<?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 09:35:20"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C02HBa0162I09-2M5zL/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C02HBa0162I09-2M5zL/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-C02HBa0162I09-2M5zL/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="T0217" ref_strand="+" ref_description="T0217">
      <seq>aaaaggctcctccaccgtcttccaagcccgccaagtccggtggtggcaagcagaagaagaagaagtggagcaagggaaagcaaaaggaaaaggtgaacaacatggttttgttcgataagggtacatacgacaagcttatcactgaagcacctaagtataagcttatcactccttccgtcctctctgaccgtttgaggattagtggatcccttgccaggaaggcaattagggaattgatggctaaaggtttgatcaggatggtgtctgctcatgctagccagcagatttacacccgagctacaaacacctaaggctttaatatttagagtttgttgtttattagccttcattttgtttgaaaacactatgtttagacaattttgtgctatgag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C02HBa0162I09-2M5zL/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C02HBa0162I09.2" temp_strand="-" temp_description="C02HBa0162I09.2  AC215403.2 htgs_phase:3 submitted_to_sgn_as:C02HBa0162I09 sequenced_by:kribb upload_account_name:korea">
        <position start="43037" stop="40526"/>
      </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="42737" g_stop="42676" g_length="62"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="62" r_length="62" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="42675" i_stop="42584" i_length="92">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.895" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="42583" g_stop="42449" g_length="135"/>
          <reference_exon_boundary r_type="cDNA" r_start="63" r_stop="197" r_length="135" r_score="0.993"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="42448" i_stop="41021" i_length="1428">
            <donor d_prob="0.993" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="41020" g_stop="40826" g_length="195"/>
          <reference_exon_boundary r_type="cDNA" r_start="198" r_stop="392" r_length="195" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C02HBa0162I09.2" gen_strand="-" ref_id="T0217" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>392</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C02HBa0162I09.2" gen_strand="-"/>
        <rDNA rDNA_id="T0217" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42737" e_stop="42676"/>
          <exon e_start="42583" e_stop="42449"/>
          <exon e_start="41020" e_stop="40826"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAAGGCTCCTCCACCGTCTTCCAAGCCCGCCAAGTCCGGTGGTGGCAAGCAGAAGAAGAAGGTCATACTTATTTTCACATTTATGTATTTGTTTTGTTGGTAACTAGGTAAAGTTTGAGTTTTTAATGGTGGGTTTTGAATGTGGAATTGCAGAAGTGGAGCAAGGGAAAGCAAAAGGAAAAGGTGAACAACATGGTTTTGTTCGATAAGGGTACATACGACAAGCTTATCACTGAAGCACCCAAGTATAAGCTTATCACTCCTTCCGTCCTCTCTGACCGTTTGAGGGTATGTGTATTCTTTTAGCATGGATCTAGTTATTATGTATTGAATATGAAGTGTGTTTTGTGCAATGTGAATATGCTTGCTTATAAGAATGAATTTTTATCAACTGTTGGTCATTTAGATTAGTTATTGAAATATATTGCTCAGGGTTCTGTGTGGTATAGTTTGTGAAGTTGTCGAATGATTCTACGGTGTTTATATTTGAATAGTTGTGTTTTACATAAACTAACTCAGCTGAAAAGCATAGCTAGTGAATTGTGGTGTTGTAGATTTTCAAAATACTCGGCAGCAGTAGTGTACGAGTCTAGCAATAGTGTATGAGTCTAATGATTTAGTTCTGGTTGAGTCGCAGCAGACAAGTTTGTTTTTGGTTTTTGGAGTACGCGTACCAAATTTCTTTGGTTTAGTCCTATATGGGAAAAGCAAGCTCTCATATGGTGAAATTGATACACTGAAGCTGATTAATCATTTTCCAAGTCTTGTATAGTTGTTTATGAAATTATTTTCTTGAATGGTAAAAGAATTAGATCAAGATGTTAGATTAAACGAGGAGCCAAATAAATATAGTTCAGAGATATTGTTTAGGTGGTGGACTTGCTGTTCTGATAACCAACTTTTTTTAAAAAAATCTGGAAAATTAAGCTAGATATTCTGGTTTGTAAGGTGAACAAATTAGTGCTCTTTAATAACATACCCATTGTAGTCACATTTCTGAAATATAGAGCCTGTTTGAATTGGTTTAAAAGTTAGTCAAACTTATTTCAAGTCATTTTTAGCTTTTGGAAGTGTTTGACAAGCTTAAAAATAAGTTTAATTTAGTTTAAAATAAGTTAGAAATGTCTAGGAAAAAAATCTAAAAACCCACAAGTAGGTCTTCCCTTGGAAGTCATTTAAATTGCTTTTTACTTTTGGCTTGAAAGCTTACTTTTTTGAAGTCAATCCAAACAGATTCATAGTTTTTGCCCTCAAACCAAATACACATTCCTTTTGTTTTCTTTTGGAAAATAGAAAATAAATTATTATTTGGAGTTATTTTCTAGTTTTACAAGAACTTGTATTTTGTTAAATCTAGTGCACTACATGCAGTGCTGACTGCTAAAATGGAGTTATTTTCCCCTGCTGCAAGTTATTCATGAATTTATGTTTGATATTTTCTTCTTTAAGACACTCAACACTATATTTTCTTCTCTGAGGCACCCACCACTAATTTCTGACGGGAAAAGCCATACGTTACATTTATTATATGAAATGTAAATCCAATCGCTCCGGTTGGTTCTCTAAATATACTCACGTGGGAATCGTACATCTGTTAATCCAAATTTCAGCTTGTGCTCTAAAGGATTGTTGTACAGTTGCTTTTGTTGCGGATAGATTGTTGATATGCTGATGATATTCTCATGCTAATATAGTTTGTTTTGATTGAATTTGCAGATTAGTGGATCCCTTGCCAGGAAGGCAATTAGGGAATTGATGGCTAAAGGTTTGATCAGGATGGTGTCTGCTCATGCTAGCCAGCAGATTTACACCCGAGCTACAAACACCTAAGGCTTTAATATTTAGAGTTTGTTGTTTATTAGCCTTCATTTTGTTTGAAAACACTATGTTTAGACAATTTTGTGCTATGAG</genome_strand>
        <mrna_strand>AAAAGGCTCCTCCACCGTCTTCCAAGCCCGCCAAGTCCGGTGGTGGCAAGCAGAAGAAGAAG............................................................................................AAGTGGAGCAAGGGAAAGCAAAAGGAAAAGGTGAACAACATGGTTTTGTTCGATAAGGGTACATACGACAAGCTTATCACTGAAGCACCTAAGTATAAGCTTATCACTCCTTCCGTCCTCTCTGACCGTTTGAGG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTAGTGGATCCCTTGCCAGGAAGGCAATTAGGGAATTGATGGCTAAAGGTTTGATCAGGATGGTGTCTGCTCATGCTAGCCAGCAGATTTACACCCGAGCTACAAACACCTAAGGCTTTAATATTTAGAGTTTGTTGTTTATTAGCCTTCATTTTGTTTGAAAACACTATGTTTAGACAATTTTGTGCTATGAG</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-C02HBa0162I09-2M5zL/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="C2_At1g16740" ref_strand="+" ref_description="C2_At1g16740">
      <seq>agaaggcgatacaagatgaacaaaaaggaagtgtttaagctagctaaagggtttcgaggaagagctaaaaactgcataagaatagctagagaaagagtggagaaggcgcttcagtactcatatagagaccgccgcaacaagaagagggatatgcgttctctctggattcaacgcatcaatgccggaactcgccaacatggggtgaattatggcaatttcatgcacgggctgatgaaggagaacgtacagctgaacaggaaagtcttgtcagaactgtcgatgcacgaaccatacagcttcaaggcccttgtggacgtctctcgcagcgctttccctgggaataagaagtccatagtacctccaaagaaggaagggcttgctattgttctttgaattaatttcctatgttgtgctttgtgtactctttttcttctattttgggcataattttgtgctagcatttctgttagcaaattttaccgatagtattgaagtctcctgtttactgcaagtgcttaaatggaaatttaatatgctttaattttaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C02HBa0162I09-2M5zL/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C02HBa0162I09.2" temp_strand="-" temp_description="C02HBa0162I09.2  AC215403.2 htgs_phase:3 submitted_to_sgn_as:C02HBa0162I09 sequenced_by:kribb upload_account_name:korea">
        <position start="47955" stop="17958"/>
      </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="47665" g_stop="47465" g_length="201"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="201" r_length="201" r_score="0.945"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="47464" i_stop="44151" i_length="3314">
            <donor d_prob="1.000" d_score="0.96"/>
            <acceptor a_prob="0.950" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="44150" g_stop="43809" g_length="342"/>
          <reference_exon_boundary r_type="cDNA" r_start="202" r_stop="543" r_length="342" r_score="0.915"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="43808" i_stop="43640" i_length="169">
            <donor d_prob="0.000" d_score="0.76"/>
            <acceptor a_prob="0.987" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="43639" g_stop="43621" g_length="19"/>
          <reference_exon_boundary r_type="cDNA" r_start="544" r_stop="562" r_length="19" r_score="0.526"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C02HBa0162I09.2" gen_strand="-" ref_id="C2_At1g16740" ref_strand="+">
        <total_alignment_score>0.926</total_alignment_score>
        <cumulative_length_of_scored_exons>562</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C02HBa0162I09.2" gen_strand="-"/>
        <rDNA rDNA_id="C2_At1g16740" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="47665" e_stop="47465"/>
          <exon e_start="44150" e_stop="43809"/>
          <exon e_start="43639" e_stop="43621"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAAGGCACAAGAAGATGAACAAGAAGGAAGTGTTTAAGCTAGCTAAAGGGTTTCGAGGAAGAGCTAAAAATTGCATAAGAATAGCAAGAGAAAGAGTTGAGAAGGCGCTTCAGTACTCATACAGAGACCGCCGCAACAAGAAGAGGGATATGCGTTCTCTCTGGATTCAACGCATCAATGCCGGAACTCGTCAACACGGGGTATGTATAAACCCCTTTTCTCATTTTTTGCAGTTTTTGATTTGTGGGGTTTTTCCCCTTTTCAATATTTTGTCGAATTTGAGTTTTGCTTGGTGTCTTGCTTTTTCTTTACTTTATGATGTGTGCTTAGTCATGGTTGTTGCAGCATGTTGAACCTTTATCATATTAGATGAGTAGTCTTGAAAAATGTAGCTGGCCCAATTAAATATTGCGAGAAGTTTTTGAAAGATAGTGCCCTAAAGGTTGGAGAATCCCGGGACTTGCTCAAGATTTTATCTTGATAAAGATGAAGGTTATATATTAAGGCACAAAGCCTAGTATCCATCCTCTATGGCTAGGATTACGGGGTATCTAATCCCATTCGCTCCCCTAGCTTTCGTCTCTCAGTGCTTTCACTGTTGGTGTTCTTTCTGATCTCTACACATTTCACTGCTCCACCGGAAATTCCCTCTGCCCCTACCGTACTTCAGCTTGGTAGTTTCCACCGCCTGTCCAGGGTTGAGCCCTGGGATACGAATTCTCCTATATCAATAAGAGACGTGTTTGGGCCCGCTTTGAAAACAGCCAGGAACTACTAGCACAAGATCCAATATTTGATAAGGTTCCATACCCGTAAGGGTTCCAAGCTTCAACCCACAGCTCGAGCATCTTGCTTATATATTGACTTTTCTTGAAAGGGTTCTTTCCAAATGAAAGAATTCATTATGACAGCGGTTCCGAAAAGACAGATTAGACTTGCCCGACCCGGGCATAAGCAGGAAGAAGACTCTGTCGGATTACAATACACAGAGAGAGTATCTATTGACAGTAGGCATCAAGGGGGTAAGCTTTTAAAGGATTTCAATTAGTGTCTACATATATAAGGAACAAACGAAGCAACATGTTATTGCAGTATATCTTTGTCGTATCATTCTATTGATTGATCAATCATTCAATACCAAAGTGATCCATGAAGTTGTATAGCCTATGCCACTCCAATACCAAATCAGTAGAGGTTTTGTAAATCTCACACTTATCCTATGTGATACACAAGTAATTAACCAACTACGAAGACTCCTGGACAAAAATGGACCTAATGTAGTGTAACAGCAGTATCTAAGCTTACTATCAACTATTTGCTATGTCTATGTGGATCCTTTGCTTCTATTGTGTGTTATGTTATTAGTTAAGCTCACGTTGATTTCTCAGAGATTTTGGGTGAGACAACTTTTCTCCCTGTAAATTTACCTAGTTTCATTTGGCACCTTCAGTTATCATATAATGCTCCTAACAAACAATTGCATTTGAGGTTACAAGGAAATAGAAAACATATCTTAGATGACATTCTCTCTATATTCTTCTACATCCTCTGTTGAAATAATTTATGATCTTGTCCAATATTGTATGCTTGTACGTCTATCTTAGCAAAAACAGTTCTTTGACACTCATCTTGTAAATATGTTGGGTGCCAGATGCCTGACGTTCACTCTCATACAACATTGTTGGCTTCACAATTATTCTGTTAGACTTGTCTTTTTTACTTACTTAGGTATCTTCATATCTTTCCTTCTATGTTTCTTTAGCCTTCCTATTGTTATTCTAGTTTTTCTCCTCTATTATCCTTTGGCTCTTTTAGGGTTATCTTTTGATTTTTGAGCCACTAGCCTTAGTTCTTGAACCTTCTGTGTGGAGAATCATACCTTTGTCTATTGGATCTTAAATAGCTCAACATTAATGCTGCTGGATTCTAGAAATTTTGTGGTTCTTACTAGAATTTTCAGCATTGGGATAGGATACCAGAATGGCTGTAAAGTTCCATAATTAAATTAGGGAGCCTGGTATGCCAGTCAAAGAGCAAAATTGCAGGACCCTCAGCAGTGATAACAAAATATGCGTAAGAGTTAAGCTGAATATTCAATTTCCGTTGTTGATACATCTAATCTCCAATGGACTAAGGATTCTTCATAGTGAATAGCTTAACAAAGTACTATTAACTACAAATTTCTAGTTATCTTACACTGCAAAATCAGATAATTATAGATAGAAGCAATGGTTAAGGGAAACATACTTGGTTTACTTTATCCAAAGAAAGGGGAACATACTTGGTTTGTGAAATCTCGTTCTAGAAATGGAGATATTATGAAGGGAGATGCCTCAGGATTCATCCTTATTAACTTTCCACTATTTGCTTTTAGAAACTTGGATGTGGAGGATTTTGAAGAGCATACATTTTCTAAGTTCTACTTTGGGTCTAGGTAATCTTGAAAATAGGAACTTGCTAAAATTGCTTTCAAGGCCACAATAGTACTAATCCTTATAGAACACTATGATTTTTATTTTTTATTTTGAGAATGAGAACACTAGGATTTTGAAGTGCCTTAGTATCCTCCTCCTACACTTTAGGTTCCTTTTTTCAAATAAAGGTGGTGTCAGGACAACTTGTGATTGTTCCACTGTGTACCTATTACATCCCACCAATGCGGCTTAGACAAATTGGACGATATCTTCTGCTCTTCATCTTTTTCAGCATTGTGGAATTCAATATTTGTTAGACACTTTGACTATCCAAATGACAGTGGGGGAAATACCCTATAAAGCTCATAGGCCATAGCTGGAAGATATTGCAGTAGTTCCTTGATATGATAATGATGAAAAGAAGAGAACAAAATGTTGTAGGTGCCCTCGTAGTTATCCTTAGGTAACATGAATGATTCGAGGAACTGACCTCTTAACTGGCACAAATATTCTTTGGTCGTTTTTGCATGTGTCATACTTGCCGCCATACATGCTGTCAGATATTTATTATGAAATTCAGTACTTCTCAGGATCATGTTGTTGGCTCCATTTGGTTAATCTGTGTGTTATTGTTTGAACAGCCTTGTTGCTTTAGATTTTTATGGTAGTACAGCATTGCAAATGGATTTGTTAATCCATTTGATTAGAATATTTGGCCTTATGATTAGTATCTGTGCTTCTTCGTTCTTTCGTTTCTTGTTGTAGTCCTTTTTGTTCCCTCAACTTATTAGTGCCAAAGCCCAAAAGTATATGAAACTCTCTCTCTTTCTGCTTCCCTCTCTTCTGCATGATCAGAAAAGAAACAGAAAACTAATTAGGATATTATTCAACAGTGTACTTTAGCTGAAATAAGCTGCTTTGGTATGTTTGTCACCAATTTTTGACATGAACTTGGCCATTGACGCAGGTCGCTCTACCTGTTAACTAATCATATCTGATGTTCCTAAATGATATTTTTAGCACATCTTTCTACAAGTTAAACAAAAAAAACACCTCTATCTCATCTATTTAACAATTTTCCGATTTCCCTCCAATTCCAGGTGAATTATGGCAATTTCATGCACGGGTTGATGAAGGAGAACGTACAGCTGAACAGGAAAGTCTTGTCAGAACTGTCGATGCACGAACCATACAGCTTCAAGGCCCTCGTGGATGTCTCTCGCAGCGCTTTCCCTGGGAATAAGAAGTCCATAGTACCTCCAAAGAAGGAAGGACTTGCTGTTGTTCTTTGAATTAGTTTCCTGTGTTGTGCTTTGTGTACTCTTCTTCTTCTTCGTTAGGCATAATTTTGTGCTAGCATTTCTGTTAGCAAGTCTCTACCAATGGTATTGAAGTCTTCTGTTTAC-GACAGTGCTTTAATGGAAATTTAATTTTATGTTACTACTCTTCCGTCCACTTTTATTCTGTTTACTGTAATAAAAAATTGCAAAACATATTTCACTTGTTAAATACTGTAATTATTTTCAGTTCATCTTGTAAACTACTTTATTACTTAAATGAATTATACGTATTAAATTATGTCATTTTTTCCCTAATCATATTATATATCAGGTATAAAAGAGAACTCTAG</genome_strand>
        <mrna_strand>AGAAGGCGATACAAGATGAACAAAAAGGAAGTGTTTAAGCTAGCTAAAGGGTTTCGAGGAAGAGCTAAAAACTGCATAAGAATAGCTAGAGAAAGAGTGGAGAAGGCGCTTCAGTACTCATATAGAGACCGCCGCAACAAGAAGAGGGATATGCGTTCTCTCTGGATTCAACGCATCAATGCCGGAACTCGCCAACATGGG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAATTATGGCAATTTCATGCACGGGCTGATGAAGGAGAACGTACAGCTGAACAGGAAAGTCTTGTCAGAACTGTCGATGCACGAACCATACAGCTTCAAGGCCCTTGTGGACGTCTCTCGCAGCGCTTTCCCTGGGAATAAGAAGTCCATAGTACCTCCAAAGAAGGAAGGGCTTGCTATTGTTCTTTGAATTAATTTCCTATGTTGTGCTTTGTGTACTCTTTTTCTTCTATTTTGGGCATAATTTTGTGCTAGCATTTCTGTTAGCAAAT-TTTACCGATAGTATTGAAGTCTCCTGTTTACTGCAAGTGCTTAAATGGAAATTTAATATGCTTTAATT.........................................................................................................................................................................TTAAAAAAAAAAAAAAAAA</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-C02HBa0162I09-2M5zL/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="T1861" ref_strand="+" ref_description="T1861">
      <seq>gcaaagcagcatcagcagcaacagcaacaacaacaacaacaacaacaacaggcacctgaaaagaaggttaagagtgtcaatttcaatatgcctccaacaagggtcgtgctgcttaggaatatggttggtcctggcgaggttgatgatgacctagaaggtgaggtggctgaagagtgctctaagtttggtactgtaactcgtgtcttaatatttgagattacagaaacaaatttccctcatgaagaagctgttcggatattcgttcaatttgagagagcagaacacgcaactaaagcccttatagaacttgaaggtcgattttttggcggtaggattgttcatgcctgtttctacgacgaggagaggtttggcaataacgaattagctcccatgccaggagaaattcctggcttttgaccaaacagttattgtccaaatgtaacttctctttattttttaaccgggactgtaattttgcaagcttgtttagcgtgccttacgtgatacatctccttgtacctatcgtctcaagtttacacaaagctatgtatcgaaaaacttgaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C02HBa0162I09-2M5zL/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C02HBa0162I09.2" temp_strand="-" temp_description="C02HBa0162I09.2  AC215403.2 htgs_phase:3 submitted_to_sgn_as:C02HBa0162I09 sequenced_by:kribb upload_account_name:korea">
        <position start="95626" stop="91898"/>
      </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="95335" g_stop="95211" g_length="125"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="123" r_length="123" r_score="0.944"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95210" i_stop="92640" i_length="2571">
            <donor d_prob="0.984" 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="92639" g_stop="92198" g_length="442"/>
          <reference_exon_boundary r_type="cDNA" r_start="124" r_stop="565" r_length="442" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C02HBa0162I09.2" gen_strand="-" ref_id="T1861" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>567</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C02HBa0162I09.2" gen_strand="-"/>
        <rDNA rDNA_id="T1861" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95335" e_stop="95211"/>
          <exon e_start="92639" e_stop="92198"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGAAGCAAAGCAGCAGCAGCAACAGCAGCAGCAACAACAACAACAACAACAGGCACCTGAAAAGAAGGTTAAGAGTGTCAATTTCAATATGCCTCCAACAAGGGTCGTGCTGCTTAGGAATATGGTATGGATTGTTAAGATATTCTGTCAACTTATTTATTTGTTCTGCTTGCTTGGGGAGTTCTACTCTATGAGCTTGTTTAGCTGCATAAATTATGATGATTTCTTGCTAGAATAGTATCTTTCATATAGTTAAGTCGCTCAGGAATATGATATGGATTTTTATGATGTTCTATTGACTTACTTATTTGCTCTGTTTGATTTGGGATTTTTATTATATGAGCTTTTTTAGCTGTACAAATTATGATGGTTTCTTGCTAGAATAGTTTCTTTCATATGAGTTAATTTGGTTTCAGTCGTTTGAACTTTGGCTTAGTCTTACACTTAGTGCAAGTAGTTTCCAGGGGCTCAGCTGTGTTTTGAATCAGAGTTGTTTACGCTGAGGAAATTTGAAGTAGAAAAACTTTCGTCCTTTAGTGATTTCTGACCAACACACCCGTCAATTTGCTTTTATTTTTGGCCCGTAAAAGTGAAGTGCTCAGCCATGCCATTGAGAATAGTCTTTTAAATTTGGCTTCCACCTAATAAAATTGTTCACCTCATTGAGAAAAAGAAGAATTTGGCTTCCACCTTAATCTATCTTAGTAGCTTAGTTGTTTGACTACCTGAACTTTCACCTTGTTGGTGAGGGTTGGATTCCCCACCTTGTAATCCCCTTCCTCATTTCCCCTTTCCCTACCCCATTTTTTATTTTCCATTTTTTAAAAAAAAGCTATCTTTCTAATATAGCAGAGAAGAGAATTACCATTCTGCCTTTGTTATCAGAAACAAGTTTCTGATTGGTTATCTATATGAGCTCATTTAAGGTCAAATATTTGGTAGTGAGTGTTTCTGATTGTTTATTTATTAGATGATGGGTGTTAAGACTGTTAACGTTTCATTGTTGAATTTGTGTTTCTAGAGGCAGTCATGTAGTTTAATCATGTGAAAAGGTATTATGTATAATTGGCTATTGAATTGTTCATTCTTCTGACATTTGTTAGGTCTTGAGAGACAGTGTGCTACTCGTATACTTTGACAAGTTATTTAATTGTGGTAGCTAATGTACTAAGATTCACTCACAAATCCTTTTTCTTTATAAGGTTCACTGACTGGTCTTTATATAGTATACTGAACCTGTTCAACAGATTTATCTATGTGAACTTTTTAACCTTTTATTATGCGATCTATAGGTTCTTTTTTAAAAAAGGATAAAGGACCAATTAGTCTTAACCCTTATGTTTTATTTCATTAATTTGTGCCTACCAAACTATTTTGGGGTCTAACAATAAGTACTACTGGTTTCTAAGGAAAATGAGAACTATTGAGTATTAGTATAATTTTTTATCAATCTTTAATGATTGCCTGATAAGTTAAATACTAAAGTAGCTAATTAGAACATTATCCACTTCTGTCTATCATTTTCTGTTGGCATTGGCTACTTAAAACATCTCCTCAGAAATTTGTCTGTGCATTTGCTGACTGCTTTCACATTACACTAAGGGGAATCAACTTTCTCTAGATATAGGGGAAAAAAAGTACCTCTTTTCCCCTTTAAGGTCTCGTGTGCTGGTGATTACCAATATCTTCATAAATGAGGGTACAACCCTTGATTAGCTTCTATTCTTGTGATTCTAAGTATTTCTCCACTCACTCTAGGGTTTGTAATATGGTTAATTGCTCTGCTCAGCGGGGAAGTCACTTTTAGTGAATGAACCAAGGGGTTAGCTTTTACTCAAACTTCTCTAGCTTGTATGGGTCTTTGGACAAGGATATACACGCATAGATACCTTTGGATTATAGATGGTATTACAATGCGGAGGAAGTAGAGATTCATTTAGGAAGGATTGTAATGCTGGTTCATGGTGAATTTGGTTGCAGTTAAAGTGAACTATATCTGAAGAATTGTTGATGGATTGGATATATGTATTCTTTGTTTGATTAATGAGGTTTAAGTTGTATAAAGCTATGAAATACAACTTTAAAGTAATTCGACCAAATTTAGTTAAAGAATTATTTGGAATGATGGGAAGATGGACTAGGGTGGTGGAGCGCATGCTTTATGGTGAACTGGCAATAAGGTGGAGGTTTGGAACTAAGAGCGCATTAGGTTACACATCATTTGGAATTAAATGTTTCGCTTATAAGAGAGTTAATGGCAGACTGCTGCATTGCTTTGTGTGTGTATTATATTCTTTTCTGGATCTCCTGGTTTTTACTGAAACATTTTGGATCAAATATAGTTTTGCCATTAATGAAAAGTGGGGCTTGCATGAGGTTACACTTTTCCAAGAGCTTCACATCTGCAATATTGAACTCTTTCCTGTAGTGAATGGCTTTGTGGGGGGGGGGGGGGGGGGTGTCCAAGTTATAGAGTAGACCCAAAAACAACATATGAGGTAAGATGTACGCAGACCTTACCCTACCTTTGTGGAGTAGAGATGTTTCCGATAGACCCTCTGCCAAAAAAAGAGAAGTTATTCAGTGAAGGGAACTGATGCACCATCTGTAGGGATATAATACACGAACAAATCTTTTAACGCGTTTTTTTTTATGATCTGACCTATCTTTTGTTCCTATTTTCCTTCTTTTGAAGGTTGGTCCTGGCGAGGTTGATGATGACCTAGAAGGTGAGGTGGCTGAAGAGTGCTCTAAGTTTGGTACTGTAACTCGTGTCTTAATATTTGAGATTACAGAAACAAATTTCCCTCATGAAGAAGCTGTTCGGATATTCGTTCAATTTGAGAGAGCAGAACACGCAACTAAAGCCCTTATAGAACTTGAAGGTCGATTTTTTGGCGGTAGGATTGTTCATGCCTGTTTCTACGACGAGGAGAGGTTTGGCAATAACGAATTAGCTCCCATGCCAGGAGAAATTCCTGGCTTTTGACCAAACAGTTATTGTCCAAATGTAACTTCTCTTTATTTTTTAACCGGGACTGTAATTTTGCAAGCTTGTTTAGCGTGCCTTACGTGATACATCTCCTTGTACCTATCGTCTCAAGTTTACACAAAGCTATGTATCGAAAAACTTCACA</genome_strand>
        <mrna_strand>GCAAAGC-A-GCATCAGCAGCAACAGCAACAACAACAACAACAACAACAACAGGCACCTGAAAAGAAGGTTAAGAGTGTCAATTTCAATATGCCTCCAACAAGGGTCGTGCTGCTTAGGAATATG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTGGTCCTGGCGAGGTTGATGATGACCTAGAAGGTGAGGTGGCTGAAGAGTGCTCTAAGTTTGGTACTGTAACTCGTGTCTTAATATTTGAGATTACAGAAACAAATTTCCCTCATGAAGAAGCTGTTCGGATATTCGTTCAATTTGAGAGAGCAGAACACGCAACTAAAGCCCTTATAGAACTTGAAGGTCGATTTTTTGGCGGTAGGATTGTTCATGCCTGTTTCTACGACGAGGAGAGGTTTGGCAATAACGAATTAGCTCCCATGCCAGGAGAAATTCCTGGCTTTTGACCAAACAGTTATTGTCCAAATGTAACTTCTCTTTATTTTTTAACCGGGACTGTAATTTTGCAAGCTTGTTTAGCGTGCCTTACGTGATACATCTCCTTGTACCTATCGTCTCAAGTTTACACAAAGCTATGTATCGAAAAACTTGACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>3</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="42737" PGL_stop="40826"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="42737" e_stop="42676"/>
            <exon e_start="42583" e_stop="42449"/>
            <exon e_start="41020" e_stop="40826"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.998" acc_prob="0.895" e_score="1.000"/>
          <exon-intron don_prob="0.993" acc_prob="1.000" e_score="0.993"/>
          <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="42737" e_stop="42676" e_length="62"/>
          </exon>
          <intron i_serial="1" don_prob="0.998" acc_prob="0.895">
            <gDNA_intron_boundary i_start="42675" i_stop="42584" i_length="92"/>
          </intron>
          <exon e_serial="2" e_score="0.993">
            <gDNA_exon_boundary e_start="42583" e_stop="42449" e_length="135"/>
          </exon>
          <intron i_serial="2" don_prob="0.993" acc_prob="1.000">
            <gDNA_intron_boundary i_start="42448" i_stop="41021" i_length="1428"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="41020" e_stop="40826" e_length="195"/>
          </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="42737" stop="42676"/>
              <exon start="42583" stop="42449"/>
              <exon start="41020" stop="40826"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="T0217" 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>AAAAGGCTCCTCCACCGTCTTCCAAGCCCGCCAAGTCCGGTGGTGGCAAGCAGAAGAAGAAG : AAGTGGAGCAAGGGAAAGCAAAAGGAAAAGGTGAACAACATGGTTTTGTTCGATAAGGGTACATACGACAAGCTTATCACTGAAGCACCCAAGTATAAGCTTATCACTCCTTCCGTCCTCTCTGACCGTTTGAGG : ATTAGTGGATCCCTTGCCAGGAAGGCAATTAGGGAATTGATGGCTAAAGGTTTGATCAGGATGGTGTCTGCTCATGCTAGCCAGCAGATTTACACCCGAGCTACAAACACCTAAGGCTTTAATATTTAGAGTTTGTTGTTTATTAGCCTTCATTTTGTTTGAAAACACTATGTTTAGACAATTTTGTGCTATGAG</gDNA_template>
            <first_frame> K  R  L  L  H  R  L  P  S  P  P  S  P  V  V  A  S  R  R  R  R :   S  G  A  R  E  S  K  R  K  R  *  T  T  W  F  C  S  I  R  V  H  T  T  S  L  S  L  K  H  P  S  I  S  L  S  L  L  P  S  S  L  T  V  *  G :   L  V  D  P  L  P  G  R  Q  L  G  N  *  W  L  K  V  *  S  G  W  C  L  L  M  L  A  S  R  F  T  P  E  L  Q  T  P  K  A  L  I  F  R  V  C  C  L  L  A  F  I  L  F  E  N  T  M  F  R  Q  F  C  A  M   </first_frame>
            <second_frame>  K  G  S  S  T  V  F  Q  A  R  Q  V  R  W  W  Q  A  E  E  E   : E  V  E  Q  G  K  A  K  G  K  G  E  Q  H  G  F  V  R  *  G  Y  I  R  Q  A  Y  H  *  S  T  Q  V  *  A  Y  H  S  F  R  P  L  *  P  F  E   : D  *  W  I  P  C  Q  E  G  N  *  G  I  D  G  *  R  F  D  Q  D  G  V  C  S  C  *  P  A  D  L  H  P  S  Y  K  H  L  R  L  *  Y  L  E  F  V  V  Y  *  P  S  F  C  L  K  T  L  C  L  D  N  F  V  L  *  </second_frame>
            <third_frame>   K  A  P  P  P  S  S  K  P  A  K  S  G  G  G  K  Q  K  K  K  :  K  W  S  K  G  K  Q  K  E  K  V  N  N  M  V  L  F  D  K  G  T  Y  D  K  L  I  T  E  A  P  K  Y  K  L  I  T  P  S  V  L  S  D  R  L  R  :  I  S  G  S  L  A  R  K  A  I  R  E  L  M  A  K  G  L  I  R  M  V  S  A  H  A  S  Q  Q  I  Y  T  R  A  T  N  T  *  G  F  N  I  *  S  L  L  F  I  S  L  H  F  V  *  K  H  Y  V  *  T  I  L  C  Y  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="C02HBa0162I09.2" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="42735" stop="42676"/>
                    <exon start="42583" stop="42449"/>
                    <exon start="41020" stop="40907"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>306</number_coding_nucleotides>
                  <number_encoded_amino_acids>102</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KAPPPSSKPAKSGGGKQKKKKWSKGKQKEKVNNMVLFDKGTYDKLITEAPKYKLITPSVLSDRLRISGSLARKAIRELMAKGLIRMVSAHASQQIYTRATNT*</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="47665" PGL_stop="43621"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="47665" e_stop="47465"/>
            <exon e_start="44150" e_stop="43809"/>
            <exon e_start="43639" e_stop="43621"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.950" e_score="0.945"/>
          <exon-intron don_prob="0.000" acc_prob="0.987" e_score="0.915"/>
          <exon-only e_score="0.526"/>
        </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="0.945">
            <gDNA_exon_boundary e_start="47665" e_stop="47465" e_length="201"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.950">
            <gDNA_intron_boundary i_start="47464" i_stop="44151" i_length="3314"/>
          </intron>
          <exon e_serial="2" e_score="0.915">
            <gDNA_exon_boundary e_start="44150" e_stop="43809" e_length="342"/>
          </exon>
          <intron i_serial="2" don_prob="0.000" acc_prob="0.987">
            <gDNA_intron_boundary i_start="43808" i_stop="43640" i_length="169"/>
          </intron>
          <exon e_serial="3" e_score="0.526">
            <gDNA_exon_boundary e_start="43639" e_stop="43621" e_length="19"/>
          </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="47665" stop="47465"/>
              <exon start="44150" stop="43809"/>
              <exon start="43639" stop="43621"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="C2_At1g16740" 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>AGAAGGCACAAGAAGATGAACAAGAAGGAAGTGTTTAAGCTAGCTAAAGGGTTTCGAGGAAGAGCTAAAAATTGCATAAGAATAGCAAGAGAAAGAGTTGAGAAGGCGCTTCAGTACTCATACAGAGACCGCCGCAACAAGAAGAGGGATATGCGTTCTCTCTGGATTCAACGCATCAATGCCGGAACTCGTCAACACGGG : GTGAATTATGGCAATTTCATGCACGGGTTGATGAAGGAGAACGTACAGCTGAACAGGAAAGTCTTGTCAGAACTGTCGATGCACGAACCATACAGCTTCAAGGCCCTCGTGGATGTCTCTCGCAGCGCTTTCCCTGGGAATAAGAAGTCCATAGTACCTCCAAAGAAGGAAGGACTTGCTGTTGTTCTTTGAATTAGTTTCCTGTGTTGTGCTTTGTGTACTCTTCTTCTTCTTCGTTAGGCATAATTTTGTGCTAGCATTTCTGTTAGCAAGTCTCTACCAATGGTATTGAAGTCTTCTGTTTACGACAGTGCTTTAATGGAAATTTAATTTTATGTTACT : GTATAAAAGAGAACTCTAG</gDNA_template>
            <first_frame> R  R  H  K  K  M  N  K  K  E  V  F  K  L  A  K  G  F  R  G  R  A  K  N  C  I  R  I  A  R  E  R  V  E  K  A  L  Q  Y  S  Y  R  D  R  R  N  K  K  R  D  M  R  S  L  W  I  Q  R  I  N  A  G  T  R  Q  H  G  :  V  N  Y  G  N  F  M  H  G  L  M  K  E  N  V  Q  L  N  R  K  V  L  S  E  L  S  M  H  E  P  Y  S  F  K  A  L  V  D  V  S  R  S  A  F  P  G  N  K  K  S  I  V  P  P  K  K  E  G  L  A  V  V  L  *  I  S  F  L  C  C  A  L  C  T  L  L  L  L  R  *  A  *  F  C  A  S  I  S  V  S  K  S  L  P  M  V  L  K  S  S  V  Y  D  S  A  L  M  E  I  *  F  Y  V  T  :  V  *  K  R  T  L  </first_frame>
            <second_frame>  E  G  T  R  R  *  T  R  R  K  C  L  S  *  L  K  G  F  E  E  E  L  K  I  A  *  E  *  Q  E  K  E  L  R  R  R  F  S  T  H  T  E  T  A  A  T  R  R  G  I  C  V  L  S  G  F  N  A  S  M  P  E  L  V  N  T  G :   *  I  M  A  I  S  C  T  G  *  *  R  R  T  Y  S  *  T  G  K  S  C  Q  N  C  R  C  T  N  H  T  A  S  R  P  S  W  M  S  L  A  A  L  S  L  G  I  R  S  P  *  Y  L  Q  R  R  K  D  L  L  L  F  F  E  L  V  S  C  V  V  L  C  V  L  F  F  F  F  V  R  H  N  F  V  L  A  F  L  L  A  S  L  Y  Q  W  Y  *  S  L  L  F  T  T  V  L  *  W  K  F  N  F  M  L  L :   Y  K  R  E  L  * </second_frame>
            <third_frame>   K  A  Q  E  D  E  Q  E  G  S  V  *  A  S  *  R  V  S  R  K  S  *  K  L  H  K  N  S  K  R  K  S  *  E  G  A  S  V  L  I  Q  R  P  P  Q  Q  E  E  G  Y  A  F  S  L  D  S  T  H  Q  C  R  N  S  S  T  R   : G  E  L  W  Q  F  H  A  R  V  D  E  G  E  R  T  A  E  Q  E  S  L  V  R  T  V  D  A  R  T  I  Q  L  Q  G  P  R  G  C  L  S  Q  R  F  P  W  E  *  E  V  H  S  T  S  K  E  G  R  T  C  C  C  S  L  N  *  F  P  V  L  C  F  V  Y  S  S  S  S  S  L  G  I  I  L  C  *  H  F  C  *  Q  V  S  T  N  G  I  E  V  F  C  L  R  Q  C  F  N  G  N  L  I  L  C  Y   : C  I  K  E  N  S   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C02HBa0162I09.2" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="47665" stop="47465"/>
                    <exon start="44150" stop="43959"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>390</number_coding_nucleotides>
                  <number_encoded_amino_acids>130</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RRHKKMNKKEVFKLAKGFRGRAKNCIRIARERVEKALQYSYRDRRNKKRDMRSLWIQRINAGTRQHGVNYGNFMHGLMKENVQLNRKVLSELSMHEPYSFKALVDVSRSAFPGNKKSIVPPKKEGLAVVL*</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="95335" PGL_stop="92198"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="95335" e_stop="95211"/>
            <exon e_start="92639" e_stop="92198"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.984" acc_prob="1.000" e_score="0.944"/>
          <exon-only e_score="0.998"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.944">
            <gDNA_exon_boundary e_start="95335" e_stop="95211" e_length="125"/>
          </exon>
          <intron i_serial="1" don_prob="0.984" acc_prob="1.000">
            <gDNA_intron_boundary i_start="95210" i_stop="92640" i_length="2571"/>
          </intron>
          <exon e_serial="2" e_score="0.998">
            <gDNA_exon_boundary e_start="92639" e_stop="92198" e_length="442"/>
          </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="95335" stop="95211"/>
              <exon start="92639" stop="92198"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="T1861" 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>GTGAAGCAAAGCAGCAGCAGCAACAGCAGCAGCAACAACAACAACAACAACAGGCACCTGAAAAGAAGGTTAAGAGTGTCAATTTCAATATGCCTCCAACAAGGGTCGTGCTGCTTAGGAATATG : GTTGGTCCTGGCGAGGTTGATGATGACCTAGAAGGTGAGGTGGCTGAAGAGTGCTCTAAGTTTGGTACTGTAACTCGTGTCTTAATATTTGAGATTACAGAAACAAATTTCCCTCATGAAGAAGCTGTTCGGATATTCGTTCAATTTGAGAGAGCAGAACACGCAACTAAAGCCCTTATAGAACTTGAAGGTCGATTTTTTGGCGGTAGGATTGTTCATGCCTGTTTCTACGACGAGGAGAGGTTTGGCAATAACGAATTAGCTCCCATGCCAGGAGAAATTCCTGGCTTTTGACCAAACAGTTATTGTCCAAATGTAACTTCTCTTTATTTTTTAACCGGGACTGTAATTTTGCAAGCTTGTTTAGCGTGCCTTACGTGATACATCTCCTTGTACCTATCGTCTCAAGTTTACACAAAGCTATGTATCGAAAAACTTCACA</gDNA_template>
            <first_frame> V  K  Q  S  S  S  S  N  S  S  S  N  N  N  N  N  N  R  H  L  K  R  R  L  R  V  S  I  S  I  C  L  Q  Q  G  S  C  C  L  G  I  W :   L  V  L  A  R  L  M  M  T  *  K  V  R  W  L  K  S  A  L  S  L  V  L  *  L  V  S  *  Y  L  R  L  Q  K  Q  I  S  L  M  K  K  L  F  G  Y  S  F  N  L  R  E  Q  N  T  Q  L  K  P  L  *  N  L  K  V  D  F  L  A  V  G  L  F  M  P  V  S  T  T  R  R  G  L  A  I  T  N  *  L  P  C  Q  E  K  F  L  A  F  D  Q  T  V  I  V  Q  M  *  L  L  F  I  F  *  P  G  L  *  F  C  K  L  V  *  R  A  L  R  D  T  S  P  C  T  Y  R  L  K  F  T  Q  S  Y  V  S  K  N  F  T </first_frame>
            <second_frame>  *  S  K  A  A  A  A  T  A  A  A  T  T  T  T  T  T  G  T  *  K  E  G  *  E  C  Q  F  Q  Y  A  S  N  K  G  R  A  A  *  E  Y   : G  W  S  W  R  G  *  *  *  P  R  R  *  G  G  *  R  V  L  *  V  W  Y  C  N  S  C  L  N  I  *  D  Y  R  N  K  F  P  S  *  R  S  C  S  D  I  R  S  I  *  E  S  R  T  R  N  *  S  P  Y  R  T  *  R  S  I  F  W  R  *  D  C  S  C  L  F  L  R  R  G  E  V  W  Q  *  R  I  S  S  H  A  R  R  N  S  W  L  L  T  K  Q  L  L  S  K  C  N  F  S  L  F  F  N  R  D  C  N  F  A  S  L  F  S  V  P  Y  V  I  H  L  L  V  P  I  V  S  S  L  H  K  A  M  Y  R  K  T  S   </second_frame>
            <third_frame>   E  A  K  Q  Q  Q  Q  Q  Q  Q  Q  Q  Q  Q  Q  Q  Q  A  P  E  K  K  V  K  S  V  N  F  N  M  P  P  T  R  V  V  L  L  R  N  M  :  V  G  P  G  E  V  D  D  D  L  E  G  E  V  A  E  E  C  S  K  F  G  T  V  T  R  V  L  I  F  E  I  T  E  T  N  F  P  H  E  E  A  V  R  I  F  V  Q  F  E  R  A  E  H  A  T  K  A  L  I  E  L  E  G  R  F  F  G  G  R  I  V  H  A  C  F  Y  D  E  E  R  F  G  N  N  E  L  A  P  M  P  G  E  I  P  G  F  *  P  N  S  Y  C  P  N  V  T  S  L  Y  F  L  T  G  T  V  I  L  Q  A  C  L  A  C  L  T  *  Y  I  S  L  Y  L  S  S  Q  V  Y  T  K  L  C  I  E  K  L  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="C02HBa0162I09.2" strand="-"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="95333" stop="95211"/>
                    <exon start="92639" stop="92346"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>414</number_coding_nucleotides>
                  <number_encoded_amino_acids>138</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EAKQQQQQQQQQQQQQQAPEKKVKSVNFNMPPTRVVLLRNMVGPGEVDDDLEGEVAEECSKFGTVTRVLIFEITETNFPHEEAVRIFVQFERAEHATKALIELEGRFFGGRIVHACFYDEERFGNNELAPMPGEIPGF*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 21 chains have been computed
$ 
$ memory statistics:
$ 57784 bytes spliced alignments in total
$ 3 spliced alignments have been stored
$ 19261 bytes was the average size of a spliced alignment
$ 8040 bytes predicted gene locations in total
$ 3 predicted gene locations have been stored
$ 2680 bytes was the average size of a predicted gene location
$ 2 megabytes was the average size of the backtrace matrix
$ 22 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 09:35:33
-->
