattagtttgatctgccgagaggcagacggagatttacaatgtctgcaattgtctgcggcaagagatctttcttcgaagatttacaatcgccgtcgccgacatcagcgtcgccgcctgtttccaagaagattcgttgctcttcctctacttctccggttcggttcccgaccagtttgatcgatcaactgagaactttgtttcctgatatggataatcaggttgttgagaaggctttggaagagtccggcaatgacttggatgctgctattaagaggttacatgagcttcaccttgtgtatggcgatgcaaagacagttgctgatggagagatggataatggagaaaaaccaactaacgggccagatgttcaatctgaaggtcctcctctccagaataatcttccagctgatggtgcagaatgggtggagttgcttgtcagggaaatgatgagtgctacaagtgtagatgatgccagggctagggccacaagggtgttggagagcctggagcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0157P11-OchTs/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C03HBa0157P11.1" temp_strand="+" temp_description="C03HBa0157P11.1  AC238454.1 htgs_phase:2 submitted_to_sgn_as:gi|260903626|gb|AC238454.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0157p11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="40476" stop="42562"/>
      </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="40776" g_stop="41077" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="302" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="41078" i_stop="41215" i_length="138">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="41216" g_stop="41336" g_length="121"/>
          <reference_exon_boundary r_type="cDNA" r_start="303" r_stop="423" r_length="121" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="41337" i_stop="42090" i_length="754">
            <donor d_prob="0.999" 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="42091" g_stop="42262" g_length="172"/>
          <reference_exon_boundary r_type="cDNA" r_start="424" r_stop="595" r_length="172" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0157P11.1" gen_strand="+" ref_id="cLET-5-O24" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>595</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0157P11.1" gen_strand="+"/>
        <rDNA rDNA_id="cLET-5-O24" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40776" e_stop="41077"/>
          <exon e_start="41216" e_stop="41336"/>
          <exon e_start="42091" e_stop="42262"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGATAAAGCTTCGAATCCCCAAAACCTTTAGACTCGCAAAAAACCCTAATTCCAATTCCAATTTCATTTCATATTATCAGCAAAATTAGTTTGATCTGCCGAGAGGCAGACGGAGATTTACAATGTCTGCAATTGTCTGCGGCAAGAGATCTTTCTTCGAAGATTTACAATCGCCGTCGCCGACATCAGCGTCGCCGCCTGTTTCCAAGAAGATTCGTTGCTCTTCCTCTACTTCTCCGGTTCGGTTCCCGACCAGTTTGATCGATCAACTGAGAACTTTGTTTCCTGATATGGATAATCAGGTTTTTTCATTTTCTTTCTTGTTTTTAGTTATCTTTTTTAAATTCACAGTTTTGATGTTTTCCTTGTATAACAATATCTGATATATATATATATATATATATATATATATGTTTATCTTTTTATGATGTACTGTTTAGGTTGTTGAGAAGGCTTTGGAAGAGTCCGGCAATGACTTGGATGCTGCTATTAAGAGGTTACATGAGCTTCACCTTGTGTATGGCGATGCAAAGACAGTTGCTGATGGAGAGATGGATAATGGTATGTGTCCAATAATTACTTCCCCTATTTGCCTGATTCTTTTGATGCTCCAGGTTTTTAGCTGTCGCACTTGCTTATTATACATTGATATCCCATTTATGAGGTTGTAAAGAGATACATATATATGAGAATGTGATGTTTCTCTGGTGTTGAATAATTGTCGGGAGAAGTAGAACTCTCTGTCTTGCATCAACATAAGTAGATGGTTGGATGATCAATTTGTGCTGATTAATCATGTTGTTGAATCAATACTAATATTCCTAGAATGGTGTTTTTAGACTGCCTGATATGGGGACATCAAGTATTAGTTTTATTGTGCTTTGTAGTCTCTGAAAGAGACATTTAGACTTTTAATGGGAAGTTTCTAACCTTGTCAATCAACAATCAGTAGATGAAGTCTCAAACTGAGACTAGTTGGGGTGGCTATAAGAGTACTCTATATCTATTCAATTGTATTGCTGCCCATTTCATCCTTTATACATGAGAGCAAGAAGGTAATAATAAACTAGCATGAGATGTCAAGTGTTTTTATATCTACATAACTGCATGTCTTTTACGTGTATGTGTTTACTGTAGAGGTGTATGAAACTATTTATGTGAGCTCTCACGTGTTCTAGATAAGTAGCTCTCTGATGTATATCTATTATTATAAGGATGTTAAGACTACCTTTGTGCGTCCACCACTTTTTGGTCTGTAATGTTTACCATGCTACTTCTTGTGAATCACAAACCTAATCAATCAAGCCTCATGCAGGAGAAAAACCAACTAACGGGCCAGATGTTCAATCTGAAGGTCCTCCTCTCCAGAATAATCTTCCAGCTGATGGTGCAGAATGGGTGGAGTTGCTTGTCAGGGAAATGATGAGTGCTACAAGTGTAGATGATGCCAGGGCTAGGGCCACAAGGGTGTTGGAGAGCCTGGAGCG</genome_strand>
        <mrna_strand>AGATAAAGCTTCGAATCCCCAAAACCTTTAGACTCGCAAAAAACCCTAATTCCAATTCCAATTTCATTTCATATTATCAGCAAAATTAGTTTGATCTGCCGAGAGGCAGACGGAGATTTACAATGTCTGCAATTGTCTGCGGCAAGAGATCTTTCTTCGAAGATTTACAATCGCCGTCGCCGACATCAGCGTCGCCGCCTGTTTCCAAGAAGATTCGTTGCTCTTCCTCTACTTCTCCGGTTCGGTTCCCGACCAGTTTGATCGATCAACTGAGAACTTTGTTTCCTGATATGGATAATCAG..........................................................................................................................................GTTGTTGAGAAGGCTTTGGAAGAGTCCGGCAATGACTTGGATGCTGCTATTAAGAGGTTACATGAGCTTCACCTTGTGTATGGCGATGCAAAGACAGTTGCTGATGGAGAGATGGATAATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAGAAAAACCAACTAACGGGCCAGATGTTCAATCTGAAGGTCCTCCTCTCCAGAATAATCTTCCAGCTGATGGTGCAGAATGGGTGGAGTTGCTTGTCAGGGAAATGATGAGTGCTACAAGTGTAGATGATGCCAGGGCTAGGGCCACAAGGGTGTTGGAGAGCCTGGAGCG</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-C03HBa0157P11-OchTs/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="C2_At1g80030" ref_strand="+" ref_description="C2_At1g80030">
      <seq>ttctttcttgtgaaaaaaaagaagcaagcgagcatcaaggcgcgggacagttaaccagtcttctgtagtccaatgaactcgacggcaatggccagcacagcatctctatctctccgtccttcttctctcatctccgaccgttcccattctccctgtcttcctccttcctcctcctctagtttcttctccggtgggacccgcttgtgggcccatacgaagtttatatccatttccttttcttcatctcagaagattccgggacgacgttttgggagattggtggttgctgctgctgccgattattactctacacttggggtcccaaaatctgctaacagtaaagacatcaaggctgcttatcgaaggttagctcgacagtatcaccctgatgtcaacaaggaacctaatgcaccagaaaagtttaaggagattaaagatgcttatgagatactatcagatgacaaaaaaagagcactatatgatcaatatggtgaagccggggtgaaaagttctgtaggggcccaagccggtgcttacacgacaaatccttttgatctatttgagacattctttggaccttctatgggtggttttggaatggatggagctggatttggaacgcgtcgccgcagtactgttaccaagggtgaagatctacgttacgacatgacattagaattttcagcggctatctttggagctgaaaaagatttcgagctttcacatcttgaaacttgtgaggtctgtgtgggaactggggcaaaggtaggctccaaaatgaggatatgttcaacttgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0157P11-OchTs/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C03HBa0157P11.1" temp_strand="+" temp_description="C03HBa0157P11.1  AC238454.1 htgs_phase:2 submitted_to_sgn_as:gi|260903626|gb|AC238454.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0157p11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="44346" stop="48591"/>
      </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="44646" g_stop="45023" g_length="378"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="378" r_length="378" r_score="0.992"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45024" i_stop="45573" i_length="550">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="45574" g_stop="45642" g_length="69"/>
          <reference_exon_boundary r_type="cDNA" r_start="379" r_stop="447" r_length="69" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="45643" i_stop="46020" i_length="378">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="46021" g_stop="46113" g_length="93"/>
          <reference_exon_boundary r_type="cDNA" r_start="448" r_stop="540" r_length="93" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="46114" i_stop="47273" i_length="1160">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="47274" g_stop="47392" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="541" r_stop="659" r_length="119" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="47393" i_stop="48152" i_length="760">
            <donor d_prob="0.905" d_score="1.00"/>
            <acceptor a_prob="0.981" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="48153" g_stop="48291" g_length="139"/>
          <reference_exon_boundary r_type="cDNA" r_start="660" r_stop="798" r_length="139" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0157P11.1" gen_strand="+" ref_id="C2_At1g80030" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>798</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0157P11.1" gen_strand="+"/>
        <rDNA rDNA_id="C2_At1g80030" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="44646" e_stop="45023"/>
          <exon e_start="45574" e_stop="45642"/>
          <exon e_start="46021" e_stop="46113"/>
          <exon e_start="47274" e_stop="47392"/>
          <exon e_start="48153" e_stop="48291"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTTTCTTGTGAAAAAAAAGAAGCAAGCAAGCATCAAAACGCGGGACAGTTAACCAGTCTTCTGTAGTCCAATGAACTCGACGGCAATGGCCAGCACAGCATCTCTATCTCTCCGTCCTTCTTCTCTCATCTCCGACCGTTCCCATTCTCCCTGTCTTCCTCCTTCCTCCTCCTCTAGTTTCTTCTCCGGTGGGACCCGCTTGTGGGCCCATACGAAGTTTATATCCATTTCCTTTTCTTCATCTCAGAAGATTCCGGGACGACGTTTTGGGAGATTGGTGGTTGCTGCTGCTGCCGATTATTACTCTACACTTGGGGTCCCAAAATCTGCTAACAGTAAAGACATCAAGGCTGCTTATCGAAGGTTAGCTCGACAGGTACTGCAATCCTTTCTTTCTTATTCTTAATTCTAACTATTATTCACTGTCATTGTGAGAATCAATTTTTAAGAAAACAACCAAATGATGCTCCTTCGGAATTTTTGAGAAAACGGTTACACAAAATGATGATTTTCAAAATTGTGACTTAGGTTGGTCGTGCATTTGAGCTCCAAGAAAGTAATCTTGTGGCTGACCAGTGCATTTTCCTTTGGGATAACAGCACAAGTTGCTAATTATTAGTTTCCGTTCCTATTTCAATTATTTTATGCTACTGTTTGATCTCTTTATTTGTATGGTTGAGCTGCCTCTATTCCGGAAGCTGATGCGTTATGAATCATTGGTCTGCATGTGTTATCTTTTTCTTTGTGTTGTTGATTGTTTACTTTCTGTGCGTGTCCATATGATACATACTCTAGTAGGATAATGTTACCACTACATGCTAGACTTTCACCCAGTTCTTTGGGCCTTTACAATTAAGATAGTTCCACAGCAACACATTATTCTATTCTCCATTAATCCGTTTCTGACTTTTGATATTGTTTTATAGTATCACCCTGATGTCAACAAGGAACCTAATGCACCAGAAAAGTTTAAGGAGATTAAAGATGCTTATGAGGTAAATATGAAAATTTACTATTTTTAACATCTGAACCCTGGTAGTTTTCTTATTTCCTTCTGAAACTATTGACCTTTAGATATATGTGGCATTGCCATCTTTATGTCCCCTCCCCTCCCCTTTACGTGATGGAATTACTGTTTATCCACTTATTCAATCCGTTTCTTCATTCCTCTACCTTGGAAACTGCATTGGTTGTCTGTCTACTAAATCCAAAGTGTTCCATTTTCTCGTATATTTTGAAAGTTGTGTGCTTTTTAACTAAGGTAGACCTTAGAAATTCCTACTTTCAAACTTTGGAATCTTGGTGTTAGTATGTTTACATATTTCTCTTTTGTTTTTAACTCTTTGAATCAACTCTGAAGTTTCACTTTCCAGATACTATCAGATGACAAAAAAAGAGCACTATATGATCAATATGGTGAAGCCGGGGTGAAAAGTTCTGTAGGGGCCCAAGCCGGTGCTTACACGGTATGCCATAAATTCTTATTTTTTTTGTTTTCAGCGTGATATTATTGCTGTCATTCCAAAAGGGTAATCTTAATTTCCTTTAGTCCTTCCAAAATTAACATCCACTTTATTTAAAAGAGAAGTTTTAAGTCATGTTATAGAACACACATTGTATGCCCAACTTTTACTCTTCTTATGCAACTTCTATTATATTTGTCGATAACTTTTATGGCCCAGCATGTTATCCATACACAACTCATTTTCAACTTTTTTCTTAGTTCCCCTGCCAATTCCAAGTAGGACGATGAAATTGTGACTTGGAAGTACTATCATGGCTTATCAAAGAAAAGATACATATCATGATAAAATTTTCTCACGTAGTTACTTGGCTCCCTCTGATGTGAAGTCCTTATGTTGCTTTTGCTCATATCGTTTGTTTAATTCATGTTTTTCTCTAATTGGTGACTTTTAGGTGTGCCATCTATTTTAGATTACATACTCAATATAGTTCAGTTATGTTCTTGTACTATAGTTTACATACATAATATCTGCAAGTTTTTGGGAGTTCTAGGTTTCCAGTATTTGTCCCTCCAACCACTATAAGTGCTAATTCTTTTGCCTTCTATTGTTCCCATCCCCACTTGAAGAGGAATTGACAAGGTTCATAGAATTCTTTGTGGTCATTCAATTGTAAATGGGAAAAGAGTTCTTTTCACTTATGTTGAATGACACACCAGGGGTAATATCAGTTACTTTGCCATACCTCCTGGCTCATCCCACCACTTAAAAAGGAGTTAAATATTAGTTCAAGTAAGATTATGGATGAAAAGAATAGAATACTTCATGCCTATGTAGGTAAATGTATATCAATTTGCATATAGAATGCCAAATGAAAGAGTTGATGCACAACTTTGGTTTCTGTTTACATGCTGTCGTTTTGCATGCTAGCCAAAAAATTGGGTTTTGTTTGATGTAGGACTGAGAGTTGAGTCTAAGTAAATGTGTCAATGTGTGAAGGTTGCGTTCCTAGATGCTATTCTTCTAATTATTCACTTCCCAAAAAGGGTAAAATGAGTAGGTCGTAGAAGAAAGTGGGAAGTTACATAATAAGTGCATGGTCATATGGAAATTATCTTTAACCCTAGTCTGTTTCTCTTTCTTTTTGGTGAATTTTACTGCAGACAAATCCTTTTGATCTATTTGAGACATTCTTTGGACCTTCTATGGGTGGTTTTGGAATGGATGGAGCTGGATTTGGAACGCGTCGCCGCAGTACTGTTACCAAGGGTGAAGATCTACGGTAAGTCAGTAGCTGATTGGAATGATTTGACACTAACCATCTTTATTAGAATTCACGTGTGTACTTATAACAAAAAGGATTTTGTCATAAGTATACTTCGTTAACCATGAGAAGAAGCAGTTTCTGATAACTAATATGCAACATAGTATGACAGGTAAACTTAGGAGGAATATAGCCTCTAGTCGATTTTATAGCAGTGGTGAAGCATATAGTTCCCTTAGAATGATAATTTGTAGAATAAAGTAGACCTTCTCGAAATCATGGTCACAATTATTGCTAACCAAGAGGGGAAAGTTCATTCGGACAACTTTATAGGCTAACATAGTATGATTTGACATTTGGTAAAACATAAGAACCAACAAGTCCTAACACCATTCCAAAGTAGTGCTGGAGTCTTCATTAGGAATCAGTTACCAGTTTCATTTATATTCATGTTATCTGTACTTATAACCTGAAGAAAAAACTGAGTATGATATTCAGCATACTTTTGTGCTTGAAATGGTCTTTGCATGAATTACAATTTACAGGTATGCTTTTCTTTAACATATCAATCCTCTGACAGAAAGAACTATGCTAAGTTCAAACTGGACGGGCTAATTGTGTATACTTGCACCAGTGAAGCATAAAATTTATCCTAGGAACAATGCATACTTTAGAAGCATAAAAATAGAAATAGATAGACACTGTTTCATAAACACTAAGAGTTTGCAGATAAAATGATATGATGTCAAGCCTAATTTTGCACTTCAATGGCTTTCAGTTACGACATGACATTAGAATTTTCAGCGGCTATCTTTGGAGCTGAAAAAGATTTCGAGCTTTCACATCTTGAAACTTGTGAGGTCTGTGTGGGAACTGGGGCAAAGGTAGGCTCCAAAATGAGGATATGTTCAACTTGT</genome_strand>
        <mrna_strand>TTCTTTCTTGTGAAAAAAAAGAAGCAAGCGAGCATCAAGGCGCGGGACAGTTAACCAGTCTTCTGTAGTCCAATGAACTCGACGGCAATGGCCAGCACAGCATCTCTATCTCTCCGTCCTTCTTCTCTCATCTCCGACCGTTCCCATTCTCCCTGTCTTCCTCCTTCCTCCTCCTCTAGTTTCTTCTCCGGTGGGACCCGCTTGTGGGCCCATACGAAGTTTATATCCATTTCCTTTTCTTCATCTCAGAAGATTCCGGGACGACGTTTTGGGAGATTGGTGGTTGCTGCTGCTGCCGATTATTACTCTACACTTGGGGTCCCAAAATCTGCTAACAGTAAAGACATCAAGGCTGCTTATCGAAGGTTAGCTCGACAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATCACCCTGATGTCAACAAGGAACCTAATGCACCAGAAAAGTTTAAGGAGATTAAAGATGCTTATGAG..........................................................................................................................................................................................................................................................................................................................................................................................ATACTATCAGATGACAAAAAAAGAGCACTATATGATCAATATGGTGAAGCCGGGGTGAAAAGTTCTGTAGGGGCCCAAGCCGGTGCTTACACG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAAATCCTTTTGATCTATTTGAGACATTCTTTGGACCTTCTATGGGTGGTTTTGGAATGGATGGAGCTGGATTTGGAACGCGTCGCCGCAGTACTGTTACCAAGGGTGAAGATCTACG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTACGACATGACATTAGAATTTTCAGCGGCTATCTTTGGAGCTGAAAAAGATTTCGAGCTTTCACATCTTGAAACTTGTGAGGTCTGTGTGGGAACTGGGGCAAAGGTAGGCTCCAAAATGAGGATATGTTCAACTTGT</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-C03HBa0157P11-OchTs/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="C2_At3g15900" ref_strand="+" ref_description="C2_At3g15900">
      <seq>tttcttctgagaacatggaagctaccgcaatgcgaccaaacgctgccaagcttctggtgaactgctcaacgccggtgtcatttcttcagccgccgtctgctgccggagttgtcttcctcgttccaaaatatgttcgattgacttcctcatttaagacgttcatgattgcccgagcttccgaccctaaaactgaccaagcaagtccgagcactgatgaacctggccttcctttcctaccgcaggaggattcgaattttttggtgaaactgggagtaggttcagtggcgggaggagcagcgataaagtacggaagtgtaattttctcagagataacaacaccaaacatttcattagctctgtttatgataacagctccgatgattgttgcggtggtgctattattcttacaaagccgtacagattcaacttctgcgtgaacaaagctcttcttcttctgtactaaggacatctcaaatttgtaccagatgatttttatacattctttcctggattttgtagctcctgtgtcacaattaaatatttacacatgtttaataaaaccttaaattacatataaaaaaatccaagtacaatctaaaaaaaaaaaaaaaaaaaaactcga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0157P11-OchTs/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C03HBa0157P11.1" temp_strand="-" temp_description="C03HBa0157P11.1  AC238454.1 htgs_phase:2 submitted_to_sgn_as:gi|260903626|gb|AC238454.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0157p11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="56787" stop="55522"/>
      </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="56487" g_stop="56246" g_length="242"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="242" r_length="242" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="56245" i_stop="56178" i_length="68">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="56177" g_stop="55823" g_length="355"/>
          <reference_exon_boundary r_type="cDNA" r_start="243" r_stop="596" r_length="354" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="597" polyA_stop="618"/>
      <MATCH_line gen_id="C03HBa0157P11.1" gen_strand="-" ref_id="C2_At3g15900" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>597</cumulative_length_of_scored_exons>
        <coverage percentage="0.960" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0157P11.1" gen_strand="-"/>
        <rDNA rDNA_id="C2_At3g15900" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="56487" e_stop="56246"/>
          <exon e_start="56177" e_stop="55823"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTTCTGAGAACATGGAAGCTACCGCAATGCGACCAAACGCTGCCAAGCTTCTGGTGAACTGCTCAACGCCGGTGTCATTTCTTCAGCCGCCGTCTGCTGCCGGAGTTGTCTTCCTCGTTCCAAAATATGTTCGATTGACTTCCTCATTTAAGACGTTCATGATTGCCCGAGCTTCCGACCCTAAAACTGACCAAGCAAGTCCGAGCACTGATGAACCTGGCCTTCCTTTCCTACCGCAGGTTACTCCCACACCACTTCATTATATTCACATTTATATTCTCTTGTTGAAATTTTGTGATAATTGCAGGAGGATTCGAATTTTTTGGTGAAACTGGGAGTAGGTTCAGTGGCGGGAGGAGCAGCGATAAAGTACGGAAGTGTAATTTTCTCAGAGATAACAACACCAAACATTTCATTAGCTCTGTTTATGATAACAGCTCCGATGATTGTTGCGGTGGTGCTATTATTCTTACAAAGCCGTACAGATTCAACTTCTGCGTGAACAAAGCTCTTCTTCTTCTGTACTAAGGACATCTCAAATTTGTACCAGATGATTTTTATACATTCTTTCCTGGATTTTGTAGCTCCTGTGTCACAATTAAATATTTACACATGTTTAATAAAACCTTAAATTACATATATATAAGATCCAAGTACAATCT</genome_strand>
        <mrna_strand>TTTCTTCTGAGAACATGGAAGCTACCGCAATGCGACCAAACGCTGCCAAGCTTCTGGTGAACTGCTCAACGCCGGTGTCATTTCTTCAGCCGCCGTCTGCTGCCGGAGTTGTCTTCCTCGTTCCAAAATATGTTCGATTGACTTCCTCATTTAAGACGTTCATGATTGCCCGAGCTTCCGACCCTAAAACTGACCAAGCAAGTCCGAGCACTGATGAACCTGGCCTTCCTTTCCTACCGCAG....................................................................GAGGATTCGAATTTTTTGGTGAAACTGGGAGTAGGTTCAGTGGCGGGAGGAGCAGCGATAAAGTACGGAAGTGTAATTTTCTCAGAGATAACAACACCAAACATTTCATTAGCTCTGTTTATGATAACAGCTCCGATGATTGTTGCGGTGGTGCTATTATTCTTACAAAGCCGTACAGATTCAACTTCTGCGTGAACAAAGCTCTTCTTCTTCTGTACTAAGGACATCTCAAATTTGTACCAGATGATTTTTATACATTCTTTCCTGGATTTTGTAGCTCCTGTGTCACAATTAAATATTTACACATGTTTAATAAAACCTTAAATTACATATA-AAAAAATCCAAGTACAATCT</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-C03HBa0157P11-OchTs/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="C2_At1g15980" ref_strand="+" ref_description="C2_At1g15980">
      <seq>atcagattcaaaagcttctatgcagtcaaggggtgatactgatagcttgctcccaattgagatatgggctgagatagcagaggagataaggggagtcaagccagtttttgtcattccgcatgaaaaagaaagagaaaatgtggaagatgcagttggttatgatgctagtatagtgttcataaccacccctggacagcttgctgctcttgttgatgactctgctggagtgatagctacaaatacagctgccatacaacttgctcacgcacgtggaaaaccaagtattgggctattctgctctgaggataaggccagaagttttgttcccaatgcagaagcaaagaaatgtgcaactatttcatctaagactggaaaattggttgatattgatgttgaagctgtgaagagtgctgttcaaattttcaccatgcccctagcaatcttctaatattgcatcttccagttctcttccatatagtaataaagtattcctgtaattgttactattccattttcttctcaattgtaattaatagaagcggaaagatattttccttctttttttatctcaacaacaaaggaatatgaagatatgttatttatcaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0157P11-OchTs/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C03HBa0157P11.1" temp_strand="-" temp_description="C03HBa0157P11.1  AC238454.1 htgs_phase:2 submitted_to_sgn_as:gi|260903626|gb|AC238454.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0157p11, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="101730" stop="100042"/>
      </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="101430" g_stop="101341" g_length="90"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="90" r_length="90" r_score="0.967"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="101340" i_stop="101188" i_length="153">
            <donor d_prob="0.000" d_score="0.96"/>
            <acceptor a_prob="0.994" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="101187" g_stop="101082" g_length="106"/>
          <reference_exon_boundary r_type="cDNA" r_start="91" r_stop="196" r_length="106" r_score="0.972"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="101081" i_stop="100828" i_length="254">
            <donor d_prob="0.998" d_score="0.98"/>
            <acceptor a_prob="0.767" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="100827" g_stop="100742" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="197" r_stop="282" r_length="86" r_score="0.988"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="100741" i_stop="100646" i_length="96">
            <donor d_prob="0.987" d_score="0.98"/>
            <acceptor a_prob="0.962" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="100645" g_stop="100313" g_length="333"/>
          <reference_exon_boundary r_type="cDNA" r_start="283" r_stop="612" r_length="330" r_score="0.916"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0157P11.1" gen_strand="-" ref_id="C2_At1g15980" ref_strand="+">
        <total_alignment_score>0.943</total_alignment_score>
        <cumulative_length_of_scored_exons>615</cumulative_length_of_scored_exons>
        <coverage percentage="1.005" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0157P11.1" gen_strand="-"/>
        <rDNA rDNA_id="C2_At1g15980" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="101430" e_stop="101341"/>
          <exon e_start="101187" e_stop="101082"/>
          <exon e_start="100827" e_stop="100742"/>
          <exon e_start="100645" e_stop="100313"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCAGATTCAAAAGCTTCTATGCAGTCAAGGGGTGATATTGATAGCTTGCTCCCTATTGAGATTTGGGCTGAGATAGCAGAGGAGATAAGGTATAATGTCAGTATTTTATTCTCTGTCGGAAAAAGGGCCGACTCGACTACATGGTCATTTTTAGTTCTCGAATTAGCTGATTAGCCTTTTTTCATCAAATGCAAGAAAATTTGTGAGCTATACTAATGGTTTGTAAACTATCATTTGATCAGGGGAGTCAAGCCAGTTTTTGTCATTCCACACGAAAAAGAAAGAGAAAATGTGGAAGATGCAGTTGGTTACGATGCTAGTATAGTGTTCATAACCACCCCTGGACAGGTTTGTTTTCTCAACCACTTTCACAATATCAATGACCGATGATCAACCAGTGTTTAGTTGAACAACCATAAAAGAAGAAATTGGTTGGAGTCACAGATATAATGGCAACAATTTACAGTCATATTCAAGGAGGGTATAATCAAATGAAAGTAGTTTGCTTCTGTTGCATGTTTAGTGGCAGCTTTAACTATAGTCTATATACCGCGGGATGAGCACTAGAAAACTAACAGTCCCTGCATATTTCTCTGCCTTAGCTTGCTGCTCTTGTTGATGACTCTGCTGGAGTGATAGCTACAAATACAGCTGCGATACAACTTGCTCACGCACGTGGAAAACCAAGGTAATGTCATCTACTACAAGCTGTAGACGCGGAAATTTTTTGCACCTTCTGCTGTCTTTGTGGGGAGGTTGATATATCTTGGTTTTGTCTGTACAGTATTGGGCTATTCTGCTCTGAGGATAAGGCCAGAAGTTTTGTTCCCAATGCAGAAGCAAAGAAATGTGCAACTATTTCATCAAATACTGGAAAATTGGTTGATATTGATGTTGAAGCTGTGAAGAGTGCTGTTCAAATTTTCACCATGCCCCTAGCAATCTTCTAAATATTATACATCCTCCAGTTCTCTTACATATAGTAATTAAGTATTCCTGTAATTGTTACTAGTTCCATTTTCTTCTCAATTGTAATTAATAGAAGCGGAAATATA-TATATTCGTTCTTTTTTCTCAACAGAAAAGGAATATGGAGATATGTTATTTATCAATGTGAC</genome_strand>
        <mrna_strand>ATCAGATTCAAAAGCTTCTATGCAGTCAAGGGGTGATACTGATAGCTTGCTCCCAATTGAGATATGGGCTGAGATAGCAGAGGAGATAAG.........................................................................................................................................................GGGAGTCAAGCCAGTTTTTGTCATTCCGCATGAAAAAGAAAGAGAAAATGTGGAAGATGCAGTTGGTTATGATGCTAGTATAGTGTTCATAACCACCCCTGGACAG..............................................................................................................................................................................................................................................................CTTGCTGCTCTTGTTGATGACTCTGCTGGAGTGATAGCTACAAATACAGCTGCCATACAACTTGCTCACGCACGTGGAAAACCAAG................................................................................................TATTGGGCTATTCTGCTCTGAGGATAAGGCCAGAAGTTTTGTTCCCAATGCAGAAGCAAAGAAATGTGCAACTATTTCATCTAAGACTGGAAAATTGGTTGATATTGATGTTGAAGCTGTGAAGAGTGCTGTTCAAATTTTCACCATGCCCCTAGCAATCTTCT-AATA-T-TGCATCTTCCAGTTCTCTTCCATATAGTAATAAAGTATTCCTGTAATTGTTACTA-TTCCATTTTCTTCTCAATTGTAATTAATAGAAGCGGAAAGATATTTTCCTTCTTTTTTTATCTCAACAACAAAGGAATATGAAGATATGTTATTTATCAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>5</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="2290" PGL_stop="1587"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="2290" e_stop="1724"/>
            <exon e_start="1637" e_stop="1587"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.998" e_score="0.998"/>
          <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="0.998">
            <gDNA_exon_boundary e_start="2290" e_stop="1724" e_length="567"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.998">
            <gDNA_intron_boundary i_start="1723" i_stop="1638" i_length="86"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="1637" e_stop="1587" e_length="51"/>
          </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="2290" stop="1724"/>
              <exon start="1637" stop="1587"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="cLEB-7-J7" 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>CTCTTATCACCACCGCCCTCTAAGTCCAAGCCTTACCCATTTTCGCCGCTTCCCCGAGCAGTTCATAGACAGGGGAGAAGCACTCAAACAACGAAAAATGTAAATTCCTTGTCTTGTACTTCAATGACAACAAAAATTGGCGTTGTTAACAAGTGGAATTGTTATGGACTGGAAGGAAAAGTTAGATTTAGCAGAAGAGTAATGCTAATGCCAATCGTGAATGCAGCAGTGACGCAGCCTGTATCAGAAAATGAAAGAGAATCGAACTTTAAGAGGATTCTTCTTTCTGATGTAGTCGTGACCCGGCCTAGGGATGTGCTTTGGGGAAGGAAATGGAATTCAATGGATATGGCCTCAGCTGCGGTGGTGGTGTCTATGCATTTGCTCTGTCTATTTGCACCCTTTACTTTCAATTACGCTGCTCTTGGGATTGCATTTGGGTTATATGTAATCACTGGACTTCTCGGTATTACACTTTCTTTTCACAGAAACCTCTCTCATAGAAGTTTCAAACTTCCCAAATGGCTTGAATACTTTTTTGCCTATTGTGGTGTCCAAGCACTTCAG : GGACATCCAATTGATTGGGTGAGTACTCATAGGTACCACCATCAGTTTTGT</gDNA_template>
            <first_frame> L  L  S  P  P  P  S  K  S  K  P  Y  P  F  S  P  L  P  R  A  V  H  R  Q  G  R  S  T  Q  T  T  K  N  V  N  S  L  S  C  T  S  M  T  T  K  I  G  V  V  N  K  W  N  C  Y  G  L  E  G  K  V  R  F  S  R  R  V  M  L  M  P  I  V  N  A  A  V  T  Q  P  V  S  E  N  E  R  E  S  N  F  K  R  I  L  L  S  D  V  V  V  T  R  P  R  D  V  L  W  G  R  K  W  N  S  M  D  M  A  S  A  A  V  V  V  S  M  H  L  L  C  L  F  A  P  F  T  F  N  Y  A  A  L  G  I  A  F  G  L  Y  V  I  T  G  L  L  G  I  T  L  S  F  H  R  N  L  S  H  R  S  F  K  L  P  K  W  L  E  Y  F  F  A  Y  C  G  V  Q  A  L  Q  :  G  H  P  I  D  W  V  S  T  H  R  Y  H  H  Q  F  C </first_frame>
            <second_frame>  S  Y  H  H  R  P  L  S  P  S  L  T  H  F  R  R  F  P  E  Q  F  I  D  R  G  E  A  L  K  Q  R  K  M  *  I  P  C  L  V  L  Q  *  Q  Q  K  L  A  L  L  T  S  G  I  V  M  D  W  K  E  K  L  D  L  A  E  E  *  C  *  C  Q  S  *  M  Q  Q  *  R  S  L  Y  Q  K  M  K  E  N  R  T  L  R  G  F  F  F  L  M  *  S  *  P  G  L  G  M  C  F  G  E  G  N  G  I  Q  W  I  W  P  Q  L  R  W  W  C  L  C  I  C  S  V  Y  L  H  P  L  L  S  I  T  L  L  L  G  L  H  L  G  Y  M  *  S  L  D  F  S  V  L  H  F  L  F  T  E  T  S  L  I  E  V  S  N  F  P  N  G  L  N  T  F  L  P  I  V  V  S  K  H  F  R :   D  I  Q  L  I  G  *  V  L  I  G  T  T  I  S  F   </second_frame>
            <third_frame>   L  I  T  T  A  L  *  V  Q  A  L  P  I  F  A  A  S  P  S  S  S  *  T  G  E  K  H  S  N  N  E  K  C  K  F  L  V  L  Y  F  N  D  N  K  N  W  R  C  *  Q  V  E  L  L  W  T  G  R  K  S  *  I  *  Q  K  S  N  A  N  A  N  R  E  C  S  S  D  A  A  C  I  R  K  *  K  R  I  E  L  *  E  D  S  S  F  *  C  S  R  D  P  A  *  G  C  A  L  G  K  E  M  E  F  N  G  Y  G  L  S  C  G  G  G  V  Y  A  F  A  L  S  I  C  T  L  Y  F  Q  L  R  C  S  W  D  C  I  W  V  I  C  N  H  W  T  S  R  Y  Y  T  F  F  S  Q  K  P  L  S  *  K  F  Q  T  S  Q  M  A  *  I  L  F  C  L  L  W  C  P  S  T  S   : G  T  S  N  *  L  G  E  Y  S  *  V  P  P  S  V  L  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0157P11.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="2290" stop="1724"/>
                    <exon start="1637" stop="1587"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>618</number_coding_nucleotides>
                  <number_encoded_amino_acids>206</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LLSPPPSKSKPYPFSPLPRAVHRQGRSTQTTKNVNSLSCTSMTTKIGVVNKWNCYGLEGKVRFSRRVMLMPIVNAAVTQPVSENERESNFKRILLSDVVVTRPRDVLWGRKWNSMDMASAAVVVSMHLLCLFAPFTFNYAALGIAFGLYVITGLLGITLSFHRNLSHRSFKLPKWLEYFFAYCGVQALQGHPIDWVSTHRYHHQFC</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="40776" PGL_stop="42262"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="40776" e_stop="41077"/>
            <exon e_start="41216" e_stop="41336"/>
            <exon e_start="42091" e_stop="42262"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.994" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.000" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="40776" e_stop="41077" e_length="302"/>
          </exon>
          <intron i_serial="1" don_prob="0.994" acc_prob="1.000">
            <gDNA_intron_boundary i_start="41078" i_stop="41215" i_length="138"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="41216" e_stop="41336" e_length="121"/>
          </exon>
          <intron i_serial="2" don_prob="0.999" acc_prob="0.000">
            <gDNA_intron_boundary i_start="41337" i_stop="42090" i_length="754"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="42091" e_stop="42262" e_length="172"/>
          </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="40776" stop="41077"/>
              <exon start="41216" stop="41336"/>
              <exon start="42091" stop="42262"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="cLET-5-O24" 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>AGATAAAGCTTCGAATCCCCAAAACCTTTAGACTCGCAAAAAACCCTAATTCCAATTCCAATTTCATTTCATATTATCAGCAAAATTAGTTTGATCTGCCGAGAGGCAGACGGAGATTTACAATGTCTGCAATTGTCTGCGGCAAGAGATCTTTCTTCGAAGATTTACAATCGCCGTCGCCGACATCAGCGTCGCCGCCTGTTTCCAAGAAGATTCGTTGCTCTTCCTCTACTTCTCCGGTTCGGTTCCCGACCAGTTTGATCGATCAACTGAGAACTTTGTTTCCTGATATGGATAATCAG : GTTGTTGAGAAGGCTTTGGAAGAGTCCGGCAATGACTTGGATGCTGCTATTAAGAGGTTACATGAGCTTCACCTTGTGTATGGCGATGCAAAGACAGTTGCTGATGGAGAGATGGATAATG : GAGAAAAACCAACTAACGGGCCAGATGTTCAATCTGAAGGTCCTCCTCTCCAGAATAATCTTCCAGCTGATGGTGCAGAATGGGTGGAGTTGCTTGTCAGGGAAATGATGAGTGCTACAAGTGTAGATGATGCCAGGGCTAGGGCCACAAGGGTGTTGGAGAGCCTGGAGCG</gDNA_template>
            <first_frame> R  *  S  F  E  S  P  K  P  L  D  S  Q  K  T  L  I  P  I  P  I  S  F  H  I  I  S  K  I  S  L  I  C  R  E  A  D  G  D  L  Q  C  L  Q  L  S  A  A  R  D  L  S  S  K  I  Y  N  R  R  R  R  H  Q  R  R  R  L  F  P  R  R  F  V  A  L  P  L  L  L  R  F  G  S  R  P  V  *  S  I  N  *  E  L  C  F  L  I  W  I  I  R :   L  L  R  R  L  W  K  S  P  A  M  T  W  M  L  L  L  R  G  Y  M  S  F  T  L  C  M  A  M  Q  R  Q  L  L  M  E  R  W  I  M  :  E  K  N  Q  L  T  G  Q  M  F  N  L  K  V  L  L  S  R  I  I  F  Q  L  M  V  Q  N  G  W  S  C  L  S  G  K  *  *  V  L  Q  V  *  M  M  P  G  L  G  P  Q  G  C  W  R  A  W  S  </first_frame>
            <second_frame>  D  K  A  S  N  P  Q  N  L  *  T  R  K  K  P  *  F  Q  F  Q  F  H  F  I  L  S  A  K  L  V  *  S  A  E  R  Q  T  E  I  Y  N  V  C  N  C  L  R  Q  E  I  F  L  R  R  F  T  I  A  V  A  D  I  S  V  A  A  C  F  Q  E  D  S  L  L  F  L  Y  F  S  G  S  V  P  D  Q  F  D  R  S  T  E  N  F  V  S  *  Y  G  *  S   : G  C  *  E  G  F  G  R  V  R  Q  *  L  G  C  C  Y  *  E  V  T  *  A  S  P  C  V  W  R  C  K  D  S  C  *  W  R  D  G  *  W :   R  K  T  N  *  R  A  R  C  S  I  *  R  S  S  S  P  E  *  S  S  S  *  W  C  R  M  G  G  V  A  C  Q  G  N  D  E  C  Y  K  C  R  *  C  Q  G  *  G  H  K  G  V  G  E  P  G  A </second_frame>
            <third_frame>   I  K  L  R  I  P  K  T  F  R  L  A  K  N  P  N  S  N  S  N  F  I  S  Y  Y  Q  Q  N  *  F  D  L  P  R  G  R  R  R  F  T  M  S  A  I  V  C  G  K  R  S  F  F  E  D  L  Q  S  P  S  P  T  S  A  S  P  P  V  S  K  K  I  R  C  S  S  S  T  S  P  V  R  F  P  T  S  L  I  D  Q  L  R  T  L  F  P  D  M  D  N  Q  :  V  V  E  K  A  L  E  E  S  G  N  D  L  D  A  A  I  K  R  L  H  E  L  H  L  V  Y  G  D  A  K  T  V  A  D  G  E  M  D  N   : G  E  K  P  T  N  G  P  D  V  Q  S  E  G  P  P  L  Q  N  N  L  P  A  D  G  A  E  W  V  E  L  L  V  R  E  M  M  S  A  T  S  V  D  D  A  R  A  R  A  T  R  V  L  E  S  L  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/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0157P11.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="40865" stop="41077"/>
                    <exon start="41216" stop="41336"/>
                    <exon start="42091" stop="42260"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>504</number_coding_nucleotides>
                  <number_encoded_amino_acids>168</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FDLPRGRRRFTMSAIVCGKRSFFEDLQSPSPTSASPPVSKKIRCSSSTSPVRFPTSLIDQLRTLFPDMDNQVVEKALEESGNDLDAAIKRLHELHLVYGDAKTVADGEMDNGEKPTNGPDVQSEGPPLQNNLPADGAEWVELLVREMMSATSVDDARARATRVLESLE</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="44646" PGL_stop="48291"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="44646" e_stop="45023"/>
            <exon e_start="45574" e_stop="45642"/>
            <exon e_start="46021" e_stop="46113"/>
            <exon e_start="47274" e_stop="47392"/>
            <exon e_start="48153" e_stop="48291"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.999" e_score="0.992"/>
          <exon-intron don_prob="1.000" acc_prob="0.994" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.978" e_score="1.000"/>
          <exon-intron don_prob="0.905" acc_prob="0.981" 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="0.992">
            <gDNA_exon_boundary e_start="44646" e_stop="45023" e_length="378"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.999">
            <gDNA_intron_boundary i_start="45024" i_stop="45573" i_length="550"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="45574" e_stop="45642" e_length="69"/>
          </exon>
          <intron i_serial="2" don_prob="1.000" acc_prob="0.994">
            <gDNA_intron_boundary i_start="45643" i_stop="46020" i_length="378"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="46021" e_stop="46113" e_length="93"/>
          </exon>
          <intron i_serial="3" don_prob="0.999" acc_prob="0.978">
            <gDNA_intron_boundary i_start="46114" i_stop="47273" i_length="1160"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="47274" e_stop="47392" e_length="119"/>
          </exon>
          <intron i_serial="4" don_prob="0.905" acc_prob="0.981">
            <gDNA_intron_boundary i_start="47393" i_stop="48152" i_length="760"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="48153" e_stop="48291" e_length="139"/>
          </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="44646" stop="45023"/>
              <exon start="45574" stop="45642"/>
              <exon start="46021" stop="46113"/>
              <exon start="47274" stop="47392"/>
              <exon start="48153" stop="48291"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="C2_At1g80030" 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>TTCTTTCTTGTGAAAAAAAAGAAGCAAGCAAGCATCAAAACGCGGGACAGTTAACCAGTCTTCTGTAGTCCAATGAACTCGACGGCAATGGCCAGCACAGCATCTCTATCTCTCCGTCCTTCTTCTCTCATCTCCGACCGTTCCCATTCTCCCTGTCTTCCTCCTTCCTCCTCCTCTAGTTTCTTCTCCGGTGGGACCCGCTTGTGGGCCCATACGAAGTTTATATCCATTTCCTTTTCTTCATCTCAGAAGATTCCGGGACGACGTTTTGGGAGATTGGTGGTTGCTGCTGCTGCCGATTATTACTCTACACTTGGGGTCCCAAAATCTGCTAACAGTAAAGACATCAAGGCTGCTTATCGAAGGTTAGCTCGACAG : TATCACCCTGATGTCAACAAGGAACCTAATGCACCAGAAAAGTTTAAGGAGATTAAAGATGCTTATGAG : ATACTATCAGATGACAAAAAAAGAGCACTATATGATCAATATGGTGAAGCCGGGGTGAAAAGTTCTGTAGGGGCCCAAGCCGGTGCTTACACG : ACAAATCCTTTTGATCTATTTGAGACATTCTTTGGACCTTCTATGGGTGGTTTTGGAATGGATGGAGCTGGATTTGGAACGCGTCGCCGCAGTACTGTTACCAAGGGTGAAGATCTACG : TTACGACATGACATTAGAATTTTCAGCGGCTATCTTTGGAGCTGAAAAAGATTTCGAGCTTTCACATCTTGAAACTTGTGAGGTCTGTGTGGGAACTGGGGCAAAGGTAGGCTCCAAAATGAGGATATGTTCAACTTGT</gDNA_template>
            <first_frame> F  F  L  V  K  K  K  K  Q  A  S  I  K  T  R  D  S  *  P  V  F  C  S  P  M  N  S  T  A  M  A  S  T  A  S  L  S  L  R  P  S  S  L  I  S  D  R  S  H  S  P  C  L  P  P  S  S  S  S  S  F  F  S  G  G  T  R  L  W  A  H  T  K  F  I  S  I  S  F  S  S  S  Q  K  I  P  G  R  R  F  G  R  L  V  V  A  A  A  A  D  Y  Y  S  T  L  G  V  P  K  S  A  N  S  K  D  I  K  A  A  Y  R  R  L  A  R  Q  :  Y  H  P  D  V  N  K  E  P  N  A  P  E  K  F  K  E  I  K  D  A  Y  E  :  I  L  S  D  D  K  K  R  A  L  Y  D  Q  Y  G  E  A  G  V  K  S  S  V  G  A  Q  A  G  A  Y  T  :  T  N  P  F  D  L  F  E  T  F  F  G  P  S  M  G  G  F  G  M  D  G  A  G  F  G  T  R  R  R  S  T  V  T  K  G  E  D  L  R :   Y  D  M  T  L  E  F  S  A  A  I  F  G  A  E  K  D  F  E  L  S  H  L  E  T  C  E  V  C  V  G  T  G  A  K  V  G  S  K  M  R  I  C  S  T  C </first_frame>
            <second_frame>  S  F  L  *  K  K  R  S  K  Q  A  S  K  R  G  T  V  N  Q  S  S  V  V  Q  *  T  R  R  Q  W  P  A  Q  H  L  Y  L  S  V  L  L  L  S  S  P  T  V  P  I  L  P  V  F  L  L  P  P  P  L  V  S  S  P  V  G  P  A  C  G  P  I  R  S  L  Y  P  F  P  F  L  H  L  R  R  F  R  D  D  V  L  G  D  W  W  L  L  L  L  P  I  I  T  L  H  L  G  S  Q  N  L  L  T  V  K  T  S  R  L  L  I  E  G  *  L  D  S :   I  T  L  M  S  T  R  N  L  M  H  Q  K  S  L  R  R  L  K  M  L  M  R :   Y  Y  Q  M  T  K  K  E  H  Y  M  I  N  M  V  K  P  G  *  K  V  L  *  G  P  K  P  V  L  T  R :   Q  I  L  L  I  Y  L  R  H  S  L  D  L  L  W  V  V  L  E  W  M  E  L  D  L  E  R  V  A  A  V  L  L  P  R  V  K  I  Y   : V  T  T  *  H  *  N  F  Q  R  L  S  L  E  L  K  K  I  S  S  F  H  I  L  K  L  V  R  S  V  W  E  L  G  Q  R  *  A  P  K  *  G  Y  V  Q  L   </second_frame>
            <third_frame>   L  S  C  E  K  K  E  A  S  K  H  Q  N  A  G  Q  L  T  S  L  L  *  S  N  E  L  D  G  N  G  Q  H  S  I  S  I  S  P  S  F  F  S  H  L  R  P  F  P  F  S  L  S  S  S  F  L  L  L  *  F  L  L  R  W  D  P  L  V  G  P  Y  E  V  Y  I  H  F  L  F  F  I  S  E  D  S  G  T  T  F  W  E  I  G  G  C  C  C  C  R  L  L  L  Y  T  W  G  P  K  I  C  *  Q  *  R  H  Q  G  C  L  S  K  V  S  S  T   : V  S  P  *  C  Q  Q  G  T  *  C  T  R  K  V  *  G  D  *  R  C  L  *   : D  T  I  R  *  Q  K  K  S  T  I  *  S  I  W  *  S  R  G  E  K  F  C  R  G  P  S  R  C  L  H   : D  K  S  F  *  S  I  *  D  I  L  W  T  F  Y  G  W  F  W  N  G  W  S  W  I  W  N  A  S  P  Q  Y  C  Y  Q  G  *  R  S  T  :  L  R  H  D  I  R  I  F  S  G  Y  L  W  S  *  K  R  F  R  A  F  T  S  *  N  L  *  G  L  C  G  N  W  G  K  G  R  L  Q  N  E  D  M  F  N  L  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0157P11.1" strand="+"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="44700" stop="45023"/>
                    <exon start="45574" stop="45642"/>
                    <exon start="46021" stop="46113"/>
                    <exon start="47274" stop="47392"/>
                    <exon start="48153" stop="48291"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>744</number_coding_nucleotides>
                  <number_encoded_amino_acids>248</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>PVFCSPMNSTAMASTASLSLRPSSLISDRSHSPCLPPSSSSSFFSGGTRLWAHTKFISISFSSSQKIPGRRFGRLVVAAAADYYSTLGVPKSANSKDIKAAYRRLARQYHPDVNKEPNAPEKFKEIKDAYEILSDDKKRALYDQYGEAGVKSSVGAQAGAYTTNPFDLFETFFGPSMGGFGMDGAGFGTRRRSTVTKGEDLRYDMTLEFSAAIFGAEKDFELSHLETCEVCVGTGAKVGSKMRICSTC</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="56487" PGL_stop="55823"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="56487" e_stop="56246"/>
            <exon e_start="56177" e_stop="55823"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="1.000" e_score="1.000"/>
          <exon-only e_score="0.992"/>
        </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="56487" e_stop="56246" e_length="242"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="1.000">
            <gDNA_intron_boundary i_start="56245" i_stop="56178" i_length="68"/>
          </intron>
          <exon e_serial="2" e_score="0.992">
            <gDNA_exon_boundary e_start="56177" e_stop="55823" e_length="355"/>
          </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="56487" stop="56246"/>
              <exon start="56177" stop="55823"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="C2_At3g15900" 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>TTTCTTCTGAGAACATGGAAGCTACCGCAATGCGACCAAACGCTGCCAAGCTTCTGGTGAACTGCTCAACGCCGGTGTCATTTCTTCAGCCGCCGTCTGCTGCCGGAGTTGTCTTCCTCGTTCCAAAATATGTTCGATTGACTTCCTCATTTAAGACGTTCATGATTGCCCGAGCTTCCGACCCTAAAACTGACCAAGCAAGTCCGAGCACTGATGAACCTGGCCTTCCTTTCCTACCGCAG : GAGGATTCGAATTTTTTGGTGAAACTGGGAGTAGGTTCAGTGGCGGGAGGAGCAGCGATAAAGTACGGAAGTGTAATTTTCTCAGAGATAACAACACCAAACATTTCATTAGCTCTGTTTATGATAACAGCTCCGATGATTGTTGCGGTGGTGCTATTATTCTTACAAAGCCGTACAGATTCAACTTCTGCGTGAACAAAGCTCTTCTTCTTCTGTACTAAGGACATCTCAAATTTGTACCAGATGATTTTTATACATTCTTTCCTGGATTTTGTAGCTCCTGTGTCACAATTAAATATTTACACATGTTTAATAAAACCTTAAATTACATATATATAAGATCCAAGTACAATCT</gDNA_template>
            <first_frame> F  L  L  R  T  W  K  L  P  Q  C  D  Q  T  L  P  S  F  W  *  T  A  Q  R  R  C  H  F  F  S  R  R  L  L  P  E  L  S  S  S  F  Q  N  M  F  D  *  L  P  H  L  R  R  S  *  L  P  E  L  P  T  L  K  L  T  K  Q  V  R  A  L  M  N  L  A  F  L  S  Y  R  R :   R  I  R  I  F  W  *  N  W  E  *  V  Q  W  R  E  E  Q  R  *  S  T  E  V  *  F  S  Q  R  *  Q  H  Q  T  F  H  *  L  C  L  *  *  Q  L  R  *  L  L  R  W  C  Y  Y  S  Y  K  A  V  Q  I  Q  L  L  R  E  Q  S  S  S  S  S  V  L  R  T  S  Q  I  C  T  R  *  F  L  Y  I  L  S  W  I  L  *  L  L  C  H  N  *  I  F  T  H  V  *  *  N  L  K  L  H  I  Y  K  I  Q  V  Q  S </first_frame>
            <second_frame>  F  F  *  E  H  G  S  Y  R  N  A  T  K  R  C  Q  A  S  G  E  L  L  N  A  G  V  I  S  S  A  A  V  C  C  R  S  C  L  P  R  S  K  I  C  S  I  D  F  L  I  *  D  V  H  D  C  P  S  F  R  P  *  N  *  P  S  K  S  E  H  *  *  T  W  P  S  F  P  T  A   : G  G  F  E  F  F  G  E  T  G  S  R  F  S  G  G  R  S  S  D  K  V  R  K  C  N  F  L  R  D  N  N  T  K  H  F  I  S  S  V  Y  D  N  S  S  D  D  C  C  G  G  A  I  I  L  T  K  P  Y  R  F  N  F  C  V  N  K  A  L  L  L  L  Y  *  G  H  L  K  F  V  P  D  D  F  Y  T  F  F  P  G  F  C  S  S  C  V  T  I  K  Y  L  H  M  F  N  K  T  L  N  Y  I  Y  I  R  S  K  Y  N   </second_frame>
            <third_frame>   S  S  E  N  M  E  A  T  A  M  R  P  N  A  A  K  L  L  V  N  C  S  T  P  V  S  F  L  Q  P  P  S  A  A  G  V  V  F  L  V  P  K  Y  V  R  L  T  S  S  F  K  T  F  M  I  A  R  A  S  D  P  K  T  D  Q  A  S  P  S  T  D  E  P  G  L  P  F  L  P  Q  :  E  D  S  N  F  L  V  K  L  G  V  G  S  V  A  G  G  A  A  I  K  Y  G  S  V  I  F  S  E  I  T  T  P  N  I  S  L  A  L  F  M  I  T  A  P  M  I  V  A  V  V  L  L  F  L  Q  S  R  T  D  S  T  S  A  *  T  K  L  F  F  F  C  T  K  D  I  S  N  L  Y  Q  M  I  F  I  H  S  F  L  D  F  V  A  P  V  S  Q  L  N  I  Y  T  C  L  I  K  P  *  I  T  Y  I  *  D  P  S  T  I  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0157P11.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="56485" stop="56246"/>
                    <exon start="56177" stop="55983"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>432</number_coding_nucleotides>
                  <number_encoded_amino_acids>144</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SSENMEATAMRPNAAKLLVNCSTPVSFLQPPSAAGVVFLVPKYVRLTSSFKTFMIARASDPKTDQASPSTDEPGLPFLPQEDSNFLVKLGVGSVAGGAAIKYGSVIFSEITTPNISLALFMITAPMIVAVVLLFLQSRTDSTSA*</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="101430" PGL_stop="100313"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="101430" e_stop="101341"/>
            <exon e_start="101187" e_stop="101082"/>
            <exon e_start="100827" e_stop="100742"/>
            <exon e_start="100645" e_stop="100313"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.994" e_score="0.967"/>
          <exon-intron don_prob="0.998" acc_prob="0.767" e_score="0.972"/>
          <exon-intron don_prob="0.987" acc_prob="0.962" e_score="0.988"/>
          <exon-only e_score="0.916"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.967">
            <gDNA_exon_boundary e_start="101430" e_stop="101341" e_length="90"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.994">
            <gDNA_intron_boundary i_start="101340" i_stop="101188" i_length="153"/>
          </intron>
          <exon e_serial="2" e_score="0.972">
            <gDNA_exon_boundary e_start="101187" e_stop="101082" e_length="106"/>
          </exon>
          <intron i_serial="2" don_prob="0.998" acc_prob="0.767">
            <gDNA_intron_boundary i_start="101081" i_stop="100828" i_length="254"/>
          </intron>
          <exon e_serial="3" e_score="0.988">
            <gDNA_exon_boundary e_start="100827" e_stop="100742" e_length="86"/>
          </exon>
          <intron i_serial="3" don_prob="0.987" acc_prob="0.962">
            <gDNA_intron_boundary i_start="100741" i_stop="100646" i_length="96"/>
          </intron>
          <exon e_serial="4" e_score="0.916">
            <gDNA_exon_boundary e_start="100645" e_stop="100313" e_length="333"/>
          </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="101430" stop="101341"/>
              <exon start="101187" stop="101082"/>
              <exon start="100827" stop="100742"/>
              <exon start="100645" stop="100313"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="C2_At1g15980" 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>ATCAGATTCAAAAGCTTCTATGCAGTCAAGGGGTGATATTGATAGCTTGCTCCCTATTGAGATTTGGGCTGAGATAGCAGAGGAGATAAG : GGGAGTCAAGCCAGTTTTTGTCATTCCACACGAAAAAGAAAGAGAAAATGTGGAAGATGCAGTTGGTTACGATGCTAGTATAGTGTTCATAACCACCCCTGGACAG : CTTGCTGCTCTTGTTGATGACTCTGCTGGAGTGATAGCTACAAATACAGCTGCGATACAACTTGCTCACGCACGTGGAAAACCAAG : TATTGGGCTATTCTGCTCTGAGGATAAGGCCAGAAGTTTTGTTCCCAATGCAGAAGCAAAGAAATGTGCAACTATTTCATCAAATACTGGAAAATTGGTTGATATTGATGTTGAAGCTGTGAAGAGTGCTGTTCAAATTTTCACCATGCCCCTAGCAATCTTCTAAATATTATACATCCTCCAGTTCTCTTACATATAGTAATTAAGTATTCCTGTAATTGTTACTAGTTCCATTTTCTTCTCAATTGTAATTAATAGAAGCGGAAATATATATATTCGTTCTTTTTTCTCAACAGAAAAGGAATATGGAGATATGTTATTTATCAATGTGAC</gDNA_template>
            <first_frame> I  R  F  K  S  F  Y  A  V  K  G  *  Y  *  *  L  A  P  Y  *  D  L  G  *  D  S  R  G  D  K  :  G  S  Q  A  S  F  C  H  S  T  R  K  R  K  R  K  C  G  R  C  S  W  L  R  C  *  Y  S  V  H  N  H  P  W  T   : A  C  C  S  C  *  *  L  C  W  S  D  S  Y  K  Y  S  C  D  T  T  C  S  R  T  W  K  T  K  :  Y  W  A  I  L  L  *  G  *  G  Q  K  F  C  S  Q  C  R  S  K  E  M  C  N  Y  F  I  K  Y  W  K  I  G  *  Y  *  C  *  S  C  E  E  C  C  S  N  F  H  H  A  P  S  N  L  L  N  I  I  H  P  P  V  L  L  H  I  V  I  K  Y  S  C  N  C  Y  *  F  H  F  L  L  N  C  N  *  *  K  R  K  Y  I  Y  S  F  F  F  L  N  R  K  G  I  W  R  Y  V  I  Y  Q  C  D </first_frame>
            <second_frame>  S  D  S  K  A  S  M  Q  S  R  G  D  I  D  S  L  L  P  I  E  I  W  A  E  I  A  E  E  I  R :   G  V  K  P  V  F  V  I  P  H  E  K  E  R  E  N  V  E  D  A  V  G  Y  D  A  S  I  V  F  I  T  T  P  G  Q  :  L  A  A  L  V  D  D  S  A  G  V  I  A  T  N  T  A  A  I  Q  L  A  H  A  R  G  K  P  S :   I  G  L  F  C  S  E  D  K  A  R  S  F  V  P  N  A  E  A  K  K  C  A  T  I  S  S  N  T  G  K  L  V  D  I  D  V  E  A  V  K  S  A  V  Q  I  F  T  M  P  L  A  I  F  *  I  L  Y  I  L  Q  F  S  Y  I  *  *  L  S  I  P  V  I  V  T  S  S  I  F  F  S  I  V  I  N  R  S  G  N  I  Y  I  R  S  F  F  S  T  E  K  E  Y  G  D  M  L  F  I  N  V   </second_frame>
            <third_frame>   Q  I  Q  K  L  L  C  S  Q  G  V  I  L  I  A  C  S  L  L  R  F  G  L  R  *  Q  R  R  *   : G  E  S  S  Q  F  L  S  F  H  T  K  K  K  E  K  M  W  K  M  Q  L  V  T  M  L  V  *  C  S  *  P  P  L  D  S :   L  L  L  L  L  M  T  L  L  E  *  *  L  Q  I  Q  L  R  Y  N  L  L  T  H  V  E  N  Q   : V  L  G  Y  S  A  L  R  I  R  P  E  V  L  F  P  M  Q  K  Q  R  N  V  Q  L  F  H  Q  I  L  E  N  W  L  I  L  M  L  K  L  *  R  V  L  F  K  F  S  P  C  P  *  Q  S  S  K  Y  Y  T  S  S  S  S  L  T  Y  S  N  *  V  F  L  *  L  L  L  V  P  F  S  S  Q  L  *  L  I  E  A  E  I  Y  I  F  V  L  F  S  Q  Q  K  R  N  M  E  I  C  Y  L  S  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="C03HBa0157P11.1" strand="-"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="101429" stop="101341"/>
                    <exon start="101187" stop="101082"/>
                    <exon start="100827" stop="100742"/>
                    <exon start="100645" stop="100480"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>444</number_coding_nucleotides>
                  <number_encoded_amino_acids>148</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SDSKASMQSRGDIDSLLPIEIWAEIAEEIRGVKPVFVIPHEKERENVEDAVGYDASIVFITTPGQLAALVDDSAGVIATNTAAIQLAHARGKPSIGLFCSEDKARSFVPNAEAKKCATISSNTGKLVDIDVEAVKSAVQIFTMPLAIF*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 117 chains have been computed
$ 
$ memory statistics:
$ 10888 bytes spliced alignments in total
$ 5 spliced alignments have been stored
$ 2177 bytes was the average size of a spliced alignment
$ 10584 bytes predicted gene locations in total
$ 5 predicted gene locations have been stored
$ 2116 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 117 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 01:51:38
-->
