<?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="2010-01-21 23:36:12"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C01HBa0162G22-CoBMd/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C01HBa0162G22-CoBMd/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-C01HBa0162G22-CoBMd/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="SGN-M1742" ref_strand="+" ref_description="SGN-M1742 T1072 (COS)">
      <seq>gcttttaagtagcatttatctacacaataataatatggagaaaattggaggaattaaaagttttaacatggagaaaattccaaagaagcattttatcctagttcatggattttgtcatggttcttggtgttggtacaaaattatcaatttattggaaaaatgtggtcataaagtgactgctttagaccttggtggttgtggaattaatatgaaacaattgaatgaaattgattcaatatttgattatattcaacctttgatggatcttatgatatctttgtctaaagatgaaaagattattttggttagtcatagttacggtggtctttgtatttctcttgctatggaagctttcccacacaaaatttcaacaggagtgtttatctctgcttatatgcctaatcatgtggatccaccttctcttcttattcttgagtacttcaagaggacttcagtggagtcacttatggattgccaatttaagtttgatcaaggcatggaaaatccaccaacaagtgctattttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0162G22-CoBMd/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C01HBa0162G22.2" temp_strand="+" temp_description="C01HBa0162G22.2  AC233126.5 htgs_phase:1 submitted_to_sgn_as:C01HBa0162G22 upload_account_name:manual">
        <position start="25579" stop="28543"/>
      </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="25878" g_stop="26313" g_length="436"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="436" r_length="436" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="26314" i_stop="28153" i_length="1840">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.833" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="28154" g_stop="28243" g_length="90"/>
          <reference_exon_boundary r_type="cDNA" r_start="437" r_stop="526" r_length="90" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0162G22.2" gen_strand="+" ref_id="SGN-M1742" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>526</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0162G22.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M1742" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25878" e_stop="26313"/>
          <exon e_start="28154" e_stop="28243"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTTTAAGTAGCATTTATCTACACAATAATAATATGGAGAAAATTGGAGGAATTAAAAGTTTTAACATGGAGAAAATTCCAAAGAAGCATTTTATCCTAGTTCATGGATTTTGTCATGGTTCTTGGTGTTGGTACAAAATTATCAATTTATTGGAAAAATGTGGTCATAAAGTGACTGCTTTAGACCTTGGTGGTTGTGGAATTAATATGAAACAATTGAATGAAATTGATTCAATATTTGATTATATTCAACCTTTGATGGATCTTATGATATCTTTGTCTAAAGATGAAAAGATTATTTTGGTTAGTCATAGTTACGGTGGTCTTTGTATTTCTCTTGCTATGGAAGCTTTCCCACACAAAATTTCAACAGGAGTTTTTATCTCTGCTTATATGCCTAATCATGTGGATCCACCTTCTCTTCTTATTCTTGAGGTAATTTTCATTATTTTGTTTCAATTTATATGATTTTTTTTCTTTTTGAGGATTTATTTATGACTACTTATGACTTTTTGTTTTTAGCTCTTCTTATTCATGAGGTAATTTTTGCAATCCATGAGTTCAATTTTCATCAAAAAGAAAAACGAAAAAAAAAAGTACTCTACCTTATCTCAATTTGTGTCATACTGTTTAGCTTTTTAAGAGTTACTTTTATTATTTTTTAATGCTCAATTTATTATGTTAGAATAAGATTGAAGTAAATTTCATGGAATAGGATTTGATCCTACTAGATCCTAATAGTAAATGATCAGATCTTGTAAGTATTTTCTTTCTCATAAACGAAATCTTCGAAAAGGATTTGATCCTACTAGATCCTAATAGTAAATGATCAGATCTTGTAAGTATTTTCTTTCTCATAAACATAATTTGCTTTCGAAGATTTTACGTAATATTATTTAATATCTTTCACTAAATATGTTATTATTATTCAATTTATTTGGATTATTGTTATTTATTATTTTATAATATATTATATTATATTATAATGTATTATTATATGGTAGATACAATGTTTGGCTAGATTGTGTTGTTTGTTATTGTTTATTAACATTTTAATTGTTTGGTTTGATCGTATCATACTGTATTATAATTTATAAATTTACTTAAATATCCTTAATTATTATAGGATAGGAGACTTGACTAGGTTTAAATAATTAAGGTAAAGAGTAAAAAGTATTTTGAAATATTATGTAAAGATATAGTTGGAAAAAGAAATTAAGTAAAGAACGCACCAAATTGATTGTTCCACAAAATATAATTTTTTATTACTATGTAATAACGAAAGTTAACAATATAGTACAATACATTTTAAATAACAATTAAAACTAATATTGTAGATATAGTAACAATGCGAAATAATATAATCAATAACAATGATCCAAACATAATATAAATATGTCACTGTTATTTAATGGCCAAATACATACGCAGGTCCCTACAGTTGTTCGCACTTTTCCCCCCAGGTATCTCAACTAACCAAGATTCTTATTAAATCCTTTAACCCCCTATAATTTGATCCTTTTAAATATTCTTGGCTGATGTGGAGCCAAATTTCAATAAATTATTTTTGACAATTATGCGCGTGAGATGAACCTTTTCCACGTGGAAATTTTGACCAATACACTCCAACCCAATTACACGTCAGTGCCACATATTTTCTAACCCGTTTCTATACGAGAAAACCCTAAGAATCTCTCCCTTTCAATGACTTTTACAGCTGAAATTTTTAGATTTTACAGTGATTTTGAGTGTTTTGTTGAAGGAATCATCGAAGATTGCAGACGATTTTGGGGTTCATTCGCGATTTTCGAGTTGACATAGTACCTTCGCAGTTGAAGAAGAAGAAATCGATAAAGAAGATAAATTCGACATTGGAACTTGATGATTAAGAAGAAATCAATGAAAAAGTGATATATATAATGAGGTAAAGAAGATAAATATGATGAAGAGAAACAAAAGAGGAGAAATAATGGAAGAATGGGAGAAATTAGGGTTAAAAGGGGGAAGAAGATCGTTGGTGGGTGGTTCAAGATCCACATCCGCGCTTTTAAAGAGTCTGCACGCGCTTAAAGGACGTGAAATCACGTTTTGCTCCACATCAGCCAAGAATATTTAAAAGGATCAAATTATAGGGGGTTAAAAGATTTAATAGGAAACTTGGTTAGTTGAGGTACCTGAGGAAAAAACACAAATAACTTTAGGTACCTGCATATGTATTTGGCCTTATTTAATTTATCTATTGTCGTTCCGCCATATAATTATGGGTGCATTGCAGTACTTCAAGAGGACTTCAGTGGAGTCACTTATGGATTGCCAATTTAAGTTTGATCAAGGCATGGAAAATCCACCAACAAGTGCTATTTTT</genome_strand>
        <mrna_strand>GCTTTTAAGTAGCATTTATCTACACAATAATAATATGGAGAAAATTGGAGGAATTAAAAGTTTTAACATGGAGAAAATTCCAAAGAAGCATTTTATCCTAGTTCATGGATTTTGTCATGGTTCTTGGTGTTGGTACAAAATTATCAATTTATTGGAAAAATGTGGTCATAAAGTGACTGCTTTAGACCTTGGTGGTTGTGGAATTAATATGAAACAATTGAATGAAATTGATTCAATATTTGATTATATTCAACCTTTGATGGATCTTATGATATCTTTGTCTAAAGATGAAAAGATTATTTTGGTTAGTCATAGTTACGGTGGTCTTTGTATTTCTCTTGCTATGGAAGCTTTCCCACACAAAATTTCAACAGGAGTGTTTATCTCTGCTTATATGCCTAATCATGTGGATCCACCTTCTCTTCTTATTCTTGAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TACTTCAAGAGGACTTCAGTGGAGTCACTTATGGATTGCCAATTTAAGTTTGATCAAGGCATGGAAAATCCACCAACAAGTGCTATTTTT</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-C01HBa0162G22-CoBMd/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="SGN-M8472" ref_strand="+" ref_description="SGN-M8472 C2_At4g34540 (COSII)">
      <seq>ttcaaacctcagcttaccggagacggctaacggaggcgaatggaatcaaataagagtaaaatactgataatcggagtaacaggtcgtttgggttttgaactagcgaaggccagtctcaattcctctcatcccacgttcggccttgttagagattcagcattctctgacacacataaatcccaaaagcttcataccctttccgaagagggcctcacactaatcaagggttcattgcaagatgaagatatcctgcttgaagcactcaagcaagttgatatcgtgatttgtgctgtttcatctaagcaagtccacgaacaaaagattctgatttctgctataaagcgtgctggttgcattaaaaggttcctcccttcagagttcggggcagatcctgacagaagtcaagtttctgatttggaccacaacttctactcgagaaaatccgagattaggcgtatcattgaagctgaaggcattccttacacctatgtctgttgtaacttatttacaagtgttctcctaccgtcacttgttcaaccaggtcggaaagcccctccgagagatgaagtcagcatattcggtgatggaactgctaaagctgtctttatgagtgaaaatgatgttgctgcctttgccataaatacagtggacgatgcacgtactctgaacaaagtggtatacatgaggccaaggggaaatgtgtgttcaatgaatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0162G22-CoBMd/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C01HBa0162G22.2" temp_strand="+" temp_description="C01HBa0162G22.2  AC233126.5 htgs_phase:1 submitted_to_sgn_as:C01HBa0162G22 upload_account_name:manual">
        <position start="63359" stop="64605"/>
      </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="63659" g_stop="64373" g_length="715"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="715" r_length="715" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0162G22.2" gen_strand="+" ref_id="SGN-M8472" ref_strand="+">
        <total_alignment_score>0.965</total_alignment_score>
        <cumulative_length_of_scored_exons>715</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0162G22.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M8472" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="63659" e_stop="64373"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCAAACCTCAGCTTACCGGAGACGGCTAACGGAGGCAAATGGAATCAAATAAGAGTAAAATACTGATAATCGGAGTAACAGGCCGTTTGGGTTTTGAACTAGCAAAGGCCAGTCTCAATTCCTCTCATCCCACATTCGGACTTGTTAGAGATTCAGCATTCTCTGACACTCATAAATCCCAAAAGATTCATACCCTTACCGAAGCGGGCCTCACAGTAATCAAGGGTTCATTGCAAGATGAAGATATCCTGCTTGAAGCACTCAAGCAAGTTGAGATCGTGATTTCTGCTGTTTCATCTAAGCAAGTCCACGAACAAAAGATTCTGATTTCTGCTATAAAGCGTGCTGGTTGCATTAAAAGGTTCCTCCCTTCAGAGTTCGGGGCTGACCCTGACAGAACTCAAGTTTCTGATTTGGACCACAACTTCTACTCGAGAAAATCCGAGATTAGGCGTATTATTGAAGCTGAAGGCATTCCTTACACCTATGTCTGTTGTAACTTATTTACTAGTGTTCTCCTATCGTCACTTGCTCAACCAGGTCGGAAAGCCCCTCCGAGAGATGAAGTCAGCATATTCGGTGATGGAACTGCTAAAGCTGTCTTTATGAACGAAAATGATGTTGCTGCCTTTGTCATAAATACAGTGGACGATGCACGGACTCTGAACAAAGTGGTATACATGAGGCCAAAGGGAAATGTGTATTCAATGAATG</genome_strand>
        <mrna_strand>TTCAAACCTCAGCTTACCGGAGACGGCTAACGGAGGCGAATGGAATCAAATAAGAGTAAAATACTGATAATCGGAGTAACAGGTCGTTTGGGTTTTGAACTAGCGAAGGCCAGTCTCAATTCCTCTCATCCCACGTTCGGCCTTGTTAGAGATTCAGCATTCTCTGACACACATAAATCCCAAAAGCTTCATACCCTTTCCGAAGAGGGCCTCACACTAATCAAGGGTTCATTGCAAGATGAAGATATCCTGCTTGAAGCACTCAAGCAAGTTGATATCGTGATTTGTGCTGTTTCATCTAAGCAAGTCCACGAACAAAAGATTCTGATTTCTGCTATAAAGCGTGCTGGTTGCATTAAAAGGTTCCTCCCTTCAGAGTTCGGGGCAGATCCTGACAGAAGTCAAGTTTCTGATTTGGACCACAACTTCTACTCGAGAAAATCCGAGATTAGGCGTATCATTGAAGCTGAAGGCATTCCTTACACCTATGTCTGTTGTAACTTATTTACAAGTGTTCTCCTACCGTCACTTGTTCAACCAGGTCGGAAAGCCCCTCCGAGAGATGAAGTCAGCATATTCGGTGATGGAACTGCTAAAGCTGTCTTTATGAGTGAAAATGATGTTGCTGCCTTTGCCATAAATACAGTGGACGATGCACGTACTCTGAACAAAGTGGTATACATGAGGCCAAGGGGAAATGTGTGTTCAATGAATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>2</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="25878" PGL_stop="28243"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="25878" e_stop="26313"/>
            <exon e_start="28154" e_stop="28243"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.833" e_score="0.995"/>
          <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="0.995">
            <gDNA_exon_boundary e_start="25878" e_stop="26313" e_length="436"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.833">
            <gDNA_intron_boundary i_start="26314" i_stop="28153" i_length="1840"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="28154" e_stop="28243" e_length="90"/>
          </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="25878" stop="26313"/>
              <exon start="28154" stop="28243"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M1742" 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>TCTTTTAAGTAGCATTTATCTACACAATAATAATATGGAGAAAATTGGAGGAATTAAAAGTTTTAACATGGAGAAAATTCCAAAGAAGCATTTTATCCTAGTTCATGGATTTTGTCATGGTTCTTGGTGTTGGTACAAAATTATCAATTTATTGGAAAAATGTGGTCATAAAGTGACTGCTTTAGACCTTGGTGGTTGTGGAATTAATATGAAACAATTGAATGAAATTGATTCAATATTTGATTATATTCAACCTTTGATGGATCTTATGATATCTTTGTCTAAAGATGAAAAGATTATTTTGGTTAGTCATAGTTACGGTGGTCTTTGTATTTCTCTTGCTATGGAAGCTTTCCCACACAAAATTTCAACAGGAGTTTTTATCTCTGCTTATATGCCTAATCATGTGGATCCACCTTCTCTTCTTATTCTTGAG : TACTTCAAGAGGACTTCAGTGGAGTCACTTATGGATTGCCAATTTAAGTTTGATCAAGGCATGGAAAATCCACCAACAAGTGCTATTTTT</gDNA_template>
            <first_frame> S  F  K  *  H  L  S  T  Q  *  *  Y  G  E  N  W  R  N  *  K  F  *  H  G  E  N  S  K  E  A  F  Y  P  S  S  W  I  L  S  W  F  L  V  L  V  Q  N  Y  Q  F  I  G  K  M  W  S  *  S  D  C  F  R  P  W  W  L  W  N  *  Y  E  T  I  E  *  N  *  F  N  I  *  L  Y  S  T  F  D  G  S  Y  D  I  F  V  *  R  *  K  D  Y  F  G  *  S  *  L  R  W  S  L  Y  F  S  C  Y  G  S  F  P  T  Q  N  F  N  R  S  F  Y  L  C  L  Y  A  *  S  C  G  S  T  F  S  S  Y  S  *   : V  L  Q  E  D  F  S  G  V  T  Y  G  L  P  I  *  V  *  S  R  H  G  K  S  T  N  K  C  Y  F  </first_frame>
            <second_frame>  L  L  S  S  I  Y  L  H  N  N  N  M  E  K  I  G  G  I  K  S  F  N  M  E  K  I  P  K  K  H  F  I  L  V  H  G  F  C  H  G  S  W  C  W  Y  K  I  I  N  L  L  E  K  C  G  H  K  V  T  A  L  D  L  G  G  C  G  I  N  M  K  Q  L  N  E  I  D  S  I  F  D  Y  I  Q  P  L  M  D  L  M  I  S  L  S  K  D  E  K  I  I  L  V  S  H  S  Y  G  G  L  C  I  S  L  A  M  E  A  F  P  H  K  I  S  T  G  V  F  I  S  A  Y  M  P  N  H  V  D  P  P  S  L  L  I  L  E  :  Y  F  K  R  T  S  V  E  S  L  M  D  C  Q  F  K  F  D  Q  G  M  E  N  P  P  T  S  A  I  F </second_frame>
            <third_frame>   F  *  V  A  F  I  Y  T  I  I  I  W  R  K  L  E  E  L  K  V  L  T  W  R  K  F  Q  R  S  I  L  S  *  F  M  D  F  V  M  V  L  G  V  G  T  K  L  S  I  Y  W  K  N  V  V  I  K  *  L  L  *  T  L  V  V  V  E  L  I  *  N  N  *  M  K  L  I  Q  Y  L  I  I  F  N  L  *  W  I  L  *  Y  L  C  L  K  M  K  R  L  F  W  L  V  I  V  T  V  V  F  V  F  L  L  L  W  K  L  S  H  T  K  F  Q  Q  E  F  L  S  L  L  I  C  L  I  M  W  I  H  L  L  F  L  F  L  S :   T  S  R  G  L  Q  W  S  H  L  W  I  A  N  L  S  L  I  K  A  W  K  I  H  Q  Q  V  L  F   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C01HBa0162G22.2" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="25879" stop="26313"/>
                    <exon start="28154" stop="28243"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>525</number_coding_nucleotides>
                  <number_encoded_amino_acids>175</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LLSSIYLHNNNMEKIGGIKSFNMEKIPKKHFILVHGFCHGSWCWYKIINLLEKCGHKVTALDLGGCGINMKQLNEIDSIFDYIQPLMDLMISLSKDEKIILVSHSYGGLCISLAMEAFPHKISTGVFISAYMPNHVDPPSLLILEYFKRTSVESLMDCQFKFDQGMENPPTSAIF</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="63659" PGL_stop="64373"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="63659" e_stop="64373"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.965"/>
        </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="0.965">
            <gDNA_exon_boundary e_start="63659" e_stop="64373" e_length="715"/>
          </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="63659" stop="64373"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8472" 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>TTCAAACCTCAGCTTACCGGAGACGGCTAACGGAGGCAAATGGAATCAAATAAGAGTAAAATACTGATAATCGGAGTAACAGGCCGTTTGGGTTTTGAACTAGCAAAGGCCAGTCTCAATTCCTCTCATCCCACATTCGGACTTGTTAGAGATTCAGCATTCTCTGACACTCATAAATCCCAAAAGATTCATACCCTTACCGAAGCGGGCCTCACAGTAATCAAGGGTTCATTGCAAGATGAAGATATCCTGCTTGAAGCACTCAAGCAAGTTGAGATCGTGATTTCTGCTGTTTCATCTAAGCAAGTCCACGAACAAAAGATTCTGATTTCTGCTATAAAGCGTGCTGGTTGCATTAAAAGGTTCCTCCCTTCAGAGTTCGGGGCTGACCCTGACAGAACTCAAGTTTCTGATTTGGACCACAACTTCTACTCGAGAAAATCCGAGATTAGGCGTATTATTGAAGCTGAAGGCATTCCTTACACCTATGTCTGTTGTAACTTATTTACTAGTGTTCTCCTATCGTCACTTGCTCAACCAGGTCGGAAAGCCCCTCCGAGAGATGAAGTCAGCATATTCGGTGATGGAACTGCTAAAGCTGTCTTTATGAACGAAAATGATGTTGCTGCCTTTGTCATAAATACAGTGGACGATGCACGGACTCTGAACAAAGTGGTATACATGAGGCCAAAGGGAAATGTGTATTCAATGAATG</gDNA_template>
            <first_frame> F  K  P  Q  L  T  G  D  G  *  R  R  Q  M  E  S  N  K  S  K  I  L  I  I  G  V  T  G  R  L  G  F  E  L  A  K  A  S  L  N  S  S  H  P  T  F  G  L  V  R  D  S  A  F  S  D  T  H  K  S  Q  K  I  H  T  L  T  E  A  G  L  T  V  I  K  G  S  L  Q  D  E  D  I  L  L  E  A  L  K  Q  V  E  I  V  I  S  A  V  S  S  K  Q  V  H  E  Q  K  I  L  I  S  A  I  K  R  A  G  C  I  K  R  F  L  P  S  E  F  G  A  D  P  D  R  T  Q  V  S  D  L  D  H  N  F  Y  S  R  K  S  E  I  R  R  I  I  E  A  E  G  I  P  Y  T  Y  V  C  C  N  L  F  T  S  V  L  L  S  S  L  A  Q  P  G  R  K  A  P  P  R  D  E  V  S  I  F  G  D  G  T  A  K  A  V  F  M  N  E  N  D  V  A  A  F  V  I  N  T  V  D  D  A  R  T  L  N  K  V  V  Y  M  R  P  K  G  N  V  Y  S  M  N  </first_frame>
            <second_frame>  S  N  L  S  L  P  E  T  A  N  G  G  K  W  N  Q  I  R  V  K  Y  *  *  S  E  *  Q  A  V  W  V  L  N  *  Q  R  P  V  S  I  P  L  I  P  H  S  D  L  L  E  I  Q  H  S  L  T  L  I  N  P  K  R  F  I  P  L  P  K  R  A  S  Q  *  S  R  V  H  C  K  M  K  I  S  C  L  K  H  S  S  K  L  R  S  *  F  L  L  F  H  L  S  K  S  T  N  K  R  F  *  F  L  L  *  S  V  L  V  A  L  K  G  S  S  L  Q  S  S  G  L  T  L  T  E  L  K  F  L  I  W  T  T  T  S  T  R  E  N  P  R  L  G  V  L  L  K  L  K  A  F  L  T  P  M  S  V  V  T  Y  L  L  V  F  S  Y  R  H  L  L  N  Q  V  G  K  P  L  R  E  M  K  S  A  Y  S  V  M  E  L  L  K  L  S  L  *  T  K  M  M  L  L  P  L  S  *  I  Q  W  T  M  H  G  L  *  T  K  W  Y  T  *  G  Q  R  E  M  C  I  Q  *  M </second_frame>
            <third_frame>   Q  T  S  A  Y  R  R  R  L  T  E  A  N  G  I  K  *  E  *  N  T  D  N  R  S  N  R  P  F  G  F  *  T  S  K  G  Q  S  Q  F  L  S  S  H  I  R  T  C  *  R  F  S  I  L  *  H  S  *  I  P  K  D  S  Y  P  Y  R  S  G  P  H  S  N  Q  G  F  I  A  R  *  R  Y  P  A  *  S  T  Q  A  S  *  D  R  D  F  C  C  F  I  *  A  S  P  R  T  K  D  S  D  F  C  Y  K  A  C  W  L  H  *  K  V  P  P  F  R  V  R  G  *  P  *  Q  N  S  S  F  *  F  G  P  Q  L  L  L  E  K  I  R  D  *  A  Y  Y  *  S  *  R  H  S  L  H  L  C  L  L  *  L  I  Y  *  C  S  P  I  V  T  C  S  T  R  S  E  S  P  S  E  R  *  S  Q  H  I  R  *  W  N  C  *  S  C  L  Y  E  R  K  *  C  C  C  L  C  H  K  Y  S  G  R  C  T  D  S  E  Q  S  G  I  H  E  A  K  G  K  C  V  F  N  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="C01HBa0162G22.2" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="63689" stop="64372"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>684</number_coding_nucleotides>
                  <number_encoded_amino_acids>228</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RRQMESNKSKILIIGVTGRLGFELAKASLNSSHPTFGLVRDSAFSDTHKSQKIHTLTEAGLTVIKGSLQDEDILLEALKQVEIVISAVSSKQVHEQKILISAIKRAGCIKRFLPSEFGADPDRTQVSDLDHNFYSRKSEIRRIIEAEGIPYTYVCCNLFTSVLLSSLAQPGRKAPPRDEVSIFGDGTAKAVFMNENDVAAFVINTVDDARTLNKVVYMRPKGNVYSMN</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:
$ 4320 bytes spliced alignments in total
$ 2 spliced alignments have been stored
$ 2160 bytes was the average size of a spliced alignment
$ 6736 bytes predicted gene locations in total
$ 2 predicted gene locations have been stored
$ 3368 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: 2010-01-21 23:36:14
-->
