<?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 10:19:52"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C02HBa0238L13-qLo3S/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C02HBa0238L13-qLo3S/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-C02HBa0238L13-qLo3S/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="C2_At2g38320" ref_strand="+" ref_description="C2_At2g38320">
      <seq>agaaaaatgaatggaagaccagtacttttcggctctagtttaaagaacaagggaatgggtattcagctaagttttcagttgctggttgtgattatcactgcggttttagtccttacggctttgtcgatgtccagagggattagtcaatctccaaagttagtcgagaagcagacccagataagctcgttatctagctgtaatttctattctggtaaatgggtatttgataatcaatctcgccctctttataacgggacaaattgttcgttcatggatgatggaatggcttgtcagaagtttgggagaaagaatcttaactatctctactggaaatggcaacccaatgattgtgaccttccaagatttaatgctacggcgatgttggagaagttgaggaacaaaagggttgtttatgtgggagattcactcaataggaatcaatgggtttcaatggtctgcatattagaatcagaaattcctagtcatctcaaatatgtcaactataatggctctttggtcacctttaaagctattgaatacaatgctactattgatttctactgggcaccattgttagttgaatcaaattgcgacgatccatcatatcatcgtgtggacgagcgcatagtgagaatcgattcgatagaaaagcatgccagaatttggaaagatgctgatgtgcttgtttttaattcatatctatggtggagattgaatttgaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C02HBa0238L13-qLo3S/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C02HBa0238L13.1" temp_strand="-" temp_description="C02HBa0238L13.1  AC215431.2 htgs_phase:3 submitted_to_sgn_as:C02HBa0238L13 sequenced_by:kribb upload_account_name:korea">
        <position start="68944" stop="67438"/>
      </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="68644" g_stop="68283" g_length="362"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="362" r_length="362" r_score="0.961"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="68282" i_stop="68202" i_length="81">
            <donor d_prob="0.990" d_score="0.96"/>
            <acceptor a_prob="0.967" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="68201" g_stop="68030" g_length="172"/>
          <reference_exon_boundary r_type="cDNA" r_start="363" r_stop="534" r_length="172" r_score="0.977"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="68029" i_stop="67927" i_length="103">
            <donor d_prob="0.696" d_score="0.98"/>
            <acceptor a_prob="0.762" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="67926" g_stop="67738" g_length="189"/>
          <reference_exon_boundary r_type="cDNA" r_start="535" r_stop="723" r_length="189" r_score="0.963"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C02HBa0238L13.1" gen_strand="-" ref_id="C2_At2g38320" ref_strand="+">
        <total_alignment_score>0.965</total_alignment_score>
        <cumulative_length_of_scored_exons>723</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C02HBa0238L13.1" gen_strand="-"/>
        <rDNA rDNA_id="C2_At2g38320" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="68644" e_stop="68283"/>
          <exon e_start="68201" e_stop="68030"/>
          <exon e_start="67926" e_stop="67738"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAAAAATGAATGGAAGACCAGTACTTTTCGGCTCTAGTTTAAAGAACAAGGGAATGTGTATTCAGCTAAGTTTTCAGTTGCTGGTAGTGACTATCACTGCAGTTTTAGTTCTTACGGTTTTGTCGATGTCCAGAGGTATTGGTCAAGCTCCAAAGTTAGTCGAGAAGCAGACCCAGATAAGCTCGTTATCTAGCTGTAATTTCTATTCTGGTAAATGGGTATTTGATAATCAATCTCGCCCTCTGTATAATGGGACAAATTGTTCGTTCATGGATGATGGAATGGCTTGTCAGAAGTTTGGGAGAAAGAATCTTGACTATCTCTACTGGAAATGGCAACCCAATGATTGTGACCTTCCTAGGTAGAGTATTATTCAGTTTTTCTTCAATTTTATCCTACTTTTTGTTCTGGGTATTTGATTATAGTTGTTGATTTTGCGAAGATTTAATGCTACGGCTATGCTGGAGAAGTTGAGGAACAAAAGGGTTGTTTATGTGGGAGATTCACTCAATAGGAATCAATGGGTTTCAATGGTCTGCATATTAGAATCAGAAATTCCTAATCATCTCAAATATGTTAACTATAATGGCTCTTTGGTCACCTTTAAAGCTATTGTGAGTTTCGAAAATTGCTTCTCCAATACGCTACCTTGTTCTTCTCCTTGAACTTTGCTTGCAGTTCTAATTAGTTTAATTTTGTTTTTTTACGTTAATGAAGGAGTACAATGCTACTATTGATTTCTACTGGGCACCATTATTAGTTGAATCAAATTGCGACGATCCATCATATCATCGTGTGGAAGAACGCATAGTGAGAATCGATTCGATAGAAAAACATGCCAGAATTTGGAATGATGCTGATGTGCTAGTTTTTAATTCATATCTATGGTGGAGATTGAATTTGAAG</genome_strand>
        <mrna_strand>AGAAAAATGAATGGAAGACCAGTACTTTTCGGCTCTAGTTTAAAGAACAAGGGAATGGGTATTCAGCTAAGTTTTCAGTTGCTGGTTGTGATTATCACTGCGGTTTTAGTCCTTACGGCTTTGTCGATGTCCAGAGGGATTAGTCAATCTCCAAAGTTAGTCGAGAAGCAGACCCAGATAAGCTCGTTATCTAGCTGTAATTTCTATTCTGGTAAATGGGTATTTGATAATCAATCTCGCCCTCTTTATAACGGGACAAATTGTTCGTTCATGGATGATGGAATGGCTTGTCAGAAGTTTGGGAGAAAGAATCTTAACTATCTCTACTGGAAATGGCAACCCAATGATTGTGACCTTCCAAG.................................................................................ATTTAATGCTACGGCGATGTTGGAGAAGTTGAGGAACAAAAGGGTTGTTTATGTGGGAGATTCACTCAATAGGAATCAATGGGTTTCAATGGTCTGCATATTAGAATCAGAAATTCCTAGTCATCTCAAATATGTCAACTATAATGGCTCTTTGGTCACCTTTAAAGCTATT.......................................................................................................GAATACAATGCTACTATTGATTTCTACTGGGCACCATTGTTAGTTGAATCAAATTGCGACGATCCATCATATCATCGTGTGGACGAGCGCATAGTGAGAATCGATTCGATAGAAAAGCATGCCAGAATTTGGAAAGATGCTGATGTGCTTGTTTTTAATTCATATCTATGGTGGAGATTGAATTTGAAG</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-C02HBa0238L13-qLo3S/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="cLET-1-A5" ref_strand="+" ref_description="cLET-1-A5">
      <seq>aaagatcaaaatcatataactttagtatttctgaaaataaacttccatttttctaaatgggcatacagaatccccttattgattacatccaaatataacttatagacttcacaacgtaatacataaacataatttgcattctctctctatatataaataaagacgcttagccctgggcgaagttcttttgattgttacagtccaaattttcaccagtaggaacattcaacataccacaatacctcctgtaaaatccaattcgactttccgctgcagtattcggacccatcccacattcaaattgaccgttaatgatgttggtaatgacaccgtaccctggaactctattagctgctgtatctttaggggatggcgtccattgtccaatgataacgttgtggcatgatggtttattatcctgttctgtcatccagaaccatattgctgttttgaatgatattataggatct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C02HBa0238L13-qLo3S/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C02HBa0238L13.1" temp_strand="+" temp_description="C02HBa0238L13.1  AC215431.2 htgs_phase:3 submitted_to_sgn_as:C02HBa0238L13 sequenced_by:kribb upload_account_name:korea">
        <position start="77974" stop="79043"/>
      </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="78274" g_stop="78743" g_length="470"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="470" r_length="470" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C02HBa0238L13.1" gen_strand="+" ref_id="cLET-1-A5" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>470</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C02HBa0238L13.1" gen_strand="+"/>
        <rDNA rDNA_id="cLET-1-A5" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="78274" e_stop="78743"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGATCAAAATCATATAACTTTAGTATTTCTGAAAATAAACTTCCATTTTTCTAAATGGGCATACAGAATCCCCTTATTGATTACATCCAAATATAACTTATAGACTTCACAACGTAATACATAAACATAATTTGCATTCTCTCTCTATATATAAATAAAGACGCTTAGCCCTGGGCGAAGTTCTTTTGATTGTTACAGTCCAAATTTTCACCAGTAGGAACATTCAACATACCACAATACCTCCTGTAAAATCCAATTCGACTTTCCGCTGCAGTATTCGGACCCATCCCACATTCAAATTGACCGTTAATGATGTTGGTAATGACACCGTACCCTGGAACTCTATTAGCTGCTGTATCTTTAGGGGATGGCGTCCATTGTCCAATGATAACGTTGTGGCATGATGGTTTATTATCCTGTTCTGTCATCCAGAACCATATTGCTGTTTTGAATGATATTATAGGATCT</genome_strand>
        <mrna_strand>AAAGATCAAAATCATATAACTTTAGTATTTCTGAAAATAAACTTCCATTTTTCTAAATGGGCATACAGAATCCCCTTATTGATTACATCCAAATATAACTTATAGACTTCACAACGTAATACATAAACATAATTTGCATTCTCTCTCTATATATAAATAAAGACGCTTAGCCCTGGGCGAAGTTCTTTTGATTGTTACAGTCCAAATTTTCACCAGTAGGAACATTCAACATACCACAATACCTCCTGTAAAATCCAATTCGACTTTCCGCTGCAGTATTCGGACCCATCCCACATTCAAATTGACCGTTAATGATGTTGGTAATGACACCGTACCCTGGAACTCTATTAGCTGCTGTATCTTTAGGGGATGGCGTCCATTGTCCAATGATAACGTTGTGGCATGATGGTTTATTATCCTGTTCTGTCATCCAGAACCATATTGCTGTTTTGAATGATATTATAGGATCT</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="68644" PGL_stop="67738"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="68644" e_stop="68283"/>
            <exon e_start="68201" e_stop="68030"/>
            <exon e_start="67926" e_stop="67738"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.990" acc_prob="0.967" e_score="0.961"/>
          <exon-intron don_prob="0.696" acc_prob="0.762" e_score="0.977"/>
          <exon-only e_score="0.963"/>
        </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="0.961">
            <gDNA_exon_boundary e_start="68644" e_stop="68283" e_length="362"/>
          </exon>
          <intron i_serial="1" don_prob="0.990" acc_prob="0.967">
            <gDNA_intron_boundary i_start="68282" i_stop="68202" i_length="81"/>
          </intron>
          <exon e_serial="2" e_score="0.977">
            <gDNA_exon_boundary e_start="68201" e_stop="68030" e_length="172"/>
          </exon>
          <intron i_serial="2" don_prob="0.696" acc_prob="0.762">
            <gDNA_intron_boundary i_start="68029" i_stop="67927" i_length="103"/>
          </intron>
          <exon e_serial="3" e_score="0.963">
            <gDNA_exon_boundary e_start="67926" e_stop="67738" e_length="189"/>
          </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="68644" stop="68283"/>
              <exon start="68201" stop="68030"/>
              <exon start="67926" stop="67738"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="C2_At2g38320" 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>AAAAAAATGAATGGAAGACCAGTACTTTTCGGCTCTAGTTTAAAGAACAAGGGAATGTGTATTCAGCTAAGTTTTCAGTTGCTGGTAGTGACTATCACTGCAGTTTTAGTTCTTACGGTTTTGTCGATGTCCAGAGGTATTGGTCAAGCTCCAAAGTTAGTCGAGAAGCAGACCCAGATAAGCTCGTTATCTAGCTGTAATTTCTATTCTGGTAAATGGGTATTTGATAATCAATCTCGCCCTCTGTATAATGGGACAAATTGTTCGTTCATGGATGATGGAATGGCTTGTCAGAAGTTTGGGAGAAAGAATCTTGACTATCTCTACTGGAAATGGCAACCCAATGATTGTGACCTTCCTAG : ATTTAATGCTACGGCTATGCTGGAGAAGTTGAGGAACAAAAGGGTTGTTTATGTGGGAGATTCACTCAATAGGAATCAATGGGTTTCAATGGTCTGCATATTAGAATCAGAAATTCCTAATCATCTCAAATATGTTAACTATAATGGCTCTTTGGTCACCTTTAAAGCTATT : GAGTACAATGCTACTATTGATTTCTACTGGGCACCATTATTAGTTGAATCAAATTGCGACGATCCATCATATCATCGTGTGGAAGAACGCATAGTGAGAATCGATTCGATAGAAAAACATGCCAGAATTTGGAATGATGCTGATGTGCTAGTTTTTAATTCATATCTATGGTGGAGATTGAATTTGAAG</gDNA_template>
            <first_frame> K  K  M  N  G  R  P  V  L  F  G  S  S  L  K  N  K  G  M  C  I  Q  L  S  F  Q  L  L  V  V  T  I  T  A  V  L  V  L  T  V  L  S  M  S  R  G  I  G  Q  A  P  K  L  V  E  K  Q  T  Q  I  S  S  L  S  S  C  N  F  Y  S  G  K  W  V  F  D  N  Q  S  R  P  L  Y  N  G  T  N  C  S  F  M  D  D  G  M  A  C  Q  K  F  G  R  K  N  L  D  Y  L  Y  W  K  W  Q  P  N  D  C  D  L  P  R :   F  N  A  T  A  M  L  E  K  L  R  N  K  R  V  V  Y  V  G  D  S  L  N  R  N  Q  W  V  S  M  V  C  I  L  E  S  E  I  P  N  H  L  K  Y  V  N  Y  N  G  S  L  V  T  F  K  A  I  :  E  Y  N  A  T  I  D  F  Y  W  A  P  L  L  V  E  S  N  C  D  D  P  S  Y  H  R  V  E  E  R  I  V  R  I  D  S  I  E  K  H  A  R  I  W  N  D  A  D  V  L  V  F  N  S  Y  L  W  W  R  L  N  L  K </first_frame>
            <second_frame>  K  K  *  M  E  D  Q  Y  F  S  A  L  V  *  R  T  R  E  C  V  F  S  *  V  F  S  C  W  *  *  L  S  L  Q  F  *  F  L  R  F  C  R  C  P  E  V  L  V  K  L  Q  S  *  S  R  S  R  P  R  *  A  R  Y  L  A  V  I  S  I  L  V  N  G  Y  L  I  I  N  L  A  L  C  I  M  G  Q  I  V  R  S  W  M  M  E  W  L  V  R  S  L  G  E  R  I  L  T  I  S  T  G  N  G  N  P  M  I  V  T  F  L   : D  L  M  L  R  L  C  W  R  S  *  G  T  K  G  L  F  M  W  E  I  H  S  I  G  I  N  G  F  Q  W  S  A  Y  *  N  Q  K  F  L  I  I  S  N  M  L  T  I  M  A  L  W  S  P  L  K  L  L :   S  T  M  L  L  L  I  S  T  G  H  H  Y  *  L  N  Q  I  A  T  I  H  H  I  I  V  W  K  N  A  *  *  E  S  I  R  *  K  N  M  P  E  F  G  M  M  L  M  C  *  F  L  I  H  I  Y  G  G  D  *  I  *   </second_frame>
            <third_frame>   K  N  E  W  K  T  S  T  F  R  L  *  F  K  E  Q  G  N  V  Y  S  A  K  F  S  V  A  G  S  D  Y  H  C  S  F  S  S  Y  G  F  V  D  V  Q  R  Y  W  S  S  S  K  V  S  R  E  A  D  P  D  K  L  V  I  *  L  *  F  L  F  W  *  M  G  I  *  *  S  I  S  P  S  V  *  W  D  K  L  F  V  H  G  *  W  N  G  L  S  E  V  W  E  K  E  S  *  L  S  L  L  E  M  A  T  Q  *  L  *  P  S  *  :  I  *  C  Y  G  Y  A  G  E  V  E  E  Q  K  G  C  L  C  G  R  F  T  Q  *  E  S  M  G  F  N  G  L  H  I  R  I  R  N  S  *  S  S  Q  I  C  *  L  *  W  L  F  G  H  L  *  S  Y   : *  V  Q  C  Y  Y  *  F  L  L  G  T  I  I  S  *  I  K  L  R  R  S  I  I  S  S  C  G  R  T  H  S  E  N  R  F  D  R  K  T  C  Q  N  L  E  *  C  *  C  A  S  F  *  F  I  S  M  V  E  I  E  F  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="C02HBa0238L13.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="68644" stop="68283"/>
                    <exon start="68201" stop="68030"/>
                    <exon start="67926" stop="67738"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>723</number_coding_nucleotides>
                  <number_encoded_amino_acids>241</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KKMNGRPVLFGSSLKNKGMCIQLSFQLLVVTITAVLVLTVLSMSRGIGQAPKLVEKQTQISSLSSCNFYSGKWVFDNQSRPLYNGTNCSFMDDGMACQKFGRKNLDYLYWKWQPNDCDLPRFNATAMLEKLRNKRVVYVGDSLNRNQWVSMVCILESEIPNHLKYVNYNGSLVTFKAIEYNATIDFYWAPLLVESNCDDPSYHRVEERIVRIDSIEKHARIWNDADVLVFNSYLWWRLNLK</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="78274" PGL_stop="78743"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="78274" e_stop="78743"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="78274" e_stop="78743" e_length="470"/>
          </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="78274" stop="78743"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="cLET-1-A5" 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>AAAGATCAAAATCATATAACTTTAGTATTTCTGAAAATAAACTTCCATTTTTCTAAATGGGCATACAGAATCCCCTTATTGATTACATCCAAATATAACTTATAGACTTCACAACGTAATACATAAACATAATTTGCATTCTCTCTCTATATATAAATAAAGACGCTTAGCCCTGGGCGAAGTTCTTTTGATTGTTACAGTCCAAATTTTCACCAGTAGGAACATTCAACATACCACAATACCTCCTGTAAAATCCAATTCGACTTTCCGCTGCAGTATTCGGACCCATCCCACATTCAAATTGACCGTTAATGATGTTGGTAATGACACCGTACCCTGGAACTCTATTAGCTGCTGTATCTTTAGGGGATGGCGTCCATTGTCCAATGATAACGTTGTGGCATGATGGTTTATTATCCTGTTCTGTCATCCAGAACCATATTGCTGTTTTGAATGATATTATAGGATCT</gDNA_template>
            <first_frame> K  D  Q  N  H  I  T  L  V  F  L  K  I  N  F  H  F  S  K  W  A  Y  R  I  P  L  L  I  T  S  K  Y  N  L  *  T  S  Q  R  N  T  *  T  *  F  A  F  S  L  Y  I  *  I  K  T  L  S  P  G  R  S  S  F  D  C  Y  S  P  N  F  H  Q  *  E  H  S  T  Y  H  N  T  S  C  K  I  Q  F  D  F  P  L  Q  Y  S  D  P  S  H  I  Q  I  D  R  *  *  C  W  *  *  H  R  T  L  E  L  Y  *  L  L  Y  L  *  G  M  A  S  I  V  Q  *  *  R  C  G  M  M  V  Y  Y  P  V  L  S  S  R  T  I  L  L  F  *  M  I  L  *  D   </first_frame>
            <second_frame>  K  I  K  I  I  *  L  *  Y  F  *  K  *  T  S  I  F  L  N  G  H  T  E  S  P  Y  *  L  H  P  N  I  T  Y  R  L  H  N  V  I  H  K  H  N  L  H  S  L  S  I  Y  K  *  R  R  L  A  L  G  E  V  L  L  I  V  T  V  Q  I  F  T  S  R  N  I  Q  H  T  T  I  P  P  V  K  S  N  S  T  F  R  C  S  I  R  T  H  P  T  F  K  L  T  V  N  D  V  G  N  D  T  V  P  W  N  S  I  S  C  C  I  F  R  G  W  R  P  L  S  N  D  N  V  V  A  *  W  F  I  I  L  F  C  H  P  E  P  Y  C  C  F  E  *  Y  Y  R  I  </second_frame>
            <third_frame>   R  S  K  S  Y  N  F  S  I  S  E  N  K  L  P  F  F  *  M  G  I  Q  N  P  L  I  D  Y  I  Q  I  *  L  I  D  F  T  T  *  Y  I  N  I  I  C  I  L  S  L  Y  I  N  K  D  A  *  P  W  A  K  F  F  *  L  L  Q  S  K  F  S  P  V  G  T  F  N  I  P  Q  Y  L  L  *  N  P  I  R  L  S  A  A  V  F  G  P  I  P  H  S  N  *  P  L  M  M  L  V  M  T  P  Y  P  G  T  L  L  A  A  V  S  L  G  D  G  V  H  C  P  M  I  T  L  W  H  D  G  L  L  S  C  S  V  I  Q  N  H  I  A  V  L  N  D  I  I  G  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="C02HBa0238L13.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="78434" stop="78679"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>243</number_coding_nucleotides>
                  <number_encoded_amino_acids>81</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RRLALGEVLLIVTVQIFTSRNIQHTTIPPVKSNSTFRCSIRTHPTFKLTVNDVGNDTVPWNSISCCIFRGWRPLSNDNVVA*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 7 chains have been computed
$ 
$ memory statistics:
$ 4576 bytes spliced alignments in total
$ 2 spliced alignments have been stored
$ 2288 bytes was the average size of a spliced alignment
$ 6768 bytes predicted gene locations in total
$ 2 predicted gene locations have been stored
$ 3384 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 7 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 10:19:55
-->
