<?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="2009-01-14 20:50:13"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04SLm0141K23-y0twN/GenomeThreader_SGN_U_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04SLm0141K23-y0twN/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" type="ESTcDNA"/>
    </reference_files>
    <splice_site_parameters parameter_type="Bayesian" species="arabidopsis"/>
    <parameters>
      <parameter name="bssmfile" value="arabidopsis"/>
      <parameter name="scorematrixfile" value="BLOSUM62"/>
      <parameter name="searchmode" value="forward=True,reverse=True)"/>
      <parameter name="translationtable" value="1"/>
      <parameter name="frompos" value="0"/>
      <parameter name="topos" value="0"/>
      <parameter name="width" value="0"/>
      <parameter name="verbose" value="False"/>
      <parameter name="skipalignmentout" value="False"/>
      <parameter name="showintronmaxlen" value="120"/>
      <parameter name="minorflen" value="64"/>
      <parameter name="showseqnums" value="False"/>
      <parameter name="gs2out" value="False"/>
      <parameter name="maskpolyatails" value="False"/>
      <parameter name="noautoindex" value="False"/>
      <parameter name="minmatchlen" value="20"/>
      <parameter name="seedlength" value="16"/>
      <parameter name="exdrop" value="2"/>
      <parameter name="online" value="False"/>
      <parameter name="inverse" value="False"/>
      <parameter name="exact" value="False"/>
      <parameter name="chainwf" value="0.500000"/>
      <parameter name="gcmaxgapwidth" value="1000000"/>
      <parameter name="gcmincoverage" value="50"/>
      <parameter name="introncutout" value="False"/>
      <parameter name="autointroncutout" value="0"/>
      <parameter name="icinitialdelta" value="50"/>
      <parameter name="iciterations" value="2"/>
      <parameter name="icdeltaincrease" value="50"/>
      <parameter name="icminremintronlen" value="10"/>
      <parameter name="nou12intronmodel" value="False"/>
      <parameter name="u12donorprob" value="0.990000"/>
      <parameter name="u12donorprob1mism" value="0.900000"/>
      <parameter name="probies" value="0.500000"/>
      <parameter name="probdelgen" value="0.030000"/>
      <parameter name="identityweight" value="2.000000"/>
      <parameter name="mismatchweight" value="-2.000000"/>
      <parameter name="undetcharweight" value="0.000000"/>
      <parameter name="deletionweight" value="-4.000000"/>
      <parameter name="dpminexonlen" value="5"/>
      <parameter name="dpminintronlen" value="50"/>
      <parameter name="shortexonpenal" value="100"/>
      <parameter name="shortintronpenal" value="100"/>
      <parameter name="wzerotransition" value="80"/>
      <parameter name="wdecreasedoutput" value="80"/>
      <parameter name="leadcutoffsmode" value="RELAXED"/>
      <parameter name="termcutoffsmode" value="STRICT"/>
      <parameter name="cutoffsminexonlen" value="5"/>
      <parameter name="scoreminexonlen" value="50"/>
      <parameter name="minaveragessp" value="0.500000"/>
      <parameter name="minalignmentscore" value="0.900000"/>
      <parameter name="maxalignmentscore" value="1.000000"/>
      <parameter name="mincoverage" value="0.900000"/>
      <parameter name="maxcoverage" value="100.000000"/>
      <parameter name="intermediate" value="False"/>
      <parameter name="sortags" value="False"/>
      <parameter name="sortagswf" value="1.000000"/>
      <parameter name="first" value="0"/>
      <parameter name="exondistri" value="False"/>
      <parameter name="introndistri" value="False"/>
      <parameter name="refseqcovdistri" value="False"/>
    </parameters>
    <overall_reference_type>ESTcDNA</overall_reference_type>
  </header>
  <alignment_module>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0141K23-y0twN/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U335078" ref_strand="+" ref_description="SGN-U335078        Tomato 200607 #1 [1 ESTs aligned] genbank/nr: hypothetical(evalue: 1e-06, score=56.6)">
      <seq>cctaatctactttgttaataatgatgccttggtataaaagaaggcttgatgaacgaaagtggtgagattaggggatcgggtgccacgttccggtaccaggatagaatatggatcgggtgtcacgttccgacaccaggatagaatatggatcgggtgccacgttccggtaccaggatagaatatggatcgggtgtcacgttccgacaccaggatagaatatggatcgggtgtcacgttctgacaccaggatagaatatggatcgggtgccacgttccggtgccaggatagtatattgaggagtggagtgtcacgtaaggacacgaggggaataaatatgatgaatcttgaaatatgttaatatatgcaatccaatgaactaaattcccaaataagtatgatgaggaggtgtgagtcctcattgatgtgcttggtgatgcaaccaagggttatggtaattgcaaatgctgcatgctaaggatattagttaattttatgatattgcttaatacatact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0141K23-y0twN/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04SLm0141K23.1" temp_strand="-" temp_description="C04SLm0141K23.1  CU326408.5 htgs_phase:3 submitted_to_sgn_as:C04SLm0141K23 sequenced_by:sanger upload_account_name:uk">
        <position start="5283" stop="4090"/>
      </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="4983" g_stop="4771" g_length="213"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="210" r_length="210" r_score="0.934"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="4770" i_stop="4696" i_length="75">
            <donor d_prob="0.000" d_score="0.88"/>
            <acceptor a_prob="0.000" a_score="0.88"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="4695" g_stop="4390" g_length="306"/>
          <reference_exon_boundary r_type="cDNA" r_start="211" r_stop="515" r_length="305" r_score="0.912"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0141K23.1" gen_strand="-" ref_id="SGN-U335078" ref_strand="+">
        <total_alignment_score>0.921</total_alignment_score>
        <cumulative_length_of_scored_exons>519</cumulative_length_of_scored_exons>
        <coverage percentage="1.008" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0141K23.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U335078" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="4983" e_stop="4771"/>
          <exon e_start="4695" e_stop="4390"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCTAATCTACTTTTTTAATAATGATGCCTTGGTATAAAAAAAGGCTTGATAAATGAAAGTAGTGAGATTAGGGGATCGGGTGCCACGTTCCGATACCAGGATAGAATATCGATCGGGTGTCACGTTCCGACACTAGGATAGAATATGGATCGGGTGCCACGTTCCGGTACCAGGATAGTATATGAGGATCGGAGTGTCACATTACGACACCAGGATAGAATATGGATCGGTTGCCACGTTCCGGTACCAGGATAGTATATGAGGATCGGATTGTCACGTTCCGACCAGGATAGAATATGGATCGGGTGCCACGTTCCGGTACCAGGATAGAATGAGGATCGGAGTGTCACATTCCGACACCAGGATAGTATATTGAGGAGCAGAGTGTCACGTACCGACACGAGGGGAATAAAGATAATGAATCTTGAAATATGTTAATATATCCAATCTAATGAACTAAATTCCCAAATGAGTATGATGAGGAGGTGGGAGTCCTCATTGATGTGCTTGGTGTTGTAACCAAGGGTTATGGTAACTGTAAATGCTGCATGCTAAGGATATTAGTTGATTTTATGATATTGCTTAATACATACT</genome_strand>
        <mrna_strand>CCTAATCTACTTTGTTAATAATGATGCCTTGGTATAAAAGAAGGCTTGATGAACGAAAGTGGTGAGATTAGGGGATCGGGTGCCACGTTCCGGTACCAGGATAGAATATGGATCGGGTGTCACGTTCCGACACCAGGATAGAATATGGATCGGGTGCCACGTTCCGGTACCAGGATAGAATAT--GGATCGG-GTGTCACGTTCCGACACCAG...........................................................................GATAGAATATGGATCGGGTGTCACGTTCTGACACCAGGATAGAATATGGATCGG-GTGCCACGTTCCGGTGCCAGGATAGTATATTGAGGAGTGGAGTGTCACGTAAGGACACGAGGGGAATAAATATGATGAATCTTGAAATATGTTAATATATGCAATCCAATGAACTAAATTCCCAAATAAGTATGATGAGGAGGTGTGAGTCCTCATTGATGTGCTTGGTGATGCAACCAAGGGTTATGGTAATTGCAAATGCTGCATGCTAAGGATATTAGTTAATTTTATGATATTGCTTAATACATACT</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-C04SLm0141K23-y0twN/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U341053" ref_strand="+" ref_description="SGN-U341053        Tomato 200607 #1 [1 ESTs aligned] genbank/nr: gi|47824956|gb|AAT38730.1| putative reverse transcriptase [Solanum demissum] (evalue: 1e-35, score=88.6)">
      <seq>acttcgaaggtgtttctccctgtatcagacttcctagtactccaaactttgttattccgggagattttcactaatttttaagcgatctcagcataagggcattctccataagatccaccttctataatgtccaacacttctttgttactatcatcctgtccctgatagaactatttcttccgtgactcatcatctatacagtgatttggaacacttctcaagaatgaggtgatctatcccaagaactactaactgactctactggtagtgccacaaaattatttactctgtctttgtggtttagtttcttcgagattggatagtagagtgccaagaaaacatctcttaattggttccaagtgaagattgagttgcatggaagctcagtgaaccatataggagcctctcccttcagtgagagaggaaacactgtgagccctattacatctagatccatgtcaggcctccccacactacatttacacactgcccttaccttagctatttgggcatgtggatcctcaggcggtagccctgaaaacaaacctctagcagtgagcatttgcatcaggctactagttaccataaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0141K23-y0twN/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04SLm0141K23.1" temp_strand="-" temp_description="C04SLm0141K23.1  CU326408.5 htgs_phase:3 submitted_to_sgn_as:C04SLm0141K23 sequenced_by:sanger upload_account_name:uk">
        <position start="57305" stop="56115"/>
      </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="57005" g_stop="56416" g_length="590"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="589" r_length="589" r_score="0.903"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0141K23.1" gen_strand="-" ref_id="SGN-U341053" ref_strand="+">
        <total_alignment_score>0.903</total_alignment_score>
        <cumulative_length_of_scored_exons>590</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0141K23.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U341053" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="57005" e_stop="56416"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTTCGAAGGTGTTTCTCCCTGTATCGGACTTCCTAGTACTCCATGCTTTCTTATTCCGGGAGATTTTCTCTAATTTTTCAGCAATCTCAGCGTAAGGGCATTCTCCATAAGATCCACCTGCTATAGTGTCCAACACCGCTTTTTTGTTATCATCCTGTCCATGATAGAAGTATTTCTTTAGTGACTCATCATCTACACGATGATTTGGAACACTTTACAAGAATCAGGTGAATCTATCCCAAGAACTACTAACTGACTCACCTGGTAGTGCCACAAAGATATTCACTCTGTCTTTGTGGTTTAGTTTCTTGGAGACTGTATAGTAGCGTGCCAAGAAAACATCCCTTAATTGGTTCCAAGTGAAGATTAAATTGTATGGGAGCTCAGTGAACCACATAGCCGCCTCTCCCGTCAGTGAGAGAGGAAACACTCTGAGCCCTATTACATCTAGATCAAAATCAGGCCTCCCCACACAACTTTTACACACTGCCCTTACCTTAGCTATATGGGCATGTGGATCCTCAGAAGGTAGCCTTGAAAACAAACCTCTGGCAGTGAGCATTTGCATCAGGCTACTAGTTATCACAAA</genome_strand>
        <mrna_strand>ACTTCGAAGGTGTTTCTCCCTGTATCAGACTTCCTAGTACTCCAAACTTTGTTATTCCGGGAGATTTTCACTAATTTTTAAGCGATCTCAGCATAAGGGCATTCTCCATAAGATCCACCTTCTATAATGTCCAACACTTCTTTGTTACTATCATCCTGTCCCTGATAGAACTATTTCTTCCGTGACTCATCATCTATACAGTGATTTGGAACACTTCTCAAGAATGAGGTG-ATCTATCCCAAGAACTACTAACTGACTCTACTGGTAGTGCCACAAAATTATTTACTCTGTCTTTGTGGTTTAGTTTCTTCGAGATTGGATAGTAGAGTGCCAAGAAAACATCTCTTAATTGGTTCCAAGTGAAGATTGAGTTGCATGGAAGCTCAGTGAACCATATAGGAGCCTCTCCCTTCAGTGAGAGAGGAAACACTGTGAGCCCTATTACATCTAGATCCATGTCAGGCCTCCCCACACTACATTTACACACTGCCCTTACCTTAGCTATTTGGGCATGTGGATCCTCAGGCGGTAGCCCTGAAAACAAACCTCTAGCAGTGAGCATTTGCATCAGGCTACTAGTTACCATAAA</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="4983" PGL_stop="4390"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="4983" e_stop="4771"/>
            <exon e_start="4695" e_stop="4390"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.934"/>
          <exon-only e_score="0.912"/>
        </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="0.934">
            <gDNA_exon_boundary e_start="4983" e_stop="4771" e_length="213"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="4770" i_stop="4696" i_length="75"/>
          </intron>
          <exon e_serial="2" e_score="0.912">
            <gDNA_exon_boundary e_start="4695" e_stop="4390" e_length="306"/>
          </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="4983" stop="4771"/>
              <exon start="4695" stop="4390"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U335078" 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>CCTAATCTACTTTTTTAATAATGATGCCTTGGTATAAAAAAAGGCTTGATAAATGAAAGTAGTGAGATTAGGGGATCGGGTGCCACGTTCCGATACCAGGATAGAATATCGATCGGGTGTCACGTTCCGACACTAGGATAGAATATGGATCGGGTGCCACGTTCCGGTACCAGGATAGTATATGAGGATCGGAGTGTCACATTACGACACCAG : GATAGAATATGGATCGGGTGCCACGTTCCGGTACCAGGATAGAATGAGGATCGGAGTGTCACATTCCGACACCAGGATAGTATATTGAGGAGCAGAGTGTCACGTACCGACACGAGGGGAATAAAGATAATGAATCTTGAAATATGTTAATATATCCAATCTAATGAACTAAATTCCCAAATGAGTATGATGAGGAGGTGGGAGTCCTCATTGATGTGCTTGGTGTTGTAACCAAGGGTTATGGTAACTGTAAATGCTGCATGCTAAGGATATTAGTTGATTTTATGATATTGCTTAATACATACT</gDNA_template>
            <first_frame> P  N  L  L  F  *  *  *  C  L  G  I  K  K  G  L  I  N  E  S  S  E  I  R  G  S  G  A  T  F  R  Y  Q  D  R  I  S  I  G  C  H  V  P  T  L  G  *  N  M  D  R  V  P  R  S  G  T  R  I  V  Y  E  D  R  S  V  T  L  R  H  Q  :  D  R  I  W  I  G  C  H  V  P  V  P  G  *  N  E  D  R  S  V  T  F  R  H  Q  D  S  I  L  R  S  R  V  S  R  T  D  T  R  G  I  K  I  M  N  L  E  I  C  *  Y  I  Q  S  N  E  L  N  S  Q  M  S  M  M  R  R  W  E  S  S  L  M  C  L  V  L  *  P  R  V  M  V  T  V  N  A  A  C  *  G  Y  *  L  I  L  *  Y  C  L  I  H  T </first_frame>
            <second_frame>  L  I  Y  F  F  N  N  D  A  L  V  *  K  K  A  *  *  M  K  V  V  R  L  G  D  R  V  P  R  S  D  T  R  I  E  Y  R  S  G  V  T  F  R  H  *  D  R  I  W  I  G  C  H  V  P  V  P  G  *  Y  M  R  I  G  V  S  H  Y  D  T  R :   I  E  Y  G  S  G  A  T  F  R  Y  Q  D  R  M  R  I  G  V  S  H  S  D  T  R  I  V  Y  *  G  A  E  C  H  V  P  T  R  G  E  *  R  *  *  I  L  K  Y  V  N  I  S  N  L  M  N  *  I  P  K  *  V  *  *  G  G  G  S  P  H  *  C  A  W  C  C  N  Q  G  L  W  *  L  *  M  L  H  A  K  D  I  S  *  F  Y  D  I  A  *  Y  I   </second_frame>
            <third_frame>   *  S  T  F  L  I  M  M  P  W  Y  K  K  R  L  D  K  *  K  *  *  D  *  G  I  G  C  H  V  P  I  P  G  *  N  I  D  R  V  S  R  S  D  T  R  I  E  Y  G  S  G  A  T  F  R  Y  Q  D  S  I  *  G  S  E  C  H  I  T  T  P   : G  *  N  M  D  R  V  P  R  S  G  T  R  I  E  *  G  S  E  C  H  I  P  T  P  G  *  Y  I  E  E  Q  S  V  T  Y  R  H  E  G  N  K  D  N  E  S  *  N  M  L  I  Y  P  I  *  *  T  K  F  P  N  E  Y  D  E  E  V  G  V  L  I  D  V  L  G  V  V  T  K  G  Y  G  N  C  K  C  C  M  L  R  I  L  V  D  F  M  I  L  L  N  T  Y  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04SLm0141K23.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="-" PGL_start="57005" PGL_stop="56416"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="57005" e_stop="56416"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.903"/>
        </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="0.903">
            <gDNA_exon_boundary e_start="57005" e_stop="56416" e_length="590"/>
          </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="57005" stop="56416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U341053" 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>ACTTCGAAGGTGTTTCTCCCTGTATCGGACTTCCTAGTACTCCATGCTTTCTTATTCCGGGAGATTTTCTCTAATTTTTCAGCAATCTCAGCGTAAGGGCATTCTCCATAAGATCCACCTGCTATAGTGTCCAACACCGCTTTTTTGTTATCATCCTGTCCATGATAGAAGTATTTCTTTAGTGACTCATCATCTACACGATGATTTGGAACACTTTACAAGAATCAGGTGAATCTATCCCAAGAACTACTAACTGACTCACCTGGTAGTGCCACAAAGATATTCACTCTGTCTTTGTGGTTTAGTTTCTTGGAGACTGTATAGTAGCGTGCCAAGAAAACATCCCTTAATTGGTTCCAAGTGAAGATTAAATTGTATGGGAGCTCAGTGAACCACATAGCCGCCTCTCCCGTCAGTGAGAGAGGAAACACTCTGAGCCCTATTACATCTAGATCAAAATCAGGCCTCCCCACACAACTTTTACACACTGCCCTTACCTTAGCTATATGGGCATGTGGATCCTCAGAAGGTAGCCTTGAAAACAAACCTCTGGCAGTGAGCATTTGCATCAGGCTACTAGTTATCACAAA</gDNA_template>
            <first_frame> T  S  K  V  F  L  P  V  S  D  F  L  V  L  H  A  F  L  F  R  E  I  F  S  N  F  S  A  I  S  A  *  G  H  S  P  *  D  P  P  A  I  V  S  N  T  A  F  L  L  S  S  C  P  *  *  K  Y  F  F  S  D  S  S  S  T  R  *  F  G  T  L  Y  K  N  Q  V  N  L  S  Q  E  L  L  T  D  S  P  G  S  A  T  K  I  F  T  L  S  L  W  F  S  F  L  E  T  V  *  *  R  A  K  K  T  S  L  N  W  F  Q  V  K  I  K  L  Y  G  S  S  V  N  H  I  A  A  S  P  V  S  E  R  G  N  T  L  S  P  I  T  S  R  S  K  S  G  L  P  T  Q  L  L  H  T  A  L  T  L  A  I  W  A  C  G  S  S  E  G  S  L  E  N  K  P  L  A  V  S  I  C  I  R  L  L  V  I  T   </first_frame>
            <second_frame>  L  R  R  C  F  S  L  Y  R  T  S  *  Y  S  M  L  S  Y  S  G  R  F  S  L  I  F  Q  Q  S  Q  R  K  G  I  L  H  K  I  H  L  L  *  C  P  T  P  L  F  C  Y  H  P  V  H  D  R  S  I  S  L  V  T  H  H  L  H  D  D  L  E  H  F  T  R  I  R  *  I  Y  P  K  N  Y  *  L  T  H  L  V  V  P  Q  R  Y  S  L  C  L  C  G  L  V  S  W  R  L  Y  S  S  V  P  R  K  H  P  L  I  G  S  K  *  R  L  N  C  M  G  A  Q  *  T  T  *  P  P  L  P  S  V  R  E  E  T  L  *  A  L  L  H  L  D  Q  N  Q  A  S  P  H  N  F  Y  T  L  P  L  P  *  L  Y  G  H  V  D  P  Q  K  V  A  L  K  T  N  L  W  Q  *  A  F  A  S  G  Y  *  L  S  Q  </second_frame>
            <third_frame>   F  E  G  V  S  P  C  I  G  L  P  S  T  P  C  F  L  I  P  G  D  F  L  *  F  F  S  N  L  S  V  R  A  F  S  I  R  S  T  C  Y  S  V  Q  H  R  F  F  V  I  I  L  S  M  I  E  V  F  L  *  *  L  I  I  Y  T  M  I  W  N  T  L  Q  E  S  G  E  S  I  P  R  T  T  N  *  L  T  W  *  C  H  K  D  I  H  S  V  F  V  V  *  F  L  G  D  C  I  V  A  C  Q  E  N  I  P  *  L  V  P  S  E  D  *  I  V  W  E  L  S  E  P  H  S  R  L  S  R  Q  *  E  R  K  H  S  E  P  Y  Y  I  *  I  K  I  R  P  P  H  T  T  F  T  H  C  P  Y  L  S  Y  M  G  M  W  I  L  R  R  *  P  *  K  Q  T  S  G  S  E  H  L  H  Q  A  T  S  Y  H  K </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="C04SLm0141K23.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="56678" stop="56418"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>261</number_coding_nucleotides>
                  <number_encoded_amino_acids>87</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RAKKTSLNWFQVKIKLYGSSVNHIAASPVSERGNTLSPITSRSKSGLPTQLLHTALTLAIWACGSSEGSLENKPLAVSICIRLLVIT</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 50 chains have been computed
$ 
$ memory statistics:
$ 4832 bytes spliced alignments in total
$ 2 spliced alignments have been stored
$ 2416 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
$ 2 megabytes was the average size of the backtrace matrix
$ 70 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-14 20:51:16
-->
