<?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="2008-03-10 20:34:43"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C11HBa0089M02-cjOuU/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/cxgn-bacpublish-resources-AYogiL/sgn_marker_seqs" 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/cxgn-bacpublish-resources-AYogiL/sgn_marker_seqs" ref_id="SGN-M7842" ref_strand="+" ref_description="SGN-M7842 C2_At3g22190 [cosii_markers]">
      <seq>gagatcgaagagggctggtgtgacagtgttggatctgttgagcaaattcaagaaaagttgctaaagagacaagaggcagctgctaagcgtgaaagagcaatggcctatgctttagctcaccagtggcaggcaggatccaggcagcaggctacactttctgggtttgaaccagataaaagcagctggggttggaactggttagagagatggatggcagtacgcccatgggaaaatcgttttctagaccttaatgtcagagatggagtcatgcctaatgaaaatgaatcagccgaacctgtaaacgggatgaagaaccaggtaaaagttgctgggaagaaaccagcaactacaactctttcaaatgatagagtgggtccatctcattcaagcagtaactcaaaatcaaatgaaaaggcagcagcatcgctctctgatggttgcagttcttccccaaatgtgtcagcaagcacacaagaaacacctgcagcattagttaacaaacctaagtccaaaccaaatcgtgaagatttagttgaggaagctagttcaaaacccgtccttggttctagatcacacagcaatcctaaggagagatctactccctctgataaacaaggaaaacaaagattgtctctgcctggtagcggtcttgcacctcaaacagcgagacaaccaagcagaaccatcaaaaggacatctagtacgcagaagcctttgaaggagaagtccaaattaaacgaaactgataccaagtctacagcaactgtttcacaacaggctgctgattagtttttaggtactcgttgaagatcccgatctcagaaccaagtgtcacccttgcttgtaaatacagggaaccttcttaaaggggagtgatggtatgttgtccacggcagagttaaaaggagataggcttgctgccatctcctgaataacatcttcgcatttgtttcaattcttgtcataattcgtgtaatttatataatagcgcgttgttttctttacccctcctccctcccagtgtaaaaaagaggatgaatttgctttttgtgccacttttcttgagctgaaaactggggaatttggtgagtttgattgccaatttctttgttgtgtgttgtacaagatctgaatgtaggattcattcattaatctagagattgtagaccaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C11HBa0089M02-cjOuU/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C11HBa0089M02.1" temp_strand="-" temp_description="C11HBa0089M02.1  AC212433.1 htgs_phase:2 submitted_to_sgn_as:C11HBa0089M02 sequenced_by:ivf-caas upload_account_name:china11">
        <position start="80194" stop="76686"/>
      </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="79889" g_stop="79776" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="10" r_stop="123" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="79775" i_stop="78591" i_length="1185">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="78590" g_stop="78068" g_length="523"/>
          <reference_exon_boundary r_type="cDNA" r_start="124" r_stop="646" r_length="523" r_score="0.998"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="78067" i_stop="77512" i_length="556">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="77511" g_stop="76980" g_length="532"/>
          <reference_exon_boundary r_type="cDNA" r_start="647" r_stop="1178" r_length="532" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C11HBa0089M02.1" gen_strand="-" ref_id="SGN-M7842" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>1169</cumulative_length_of_scored_exons>
        <coverage percentage="0.992" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C11HBa0089M02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M7842" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="79889" e_stop="79776"/>
          <exon e_start="78590" e_stop="78068"/>
          <exon e_start="77511" e_stop="76980"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGGGCTGGTGTGACAGTGTTGGATCTGTTGAGCAAATTCAAGAAAAGTTGCTAAAGAGACAAGAGGCAGCTGCTAAGCGTGAAAGAGCAATGGCCTATGCTTTAGCTCACCAGGTAAGCATCTCATCATCCTTCTTGATGATGTTTTTTCTGTTTCCATTACTGTATCAGTTTTTGAACTGATATCTTGAAGGCAAAACTTCAGATTAGATAGATATAATTGAGAACCTGTAAGAGAAGCAGCTGCCTATGTAATCTTTGTATCGATATTTTGAAATATGATCTGTGTAACTGCTTCTAAGTTCAAGAATATGACCAAAAAGTGTTTTTAACTAATAGGTCATATACATGCATCAATGGTATAAGTACTAGTATAACAGCTGAGATTTTCCTGAATGCTGGTGCAATTTGGTAAGGCTAAATGTATCTGAATCTGAATATTCCATAGCATTTGTATCAGCAGTACTAGTAGAGAAAAACTCAGAACCCTCATATATAAACAAACAACAAACATACCCAGTTTTATCCCACAAGTGGGGTCTAAGGAGGGTAAGTTGCACACAAACTTTATCCCTACCCCTACCTATGTGGGGATAGAGAGTGATATTTCCGATAGACCCCTCTTATATGTAGCTCATATTGGTAATTGTTGGGTCTTCTCTTTATTTCCTTTGCTATATGCTACTTGGGTCTTTTCTCTTCATTTTTTTTATATGCTATGTGTGTACTCAAGGACACATGGTGCCTCTAGTCAGAAATCAGGAACAACTATGGAAGAATAAAAATAGCTGTCAATACTGTGGTATCATTTTATGATACTGGTTAGGCAGGACATGGTGAGCCTTTAGCTTACTTAGGATATGACCTTAGATTGGAGGGTGTGGAGGTAAAAAATTCGGGTAGAAGGATAGTAGTAAATAGTTTCGCATCTTTTCCTCTCCTGATAGTATTATTATTATGATTTTTCAGTATTTATTATTGTTTTTCTATTTCCATATTTCTCATTCTTAGTTTTCTATAACTACTTGTCTCGTATGCCTCTATTTTCTTACTAGCTTGCAGTTGTTACTGCTTGTCTTCATAAATGTTGTGTTTTTGCTTTCCTTGAGCCAAGGGTCTATTGGAAGCAGCCTCTCTACCTGCCAAGGTAGGGGTAAGGTCTGTGACACTACCCTCCTCAGATCCCACACTTGGGTAAGTTGGTGTTGGTGTTGTTTGTTGGTTTAGCAAGGTTCCATACTTTCATTTCAATGCGCCTACCTTTTCTTTTTTCTTATTGAACTCTATTTGGTGCTGCAGTGGCAGGCAGGATCCAGGCAGCAGGCTACACTTTCTGGGTTTGAACCAGATAAAAGCAGCTGGGGTTGGAACTGGTTAGAGAGATGGATGGCAGTACGCCCATGGGAAAATCGTTTTCTAGACCTTAATGTCAGAGATGGAGTCATGCCTAATGAAAATGAATCAGCCGAACCTGTAAACGGGATGAAGAACCAGGTAAAAGTTGCTGGGAAGAAACCAGCAACTACAACTCTTTCAAATGATAGAGTGGGTCCATCTCATTCAAGCAGTAACTCAAAATCAAATGAAAAGGCAGCAGCATCGCTCTCTGATGGTTGCAGTTCTTCCCCAAATGTGTCAGCAAGCACACAAGAAACACCTGCAGCATTAGTTAACAAACCTAAGTCCAAACCAAATCGTGAAGATTTAGTTGAGGAAGCTAGTTCAAAACCCGTCCTTGGTTCTAGATCACACAGCAATCCTAAGGAGAGATCTACTCCCTCTGATAAACAAGGAAAACAGAGATTGTCTCTGCCTGGTAGCGGTAAGTCATCTCTCTCTCTCTTTCTTGTTTAATGATATTGCCTTGTGTAAGACGCTGGAAATGTTACACAATATAGACCCTCTTTGTTTTGCCCACTTCTTCTTGTTTGGCATAAAGATCGAAATATTGTTAATTGAAATTACCGTCTCCTCTATAAATAACCCTATCAATAAGCAAAAGTAGCACTGTAACTTGTTTAATGTTTCTCTGCGAAGCCCTCACAGAGGTAATGAATTTCGGAATGCTATGCTGAAGGAAAATTATTTATAAAAATTTTGTACTTATTTTTCACTTTTATTTTATTCAAGTACGATGATGATGTGAAATTTAGATAAATGAAGAACTGTCGACCCCAACGTGTTTGGACTGAGGCATAGTTGTTGTTGTCGCTATGCCGAAGGAATGGGCATGAACAGATCTTTATAATATTCGTACGTCTTTTCAGACAAATATGGTAGTGAGAGTGACAACACATATTCTGTAACCACACTAGTGTGTTGAAATATTCCTGCAACTAGTGCCGTATGCACTAATTTTTACGACATCTTTTTTCCAGGTCTTGCACCTCAAACAGCGAGACAACCAAGCAGAACCATCAAAAGGACATCTAGTACGCAGAAGCCTTTGAAGGAGAAGTCCAAATTAAACGAAACTGATACCAAGTCTACAGCAACTGTTTCACAACAGGCTGCTGATTAGTTTTTAGGTACTCGTTGAAGATCCCGATCTCAGAACCAAGTGTCACCCTTGCTTGTAAATACAGGGAACCTTCTTAAAGGGGAGTGATGGTATGTTGTCCACGGCAGAGTTAAAAGGAGATAGGCTTGCTGCCATCTCCTGAATAACATCTTCGCATTTGTTTCAATTCTTGTCATAATTCGTGTAATTTATATAATAGCGCGTTGTTTTCTTTACCCCTCCTCCCTCCCAGTGTAAAAAAGAGGATGAATTTGCTTTTTGTGCCACTTTTCTTGAGCTGAAAACTGGGGAATTTGGTGAGTTTGATTGCCAATTTCTTTGTTGTGTGTTGTACAAGATCTGAATGTAGGATTCATTCATTAATCTAGAGATTGTAGACCATATTGTGC</genome_strand>
        <mrna_strand>GAGGGCTGGTGTGACAGTGTTGGATCTGTTGAGCAAATTCAAGAAAAGTTGCTAAAGAGACAAGAGGCAGCTGCTAAGCGTGAAAGAGCAATGGCCTATGCTTTAGCTCACCAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGGCAGGCAGGATCCAGGCAGCAGGCTACACTTTCTGGGTTTGAACCAGATAAAAGCAGCTGGGGTTGGAACTGGTTAGAGAGATGGATGGCAGTACGCCCATGGGAAAATCGTTTTCTAGACCTTAATGTCAGAGATGGAGTCATGCCTAATGAAAATGAATCAGCCGAACCTGTAAACGGGATGAAGAACCAGGTAAAAGTTGCTGGGAAGAAACCAGCAACTACAACTCTTTCAAATGATAGAGTGGGTCCATCTCATTCAAGCAGTAACTCAAAATCAAATGAAAAGGCAGCAGCATCGCTCTCTGATGGTTGCAGTTCTTCCCCAAATGTGTCAGCAAGCACACAAGAAACACCTGCAGCATTAGTTAACAAACCTAAGTCCAAACCAAATCGTGAAGATTTAGTTGAGGAAGCTAGTTCAAAACCCGTCCTTGGTTCTAGATCACACAGCAATCCTAAGGAGAGATCTACTCCCTCTGATAAACAAGGAAAACAAAGATTGTCTCTGCCTGGTAGCG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCTTGCACCTCAAACAGCGAGACAACCAAGCAGAACCATCAAAAGGACATCTAGTACGCAGAAGCCTTTGAAGGAGAAGTCCAAATTAAACGAAACTGATACCAAGTCTACAGCAACTGTTTCACAACAGGCTGCTGATTAGTTTTTAGGTACTCGTTGAAGATCCCGATCTCAGAACCAAGTGTCACCCTTGCTTGTAAATACAGGGAACCTTCTTAAAGGGGAGTGATGGTATGTTGTCCACGGCAGAGTTAAAAGGAGATAGGCTTGCTGCCATCTCCTGAATAACATCTTCGCATTTGTTTCAATTCTTGTCATAATTCGTGTAATTTATATAATAGCGCGTTGTTTTCTTTACCCCTCCTCCCTCCCAGTGTAAAAAAGAGGATGAATTTGCTTTTTGTGCCACTTTTCTTGAGCTGAAAACTGGGGAATTTGGTGAGTTTGATTGCCAATTTCTTTGTTGTGTGTTGTACAAGATCTGAATGTAGGATTCATTCATTAATCTAGAGATTGTAGACCAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>1</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="79889" PGL_stop="76980"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="79889" e_stop="79776"/>
            <exon e_start="78590" e_stop="78068"/>
            <exon e_start="77511" e_stop="76980"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.987" e_score="0.998"/>
          <exon-only e_score="0.987"/>
        </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="79889" e_stop="79776" e_length="114"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.997">
            <gDNA_intron_boundary i_start="79775" i_stop="78591" i_length="1185"/>
          </intron>
          <exon e_serial="2" e_score="0.998">
            <gDNA_exon_boundary e_start="78590" e_stop="78068" e_length="523"/>
          </exon>
          <intron i_serial="2" don_prob="1.000" acc_prob="0.987">
            <gDNA_intron_boundary i_start="78067" i_stop="77512" i_length="556"/>
          </intron>
          <exon e_serial="3" e_score="0.987">
            <gDNA_exon_boundary e_start="77511" e_stop="76980" e_length="532"/>
          </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="79889" stop="79776"/>
              <exon start="78590" stop="78068"/>
              <exon start="77511" stop="76980"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M7842" 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>GAGGGCTGGTGTGACAGTGTTGGATCTGTTGAGCAAATTCAAGAAAAGTTGCTAAAGAGACAAGAGGCAGCTGCTAAGCGTGAAAGAGCAATGGCCTATGCTTTAGCTCACCAG : TGGCAGGCAGGATCCAGGCAGCAGGCTACACTTTCTGGGTTTGAACCAGATAAAAGCAGCTGGGGTTGGAACTGGTTAGAGAGATGGATGGCAGTACGCCCATGGGAAAATCGTTTTCTAGACCTTAATGTCAGAGATGGAGTCATGCCTAATGAAAATGAATCAGCCGAACCTGTAAACGGGATGAAGAACCAGGTAAAAGTTGCTGGGAAGAAACCAGCAACTACAACTCTTTCAAATGATAGAGTGGGTCCATCTCATTCAAGCAGTAACTCAAAATCAAATGAAAAGGCAGCAGCATCGCTCTCTGATGGTTGCAGTTCTTCCCCAAATGTGTCAGCAAGCACACAAGAAACACCTGCAGCATTAGTTAACAAACCTAAGTCCAAACCAAATCGTGAAGATTTAGTTGAGGAAGCTAGTTCAAAACCCGTCCTTGGTTCTAGATCACACAGCAATCCTAAGGAGAGATCTACTCCCTCTGATAAACAAGGAAAACAGAGATTGTCTCTGCCTGGTAGCG : GTCTTGCACCTCAAACAGCGAGACAACCAAGCAGAACCATCAAAAGGACATCTAGTACGCAGAAGCCTTTGAAGGAGAAGTCCAAATTAAACGAAACTGATACCAAGTCTACAGCAACTGTTTCACAACAGGCTGCTGATTAGTTTTTAGGTACTCGTTGAAGATCCCGATCTCAGAACCAAGTGTCACCCTTGCTTGTAAATACAGGGAACCTTCTTAAAGGGGAGTGATGGTATGTTGTCCACGGCAGAGTTAAAAGGAGATAGGCTTGCTGCCATCTCCTGAATAACATCTTCGCATTTGTTTCAATTCTTGTCATAATTCGTGTAATTTATATAATAGCGCGTTGTTTTCTTTACCCCTCCTCCCTCCCAGTGTAAAAAAGAGGATGAATTTGCTTTTTGTGCCACTTTTCTTGAGCTGAAAACTGGGGAATTTGGTGAGTTTGATTGCCAATTTCTTTGTTGTGTGTTGTACAAGATCTGAATGTAGGATTCATTCATTAATCTAGAGATTGTAGACCATATTGTGC</gDNA_template>
            <first_frame> E  G  W  C  D  S  V  G  S  V  E  Q  I  Q  E  K  L  L  K  R  Q  E  A  A  A  K  R  E  R  A  M  A  Y  A  L  A  H  Q  :  W  Q  A  G  S  R  Q  Q  A  T  L  S  G  F  E  P  D  K  S  S  W  G  W  N  W  L  E  R  W  M  A  V  R  P  W  E  N  R  F  L  D  L  N  V  R  D  G  V  M  P  N  E  N  E  S  A  E  P  V  N  G  M  K  N  Q  V  K  V  A  G  K  K  P  A  T  T  T  L  S  N  D  R  V  G  P  S  H  S  S  S  N  S  K  S  N  E  K  A  A  A  S  L  S  D  G  C  S  S  S  P  N  V  S  A  S  T  Q  E  T  P  A  A  L  V  N  K  P  K  S  K  P  N  R  E  D  L  V  E  E  A  S  S  K  P  V  L  G  S  R  S  H  S  N  P  K  E  R  S  T  P  S  D  K  Q  G  K  Q  R  L  S  L  P  G  S   : G  L  A  P  Q  T  A  R  Q  P  S  R  T  I  K  R  T  S  S  T  Q  K  P  L  K  E  K  S  K  L  N  E  T  D  T  K  S  T  A  T  V  S  Q  Q  A  A  D  *  F  L  G  T  R  *  R  S  R  S  Q  N  Q  V  S  P  L  L  V  N  T  G  N  L  L  K  G  E  *  W  Y  V  V  H  G  R  V  K  R  R  *  A  C  C  H  L  L  N  N  I  F  A  F  V  S  I  L  V  I  I  R  V  I  Y  I  I  A  R  C  F  L  Y  P  S  S  L  P  V  *  K  R  G  *  I  C  F  L  C  H  F  S  *  A  E  N  W  G  I  W  *  V  *  L  P  I  S  L  L  C  V  V  Q  D  L  N  V  G  F  I  H  *  S  R  D  C  R  P  Y  C   </first_frame>
            <second_frame>  R  A  G  V  T  V  L  D  L  L  S  K  F  K  K  S  C  *  R  D  K  R  Q  L  L  S  V  K  E  Q  W  P  M  L  *  L  T  S :   G  R  Q  D  P  G  S  R  L  H  F  L  G  L  N  Q  I  K  A  A  G  V  G  T  G  *  R  D  G  W  Q  Y  A  H  G  K  I  V  F  *  T  L  M  S  E  M  E  S  C  L  M  K  M  N  Q  P  N  L  *  T  G  *  R  T  R  *  K  L  L  G  R  N  Q  Q  L  Q  L  F  Q  M  I  E  W  V  H  L  I  Q  A  V  T  Q  N  Q  M  K  R  Q  Q  H  R  S  L  M  V  A  V  L  P  Q  M  C  Q  Q  A  H  K  K  H  L  Q  H  *  L  T  N  L  S  P  N  Q  I  V  K  I  *  L  R  K  L  V  Q  N  P  S  L  V  L  D  H  T  A  I  L  R  R  D  L  L  P  L  I  N  K  E  N  R  D  C  L  C  L  V  A  :  V  L  H  L  K  Q  R  D  N  Q  A  E  P  S  K  G  H  L  V  R  R  S  L  *  R  R  S  P  N  *  T  K  L  I  P  S  L  Q  Q  L  F  H  N  R  L  L  I  S  F  *  V  L  V  E  D  P  D  L  R  T  K  C  H  P  C  L  *  I  Q  G  T  F  L  K  G  S  D  G  M  L  S  T  A  E  L  K  G  D  R  L  A  A  I  S  *  I  T  S  S  H  L  F  Q  F  L  S  *  F  V  *  F  I  *  *  R  V  V  F  F  T  P  P  P  S  Q  C  K  K  E  D  E  F  A  F  C  A  T  F  L  E  L  K  T  G  E  F  G  E  F  D  C  Q  F  L  C  C  V  L  Y  K  I  *  M  *  D  S  F  I  N  L  E  I  V  D  H  I  V  </second_frame>
            <third_frame>   G  L  V  *  Q  C  W  I  C  *  A  N  S  R  K  V  A  K  E  T  R  G  S  C  *  A  *  K  S  N  G  L  C  F  S  S  P   : V  A  G  R  I  Q  A  A  G  Y  T  F  W  V  *  T  R  *  K  Q  L  G  L  E  L  V  R  E  M  D  G  S  T  P  M  G  K  S  F  S  R  P  *  C  Q  R  W  S  H  A  *  *  K  *  I  S  R  T  C  K  R  D  E  E  P  G  K  S  C  W  E  E  T  S  N  Y  N  S  F  K  *  *  S  G  S  I  S  F  K  Q  *  L  K  I  K  *  K  G  S  S  I  A  L  *  W  L  Q  F  F  P  K  C  V  S  K  H  T  R  N  T  C  S  I  S  *  Q  T  *  V  Q  T  K  S  *  R  F  S  *  G  S  *  F  K  T  R  P  W  F  *  I  T  Q  Q  S  *  G  E  I  Y  S  L  *  *  T  R  K  T  E  I  V  S  A  W  *  R :   S  C  T  S  N  S  E  T  T  K  Q  N  H  Q  K  D  I  *  Y  A  E  A  F  E  G  E  V  Q  I  K  R  N  *  Y  Q  V  Y  S  N  C  F  T  T  G  C  *  L  V  F  R  Y  S  L  K  I  P  I  S  E  P  S  V  T  L  A  C  K  Y  R  E  P  S  *  R  G  V  M  V  C  C  P  R  Q  S  *  K  E  I  G  L  L  P  S  P  E  *  H  L  R  I  C  F  N  S  C  H  N  S  C  N  L  Y  N  S  A  L  F  S  L  P  L  L  P  P  S  V  K  K  R  M  N  L  L  F  V  P  L  F  L  S  *  K  L  G  N  L  V  S  L  I  A  N  F  F  V  V  C  C  T  R  S  E  C  R  I  H  S  L  I  *  R  L  *  T  I  L  C </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="C11HBa0089M02.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="79889" stop="79776"/>
                    <exon start="78590" stop="78068"/>
                    <exon start="77511" stop="77369"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>777</number_coding_nucleotides>
                  <number_encoded_amino_acids>259</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EGWCDSVGSVEQIQEKLLKRQEAAAKRERAMAYALAHQWQAGSRQQATLSGFEPDKSSWGWNWLERWMAVRPWENRFLDLNVRDGVMPNENESAEPVNGMKNQVKVAGKKPATTTLSNDRVGPSHSSSNSKSNEKAAASLSDGCSSSPNVSASTQETPAALVNKPKSKPNREDLVEEASSKPVLGSRSHSNPKERSTPSDKQGKQRLSLPGSGLAPQTARQPSRTIKRTSSTQKPLKEKSKLNETDTKSTATVSQQAAD*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 8 chains have been computed
$ 
$ memory statistics:
$ 1768 bytes spliced alignments in total
$ 1 spliced alignments have been stored
$ 1768 bytes was the average size of a spliced alignment
$ 5592 bytes predicted gene locations in total
$ 1 predicted gene locations have been stored
$ 5592 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 8 backtrace matrices have been allocated
$ 
$ date finished: 2008-03-10 20:34:47
-->
