<?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 17:47:22"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04HBa0020F17-4zsnb/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04HBa0020F17-4zsnb/gth_cdna_fileCXGN::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-C04HBa0020F17-4zsnb/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M78-R" ref_strand="+" ref_description="SGN-M78-R TG652-R [rflp_markers_reverse]">
      <seq>tgtactgtgcgacatggaagaactgttctaagtccaaggagattgatgcatgccatgacttctcacattcctggtttcaatctaactagccagcaggtattcttttcttcacagtatgcggacaattatcactagtactagtgttttaacttacatatttcccaaatgtaggatgcagaggaagcactctcccatcttttatcttctttaagagccgaactgtcagaatcttttgttcatgatcacagctctttggcggatgtaattacacttcctaattctaggattgttacacaaaggatgaaaggagaaagtgaacaggagagatggaggcagagttttcttgggccttttgatgggattcttggtagttttttaaactgccaaacttgttcgtttcaggttgaatggtacttgaaagaacatttaatatcatacaatttaattattgcctgctgtatctttttgcacattatagaacttgtttgctaaatttacaaagaatattctagagttgctttgctgtgctagcccaggcgctcatgcaatctgtgatattgatttcaagttgctgtaaaagggaacaaactgttacctaatggataattttttaaagaaaaataattaactaactggtgtctattgtacattgaaagtgagaaaaggtcaaaacatcaaaagattcaaaagtctttttactttcttaaactttgtgccaagtcaaaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0020F17-4zsnb/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0020F17.1" temp_strand="+" temp_description="C04HBa0020F17.1  CT990489.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0020F17 sequenced_by:sanger upload_account_name:uk">
        <position start="124822" stop="126148"/>
      </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="125122" g_stop="125848" g_length="727"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="727" r_length="727" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0020F17.1" gen_strand="+" ref_id="SGN-M78-R" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>727</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0020F17.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M78-R" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="125122" e_stop="125848"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTACTGTGCGACATGGAAGAACTGTTCTAAGTCCAAGGAGATTGATGCATGCCATGACTTCTCACATTCCTGGTTTCAATCTAACTAGCCAGCAGGTATTCTTTTCTTCACAGTATGCGGACAATTATCACTAGTACTAGTGTTTTAACTTACATATTTCCCAAATGTAGGATGCAGAGGAAGCACTCTCCCATCTTTTATCTTCTTTAAGAGCCGAACTGTCAGAATCTTTTGTTCATGATCACAGCTCTTTGGCGGATGTAATTACACTTCCTAATTCTAGGATTGTTACACAAAGGATGAAAGGAGAAAGTGAACAGGAGAGATGGAGGCAGAGTTTTCTTGGGCCTTTTGATGGGATTCTTGGTAGTTTTTTAAACTGCCAAACTTGTTCGTTTCAGGTTGAATGGTACTTGAAAGAACATTTAATATCATACAATTTAATTATTGCCTGCTGTATCTTTTTGCACATTATAGAACTTGTTTGCTAAATTTACAAAGAATATTCTAGAGTTGCTTTGCTGTGCTAGCCCAGGCGCTCATGCAATCTGTGATATTGATTTCAAGTTGCTGTAAAAGGGAACAAACTGTTACCTAATGGATAATTTTTTAAAGAAAAATAATTAACTAACTGGTGTCTATTGTACATTGAAAGTGAGAAAAGGTCAAAACATCAAAAGATTCAAAAGTCTTTTTACTTTCTTAAACTTTGTGCCAAGTCAAAAC</genome_strand>
        <mrna_strand>TGTACTGTGCGACATGGAAGAACTGTTCTAAGTCCAAGGAGATTGATGCATGCCATGACTTCTCACATTCCTGGTTTCAATCTAACTAGCCAGCAGGTATTCTTTTCTTCACAGTATGCGGACAATTATCACTAGTACTAGTGTTTTAACTTACATATTTCCCAAATGTAGGATGCAGAGGAAGCACTCTCCCATCTTTTATCTTCTTTAAGAGCCGAACTGTCAGAATCTTTTGTTCATGATCACAGCTCTTTGGCGGATGTAATTACACTTCCTAATTCTAGGATTGTTACACAAAGGATGAAAGGAGAAAGTGAACAGGAGAGATGGAGGCAGAGTTTTCTTGGGCCTTTTGATGGGATTCTTGGTAGTTTTTTAAACTGCCAAACTTGTTCGTTTCAGGTTGAATGGTACTTGAAAGAACATTTAATATCATACAATTTAATTATTGCCTGCTGTATCTTTTTGCACATTATAGAACTTGTTTGCTAAATTTACAAAGAATATTCTAGAGTTGCTTTGCTGTGCTAGCCCAGGCGCTCATGCAATCTGTGATATTGATTTCAAGTTGCTGTAAAAGGGAACAAACTGTTACCTAATGGATAATTTTTTAAAGAAAAATAATTAACTAACTGGTGTCTATTGTACATTGAAAGTGAGAAAAGGTCAAAACATCAAAAGATTCAAAAGTCTTTTTACTTTCTTAAACTTTGTGCCAAGTCAAAAC</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-C04HBa0020F17-4zsnb/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M78-F" ref_strand="+" ref_description="SGN-M78-F TG652-F [rflp_markers_forward]">
      <seq>aggaggattctgatgattataattatacactgtaaacacagaagcagctagctcagatatggaagatagaaatttaaggacttggaaagttcataggcatctggcggggatctgataaggaagggcagaggaatcagtgacgctactaagaatagatggccaaacaattgaaccaaaaacaaggagaagtgattaacaggagcaggaattaaaaaggttgaagtggaaaatcagcaatgatgggaaataggtgaatggaaaataaaaaaacagtgaattaaatcgtacagagaatataggcttcctattgcttctactgaaaaaaattaaaggtgaaatttacttcatttggctgcattcttcttaaataatataatctacttccttaactgaagaacacaacccacttgcaagaatatcagtacctgaagtttgttctgttctccaaatacatttatagaagcacgttgtaaatgaagacagagaacctgcaaggtggcacaacagtaagcacatgcaaaagagtcaacaaataaaacacatgaaaaaaccattaaatcacagagcgctgaagcatcaagtattaaaattaaatcctatttgccccaagtgacatgtaaaatgttactccttgacgatcccttattttcctcgttttataattttgttggcagctatatggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0020F17-4zsnb/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0020F17.1" temp_strand="-" temp_description="C04HBa0020F17.1  CT990489.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0020F17 sequenced_by:sanger upload_account_name:uk">
        <position start="127935" stop="126653"/>
      </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="127635" g_stop="126953" g_length="683"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="683" r_length="683" r_score="0.999"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0020F17.1" gen_strand="-" ref_id="SGN-M78-F" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>683</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0020F17.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M78-F" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="127635" e_stop="126953"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGGAGGATTCTGATGATTATAATTATACACTGGAAACACAGAAGCAGCTAGCTCAGATATGGAAGATAGAAATTTAAGGACTTGGAAAGTTCATAGGCATCTGGCGGGGATCTGATAAGGAAGGGCAGAGGAATCAGTGACGCTACTAAGAATAGATGGCCAAACAATTGAACCAAAAACAAGGAGAAGTGATTAACAGGAGCAGGAATTAAAAAGGTTGAAGTGGAAAATCAGCAATGATGGGAAATAGGTGAATGGAAAATAAAAAAACAGTGAATTAAATCGTACAGAGAATATAGGCTTCCTATTGCTTCTACTGAAAAAAATTAAAGGTGAAATTTACTTCATTTGGCTGCATTCTTCTTAAATAATATAATCTACTTCCTTAACTGAAGAACACAACCCACTTGCAAGAATATCAGTACCTGAAGTTTGTTCTGTTCTCCAAATACATTTATAGAAGCACGTTGTAAATGAAGACAGAGAACCTGCAAGGTGGCACAACAGTAAGCACATGCAAAAGAGTCAACAAATAAAACACATGAAAAAACCATTAAATCACAGAGCGCTGAAGCATCAAGTATTAAAATTAAATCCTATTTGCCCCAAGTGACATGTAAAATGTTACTCCTTGACGATCCCTTATTTTCCTCGTTTTATAATTTTGTTGGCAGCTATATGGT</genome_strand>
        <mrna_strand>AGGAGGATTCTGATGATTATAATTATACACTGTAAACACAGAAGCAGCTAGCTCAGATATGGAAGATAGAAATTTAAGGACTTGGAAAGTTCATAGGCATCTGGCGGGGATCTGATAAGGAAGGGCAGAGGAATCAGTGACGCTACTAAGAATAGATGGCCAAACAATTGAACCAAAAACAAGGAGAAGTGATTAACAGGAGCAGGAATTAAAAAGGTTGAAGTGGAAAATCAGCAATGATGGGAAATAGGTGAATGGAAAATAAAAAAACAGTGAATTAAATCGTACAGAGAATATAGGCTTCCTATTGCTTCTACTGAAAAAAATTAAAGGTGAAATTTACTTCATTTGGCTGCATTCTTCTTAAATAATATAATCTACTTCCTTAACTGAAGAACACAACCCACTTGCAAGAATATCAGTACCTGAAGTTTGTTCTGTTCTCCAAATACATTTATAGAAGCACGTTGTAAATGAAGACAGAGAACCTGCAAGGTGGCACAACAGTAAGCACATGCAAAAGAGTCAACAAATAAAACACATGAAAAAACCATTAAATCACAGAGCGCTGAAGCATCAAGTATTAAAATTAAATCCTATTTGCCCCAAGTGACATGTAAAATGTTACTCCTTGACGATCCCTTATTTTCCTCGTTTTATAATTTTGTTGGCAGCTATATGGT</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="125122" PGL_stop="125848"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="125122" e_stop="125848"/>
          </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="125122" e_stop="125848" e_length="727"/>
          </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="125122" stop="125848"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M78-R" 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>TGTACTGTGCGACATGGAAGAACTGTTCTAAGTCCAAGGAGATTGATGCATGCCATGACTTCTCACATTCCTGGTTTCAATCTAACTAGCCAGCAGGTATTCTTTTCTTCACAGTATGCGGACAATTATCACTAGTACTAGTGTTTTAACTTACATATTTCCCAAATGTAGGATGCAGAGGAAGCACTCTCCCATCTTTTATCTTCTTTAAGAGCCGAACTGTCAGAATCTTTTGTTCATGATCACAGCTCTTTGGCGGATGTAATTACACTTCCTAATTCTAGGATTGTTACACAAAGGATGAAAGGAGAAAGTGAACAGGAGAGATGGAGGCAGAGTTTTCTTGGGCCTTTTGATGGGATTCTTGGTAGTTTTTTAAACTGCCAAACTTGTTCGTTTCAGGTTGAATGGTACTTGAAAGAACATTTAATATCATACAATTTAATTATTGCCTGCTGTATCTTTTTGCACATTATAGAACTTGTTTGCTAAATTTACAAAGAATATTCTAGAGTTGCTTTGCTGTGCTAGCCCAGGCGCTCATGCAATCTGTGATATTGATTTCAAGTTGCTGTAAAAGGGAACAAACTGTTACCTAATGGATAATTTTTTAAAGAAAAATAATTAACTAACTGGTGTCTATTGTACATTGAAAGTGAGAAAAGGTCAAAACATCAAAAGATTCAAAAGTCTTTTTACTTTCTTAAACTTTGTGCCAAGTCAAAAC</gDNA_template>
            <first_frame> C  T  V  R  H  G  R  T  V  L  S  P  R  R  L  M  H  A  M  T  S  H  I  P  G  F  N  L  T  S  Q  Q  V  F  F  S  S  Q  Y  A  D  N  Y  H  *  Y  *  C  F  N  L  H  I  S  Q  M  *  D  A  E  E  A  L  S  H  L  L  S  S  L  R  A  E  L  S  E  S  F  V  H  D  H  S  S  L  A  D  V  I  T  L  P  N  S  R  I  V  T  Q  R  M  K  G  E  S  E  Q  E  R  W  R  Q  S  F  L  G  P  F  D  G  I  L  G  S  F  L  N  C  Q  T  C  S  F  Q  V  E  W  Y  L  K  E  H  L  I  S  Y  N  L  I  I  A  C  C  I  F  L  H  I  I  E  L  V  C  *  I  Y  K  E  Y  S  R  V  A  L  L  C  *  P  R  R  S  C  N  L  *  Y  *  F  Q  V  A  V  K  G  N  K  L  L  P  N  G  *  F  F  K  E  K  *  L  T  N  W  C  L  L  Y  I  E  S  E  K  R  S  K  H  Q  K  I  Q  K  S  F  Y  F  L  K  L  C  A  K  S  K  </first_frame>
            <second_frame>  V  L  C  D  M  E  E  L  F  *  V  Q  G  D  *  C  M  P  *  L  L  T  F  L  V  S  I  *  L  A  S  R  Y  S  F  L  H  S  M  R  T  I  I  T  S  T  S  V  L  T  Y  I  F  P  K  C  R  M  Q  R  K  H  S  P  I  F  Y  L  L  *  E  P  N  C  Q  N  L  L  F  M  I  T  A  L  W  R  M  *  L  H  F  L  I  L  G  L  L  H  K  G  *  K  E  K  V  N  R  R  D  G  G  R  V  F  L  G  L  L  M  G  F  L  V  V  F  *  T  A  K  L  V  R  F  R  L  N  G  T  *  K  N  I  *  Y  H  T  I  *  L  L  P  A  V  S  F  C  T  L  *  N  L  F  A  K  F  T  K  N  I  L  E  L  L  C  C  A  S  P  G  A  H  A  I  C  D  I  D  F  K  L  L  *  K  G  T  N  C  Y  L  M  D  N  F  L  K  K  N  N  *  L  T  G  V  Y  C  T  L  K  V  R  K  G  Q  N  I  K  R  F  K  S  L  F  T  F  L  N  F  V  P  S  Q  N </second_frame>
            <third_frame>   Y  C  A  T  W  K  N  C  S  K  S  K  E  I  D  A  C  H  D  F  S  H  S  W  F  Q  S  N  *  P  A  G  I  L  F  F  T  V  C  G  Q  L  S  L  V  L  V  F  *  L  T  Y  F  P  N  V  G  C  R  G  S  T  L  P  S  F  I  F  F  K  S  R  T  V  R  I  F  C  S  *  S  Q  L  F  G  G  C  N  Y  T  S  *  F  *  D  C  Y  T  K  D  E  R  R  K  *  T  G  E  M  E  A  E  F  S  W  A  F  *  W  D  S  W  *  F  F  K  L  P  N  L  F  V  S  G  *  M  V  L  E  R  T  F  N  I  I  Q  F  N  Y  C  L  L  Y  L  F  A  H  Y  R  T  C  L  L  N  L  Q  R  I  F  *  S  C  F  A  V  L  A  Q  A  L  M  Q  S  V  I  L  I  S  S  C  C  K  R  E  Q  T  V  T  *  W  I  I  F  *  R  K  I  I  N  *  L  V  S  I  V  H  *  K  *  E  K  V  K  T  S  K  D  S  K  V  F  L  L  S  *  T  L  C  Q  V  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="C04HBa0020F17.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="125293" stop="125613"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>318</number_coding_nucleotides>
                  <number_encoded_amino_acids>106</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>DAEEALSHLLSSLRAELSESFVHDHSSLADVITLPNSRIVTQRMKGESEQERWRQSFLGPFDGILGSFLNCQTCSFQVEWYLKEHLISYNLIIACCIFLHIIELVC*</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="127635" PGL_stop="126953"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="127635" e_stop="126953"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.999"/>
        </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="0.999">
            <gDNA_exon_boundary e_start="127635" e_stop="126953" e_length="683"/>
          </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="127635" stop="126953"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M78-F" 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>AGGAGGATTCTGATGATTATAATTATACACTGGAAACACAGAAGCAGCTAGCTCAGATATGGAAGATAGAAATTTAAGGACTTGGAAAGTTCATAGGCATCTGGCGGGGATCTGATAAGGAAGGGCAGAGGAATCAGTGACGCTACTAAGAATAGATGGCCAAACAATTGAACCAAAAACAAGGAGAAGTGATTAACAGGAGCAGGAATTAAAAAGGTTGAAGTGGAAAATCAGCAATGATGGGAAATAGGTGAATGGAAAATAAAAAAACAGTGAATTAAATCGTACAGAGAATATAGGCTTCCTATTGCTTCTACTGAAAAAAATTAAAGGTGAAATTTACTTCATTTGGCTGCATTCTTCTTAAATAATATAATCTACTTCCTTAACTGAAGAACACAACCCACTTGCAAGAATATCAGTACCTGAAGTTTGTTCTGTTCTCCAAATACATTTATAGAAGCACGTTGTAAATGAAGACAGAGAACCTGCAAGGTGGCACAACAGTAAGCACATGCAAAAGAGTCAACAAATAAAACACATGAAAAAACCATTAAATCACAGAGCGCTGAAGCATCAAGTATTAAAATTAAATCCTATTTGCCCCAAGTGACATGTAAAATGTTACTCCTTGACGATCCCTTATTTTCCTCGTTTTATAATTTTGTTGGCAGCTATATGGT</gDNA_template>
            <first_frame> R  R  I  L  M  I  I  I  I  H  W  K  H  R  S  S  *  L  R  Y  G  R  *  K  F  K  D  L  E  S  S  *  A  S  G  G  D  L  I  R  K  G  R  G  I  S  D  A  T  K  N  R  W  P  N  N  *  T  K  N  K  E  K  *  L  T  G  A  G  I  K  K  V  E  V  E  N  Q  Q  *  W  E  I  G  E  W  K  I  K  K  Q  *  I  K  S  Y  R  E  Y  R  L  P  I  A  S  T  E  K  N  *  R  *  N  L  L  H  L  A  A  F  F  L  N  N  I  I  Y  F  L  N  *  R  T  Q  P  T  C  K  N  I  S  T  *  S  L  F  C  S  P  N  T  F  I  E  A  R  C  K  *  R  Q  R  T  C  K  V  A  Q  Q  *  A  H  A  K  E  S  T  N  K  T  H  E  K  T  I  K  S  Q  S  A  E  A  S  S  I  K  I  K  S  Y  L  P  Q  V  T  C  K  M  L  L  L  D  D  P  L  F  S  S  F  Y  N  F  V  G  S  Y  M   </first_frame>
            <second_frame>  G  G  F  *  *  L  *  L  Y  T  G  N  T  E  A  A  S  S  D  M  E  D  R  N  L  R  T  W  K  V  H  R  H  L  A  G  I  *  *  G  R  A  E  E  S  V  T  L  L  R  I  D  G  Q  T  I  E  P  K  T  R  R  S  D  *  Q  E  Q  E  L  K  R  L  K  W  K  I  S  N  D  G  K  *  V  N  G  K  *  K  N  S  E  L  N  R  T  E  N  I  G  F  L  L  L  L  L  K  K  I  K  G  E  I  Y  F  I  W  L  H  S  S  *  I  I  *  S  T  S  L  T  E  E  H  N  P  L  A  R  I  S  V  P  E  V  C  S  V  L  Q  I  H  L  *  K  H  V  V  N  E  D  R  E  P  A  R  W  H  N  S  K  H  M  Q  K  S  Q  Q  I  K  H  M  K  K  P  L  N  H  R  A  L  K  H  Q  V  L  K  L  N  P  I  C  P  K  *  H  V  K  C  Y  S  L  T  I  P  Y  F  P  R  F  I  I  L  L  A  A  I  W  </second_frame>
            <third_frame>   E  D  S  D  D  Y  N  Y  T  L  E  T  Q  K  Q  L  A  Q  I  W  K  I  E  I  *  G  L  G  K  F  I  G  I  W  R  G  S  D  K  E  G  Q  R  N  Q  *  R  Y  *  E  *  M  A  K  Q  L  N  Q  K  Q  G  E  V  I  N  R  S  R  N  *  K  G  *  S  G  K  S  A  M  M  G  N  R  *  M  E  N  K  K  T  V  N  *  I  V  Q  R  I  *  A  S  Y  C  F  Y  *  K  K  L  K  V  K  F  T  S  F  G  C  I  L  L  K  *  Y  N  L  L  P  *  L  K  N  T  T  H  L  Q  E  Y  Q  Y  L  K  F  V  L  F  S  K  Y  I  Y  R  S  T  L  *  M  K  T  E  N  L  Q  G  G  T  T  V  S  T  C  K  R  V  N  K  *  N  T  *  K  N  H  *  I  T  E  R  *  S  I  K  Y  *  N  *  I  L  F  A  P  S  D  M  *  N  V  T  P  *  R  S  L  I  F  L  V  L  *  F  C  W  Q  L  Y  G </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="C04HBa0020F17.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 7 chains have been computed
$ 
$ memory statistics:
$ 4080 bytes spliced alignments in total
$ 2 spliced alignments have been stored
$ 2040 bytes was the average size of a spliced alignment
$ 6704 bytes predicted gene locations in total
$ 2 predicted gene locations have been stored
$ 3352 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: 2009-01-14 17:47:27
-->
