<?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="2009-01-16 02:20:47"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C05HBa0168M18-1UOhc/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C05HBa0168M18-1UOhc/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-C05HBa0168M18-1UOhc/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M751" ref_strand="-" ref_description="SGN-M751 SSR78 [est_by_read_no_qc_info]">
      <seq>tttcacatgatactacaactactaggattctcatcactaaacatatgagtattagtggcagattgatcagcattagcagcagcagcagcagcagaagtgtagtaataaggatcagcataagtagtgtaagggacttggccatagttattgttggtagtagtagtagtagttccattgttgttattcccatgaaaaccagcaagattcatcattgagtttaagtcgtttcctcccaccattccaattttcgcagcctcgttgaggttgacatttggacctaattgagcagcagaagcagcaccattcatgttcattttcatagcatgaattgctctttggtcaatgccaccgcctccgggatttgccttcattggcatattcggactagggccagttttcttgccatgagcagcaacattgttgttgttacctttcccattagccatagcagccgccatagctttcttcttattcgcttcagcttgttgtctaagaatagccatctgccttggtccatctctcacaaacctcatctcttcctcaggataacaatcatcgtcctcatcatcctcatcgagataatcgatttcctctggcaaaagattaaacttctcctggtgctgattcttgagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C05HBa0168M18-1UOhc/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C05HBa0168M18.1" temp_strand="-" temp_description="C05HBa0168M18.1  AC209178.1 htgs_phase:3 submitted_to_sgn_as:C05HBa0168M18 sequenced_by:iitg upload_account_name:india complete sequence">
        <position start="4390" stop="2871"/>
      </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="4090" g_stop="3938" g_length="153"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="153" r_length="153" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="3937" i_stop="3650" i_length="288">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="3649" g_stop="3170" g_length="480"/>
          <reference_exon_boundary r_type="cDNA" r_start="154" r_stop="633" r_length="480" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C05HBa0168M18.1" gen_strand="-" ref_id="SGN-M751" ref_strand="-">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>633</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C05HBa0168M18.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M751" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="4090" e_stop="3938"/>
          <exon e_start="3649" e_stop="3170"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCACATGATACTACAACTACTAGGATTCTCATCACTAAACATATGAGTATTAGTGGCAGATTGATCAGCATTAGCAGCAGCAGCAGCAGCAGAAGTGTAGTAATAAGGATCAGCATAAGTAGTGTAAGGGACTTGGCCATAGTTATTGTTGGTATTGTTATAGTAATAACCGGTGGAAGGAGGAACGAATGGTGAACGATTGTACATCATCTGAGGTTGTTGTTGTTGATGTTGCATAGCATGCCTGTTTTGAAAATTCATTAGCATTTGTGCTGGATTGTACTGTTGTTGTTGGCCTCCGTTGTTCATGTTCATTAGCATCGAGGCAGAGGAAGGATGATGATGACCACCGGTGGATAAAGATCCCGGTATAGCATTGTTTTGATGACCTTGAAATCCACCCGCGTTCAAGAATGCAGCAACGTTGTTGTTATTGTTAGTAGTAGTAGTAGTAGTTCCATTGTTGTTATTCCCATGAAAACCAGCAAGATTCATCATTGAGTTTAAGTCGTTTCCTCCCACCATTCCAATTTTCGCAGCCTCGTTGAGGTTGACATTTGGACCTAATTGAGCAGCAGAAGCAGCACCATTCATGTTCATTTTCATAGCATGAATTGCTCTTTGGTCAATGCCACCGCCTCCGGGATTTGCCTTCATTGGCATATTCGGACTAGGGCCAGTTTTCTTGCCATGAGCAGCAACATTGTTGTTGTTACCTTTCCCATTAGCCATAGCAGCCGCCATAGCTTTCTTCTTATTCGCTTCAGCTTGTTGTCTAAGAATAGCCATCTGCCTTGGTCCATCTCTCACAAACCTCATCTCTTCCTCAGGATAACAATCATCGTCCTCATCATCCTCATCGAGATAATCGATTTCCTCTGGCAAAAGATTAAACTTCTCCTGGTGCTGATTCTTGAGA</genome_strand>
        <mrna_strand>TTTCACATGATACTACAACTACTAGGATTCTCATCACTAAACATATGAGTATTAGTGGCAGATTGATCAGCATTAGCAGCAGCAGCAGCAGCAGAAGTGTAGTAATAAGGATCAGCATAAGTAGTGTAAGGGACTTGGCCATAGTTATTGTTG................................................................................................................................................................................................................................................................................................GTAGTAGTAGTAGTAGTTCCATTGTTGTTATTCCCATGAAAACCAGCAAGATTCATCATTGAGTTTAAGTCGTTTCCTCCCACCATTCCAATTTTCGCAGCCTCGTTGAGGTTGACATTTGGACCTAATTGAGCAGCAGAAGCAGCACCATTCATGTTCATTTTCATAGCATGAATTGCTCTTTGGTCAATGCCACCGCCTCCGGGATTTGCCTTCATTGGCATATTCGGACTAGGGCCAGTTTTCTTGCCATGAGCAGCAACATTGTTGTTGTTACCTTTCCCATTAGCCATAGCAGCCGCCATAGCTTTCTTCTTATTCGCTTCAGCTTGTTGTCTAAGAATAGCCATCTGCCTTGGTCCATCTCTCACAAACCTCATCTCTTCCTCAGGATAACAATCATCGTCCTCATCATCCTCATCGAGATAATCGATTTCCTCTGGCAAAAGATTAAACTTCTCCTGGTGCTGATTCTTGAGC</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-C05HBa0168M18-1UOhc/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M751-2" ref_strand="-" ref_description="SGN-M751-2 SSR78-2 [est_by_read]">
      <seq>agacttttcacatgatactacaactactaggattctcatcactagacatatgagtattagtggcagattgatcagcattagcagcagcagcagcagcagaagtgtagtaataaggatcagcataagtagtgtaagggacttggccatagttattgttggtagtagtagtagtagttccattgttgttattcccatgaaaaccagcaagattcatcattgagtttaagtcgtttcctcccaccattccaattttcgcagcctcgttgaggttgacatttggacctaattgagcagcagaagcagcaccattcatgttcattttcatagcatgaattgctctttggtcaatgccaccgcctccgggatttgccttcattggcatattcggactagggccagttttcttgccatgagcagcaacattgttgttgttacctttcccattagccatagcagccgccatagctttcttcttattcgcttcagcttgttgtctaagaatagccatctgccttggtccatctctcacaaacctcatctcttcctcaggataacaatcatcgtcctcatcatcctcatcgagataatcgatttcctctggcaaaagattaaacttctcctggtgctgattcttga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C05HBa0168M18-1UOhc/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C05HBa0168M18.1" temp_strand="-" temp_description="C05HBa0168M18.1  AC209178.1 htgs_phase:3 submitted_to_sgn_as:C05HBa0168M18 sequenced_by:iitg upload_account_name:india complete sequence">
        <position start="4395" stop="2872"/>
      </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="4095" g_stop="3938" g_length="158"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="158" r_length="158" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="3937" i_stop="3650" i_length="288">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="3649" g_stop="3172" g_length="478"/>
          <reference_exon_boundary r_type="cDNA" r_start="159" r_stop="636" r_length="478" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C05HBa0168M18.1" gen_strand="-" ref_id="SGN-M751-2" ref_strand="-">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>636</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C05HBa0168M18.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M751-2" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="4095" e_stop="3938"/>
          <exon e_start="3649" e_stop="3172"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGACTTTTCACATGATACTACAACTACTAGGATTCTCATCACTAAACATATGAGTATTAGTGGCAGATTGATCAGCATTAGCAGCAGCAGCAGCAGCAGAAGTGTAGTAATAAGGATCAGCATAAGTAGTGTAAGGGACTTGGCCATAGTTATTGTTGGTATTGTTATAGTAATAACCGGTGGAAGGAGGAACGAATGGTGAACGATTGTACATCATCTGAGGTTGTTGTTGTTGATGTTGCATAGCATGCCTGTTTTGAAAATTCATTAGCATTTGTGCTGGATTGTACTGTTGTTGTTGGCCTCCGTTGTTCATGTTCATTAGCATCGAGGCAGAGGAAGGATGATGATGACCACCGGTGGATAAAGATCCCGGTATAGCATTGTTTTGATGACCTTGAAATCCACCCGCGTTCAAGAATGCAGCAACGTTGTTGTTATTGTTAGTAGTAGTAGTAGTAGTTCCATTGTTGTTATTCCCATGAAAACCAGCAAGATTCATCATTGAGTTTAAGTCGTTTCCTCCCACCATTCCAATTTTCGCAGCCTCGTTGAGGTTGACATTTGGACCTAATTGAGCAGCAGAAGCAGCACCATTCATGTTCATTTTCATAGCATGAATTGCTCTTTGGTCAATGCCACCGCCTCCGGGATTTGCCTTCATTGGCATATTCGGACTAGGGCCAGTTTTCTTGCCATGAGCAGCAACATTGTTGTTGTTACCTTTCCCATTAGCCATAGCAGCCGCCATAGCTTTCTTCTTATTCGCTTCAGCTTGTTGTCTAAGAATAGCCATCTGCCTTGGTCCATCTCTCACAAACCTCATCTCTTCCTCAGGATAACAATCATCGTCCTCATCATCCTCATCGAGATAATCGATTTCCTCTGGCAAAAGATTAAACTTCTCCTGGTGCTGATTCTTGA</genome_strand>
        <mrna_strand>AGACTTTTCACATGATACTACAACTACTAGGATTCTCATCACTAGACATATGAGTATTAGTGGCAGATTGATCAGCATTAGCAGCAGCAGCAGCAGCAGAAGTGTAGTAATAAGGATCAGCATAAGTAGTGTAAGGGACTTGGCCATAGTTATTGTTG................................................................................................................................................................................................................................................................................................GTAGTAGTAGTAGTAGTTCCATTGTTGTTATTCCCATGAAAACCAGCAAGATTCATCATTGAGTTTAAGTCGTTTCCTCCCACCATTCCAATTTTCGCAGCCTCGTTGAGGTTGACATTTGGACCTAATTGAGCAGCAGAAGCAGCACCATTCATGTTCATTTTCATAGCATGAATTGCTCTTTGGTCAATGCCACCGCCTCCGGGATTTGCCTTCATTGGCATATTCGGACTAGGGCCAGTTTTCTTGCCATGAGCAGCAACATTGTTGTTGTTACCTTTCCCATTAGCCATAGCAGCCGCCATAGCTTTCTTCTTATTCGCTTCAGCTTGTTGTCTAAGAATAGCCATCTGCCTTGGTCCATCTCTCACAAACCTCATCTCTTCCTCAGGATAACAATCATCGTCCTCATCATCCTCATCGAGATAATCGATTTCCTCTGGCAAAAGATTAAACTTCTCCTGGTGCTGATTCTTGA</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-C05HBa0168M18-1UOhc/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M188-F" ref_strand="+" ref_description="SGN-M188-F CT167-F [rflp_markers_forward]">
      <seq>attagcatttgtgctggattgtactgttgttgttggcctccgttgttcatgttcattagcatcgaggcagaggaaggatgatgatgaccaccggtggataaagatcccggtatagcattgttttgatgaccttgaaatccacccgcgttcaagaatgcagcaacgttgttgttattgttagtagtagtagtagtagttccattgttgttattcccatgaaaaccagcaagattcatcattgagtttaagtcgtttcctcccaccattccaattttcgcagcctcgttgaggttgacatttggacctaattgagcagcagaagcagcaccattcatgttcattttcatagcatgaattgctctttggtcaatgccaccgcctccgggatttgccttcattggcatattcggactagggccagttttcttgccatgagcagcaacattgttgttgttacctttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C05HBa0168M18-1UOhc/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C05HBa0168M18.1" temp_strand="-" temp_description="C05HBa0168M18.1  AC209178.1 htgs_phase:3 submitted_to_sgn_as:C05HBa0168M18 sequenced_by:iitg upload_account_name:india complete sequence">
        <position start="4129" stop="3068"/>
      </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="3829" g_stop="3368" g_length="462"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="462" r_length="462" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C05HBa0168M18.1" gen_strand="-" ref_id="SGN-M188-F" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>462</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C05HBa0168M18.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M188-F" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="3829" e_stop="3368"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTAGCATTTGTGCTGGATTGTACTGTTGTTGTTGGCCTCCGTTGTTCATGTTCATTAGCATCGAGGCAGAGGAAGGATGATGATGACCACCGGTGGATAAAGATCCCGGTATAGCATTGTTTTGATGACCTTGAAATCCACCCGCGTTCAAGAATGCAGCAACGTTGTTGTTATTGTTAGTAGTAGTAGTAGTAGTTCCATTGTTGTTATTCCCATGAAAACCAGCAAGATTCATCATTGAGTTTAAGTCGTTTCCTCCCACCATTCCAATTTTCGCAGCCTCGTTGAGGTTGACATTTGGACCTAATTGAGCAGCAGAAGCAGCACCATTCATGTTCATTTTCATAGCATGAATTGCTCTTTGGTCAATGCCACCGCCTCCGGGATTTGCCTTCATTGGCATATTCGGACTAGGGCCAGTTTTCTTGCCATGAGCAGCAACATTGTTGTTGTTACCTTTC</genome_strand>
        <mrna_strand>ATTAGCATTTGTGCTGGATTGTACTGTTGTTGTTGGCCTCCGTTGTTCATGTTCATTAGCATCGAGGCAGAGGAAGGATGATGATGACCACCGGTGGATAAAGATCCCGGTATAGCATTGTTTTGATGACCTTGAAATCCACCCGCGTTCAAGAATGCAGCAACGTTGTTGTTATTGTTAGTAGTAGTAGTAGTAGTTCCATTGTTGTTATTCCCATGAAAACCAGCAAGATTCATCATTGAGTTTAAGTCGTTTCCTCCCACCATTCCAATTTTCGCAGCCTCGTTGAGGTTGACATTTGGACCTAATTGAGCAGCAGAAGCAGCACCATTCATGTTCATTTTCATAGCATGAATTGCTCTTTGGTCAATGCCACCGCCTCCGGGATTTGCCTTCATTGGCATATTCGGACTAGGGCCAGTTTTCTTGCCATGAGCAGCAACATTGTTGTTGTTACCTTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>3</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="4095" PGL_stop="3170"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="4095" e_stop="3938"/>
            <exon e_start="3649" e_stop="3170"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="1.000"/>
          <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="4095" e_stop="3938" e_length="158"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="3937" i_stop="3650" i_length="288"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="3649" e_stop="3170" e_length="480"/>
          </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="4095" stop="3938"/>
              <exon start="3649" stop="3172"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M751-2" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="4090" stop="3938"/>
              <exon start="3649" stop="3170"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M751" 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>AGACTTTTCACATGATACTACAACTACTAGGATTCTCATCACTAAACATATGAGTATTAGTGGCAGATTGATCAGCATTAGCAGCAGCAGCAGCAGCAGAAGTGTAGTAATAAGGATCAGCATAAGTAGTGTAAGGGACTTGGCCATAGTTATTGTTG : GTAGTAGTAGTAGTAGTTCCATTGTTGTTATTCCCATGAAAACCAGCAAGATTCATCATTGAGTTTAAGTCGTTTCCTCCCACCATTCCAATTTTCGCAGCCTCGTTGAGGTTGACATTTGGACCTAATTGAGCAGCAGAAGCAGCACCATTCATGTTCATTTTCATAGCATGAATTGCTCTTTGGTCAATGCCACCGCCTCCGGGATTTGCCTTCATTGGCATATTCGGACTAGGGCCAGTTTTCTTGCCATGAGCAGCAACATTGTTGTTGTTACCTTTCCCATTAGCCATAGCAGCCGCCATAGCTTTCTTCTTATTCGCTTCAGCTTGTTGTCTAAGAATAGCCATCTGCCTTGGTCCATCTCTCACAAACCTCATCTCTTCCTCAGGATAACAATCATCGTCCTCATCATCCTCATCGAGATAATCGATTTCCTCTGGCAAAAGATTAAACTTCTCCTGGTGCTGATTCTTGAGA</gDNA_template>
            <first_frame> R  L  F  T  *  Y  Y  N  Y  *  D  S  H  H  *  T  Y  E  Y  *  W  Q  I  D  Q  H  *  Q  Q  Q  Q  Q  Q  K  C  S  N  K  D  Q  H  K  *  C  K  G  L  G  H  S  Y  C  W :   *  *  *  *  *  F  H  C  C  Y  S  H  E  N  Q  Q  D  S  S  L  S  L  S  R  F  L  P  P  F  Q  F  S  Q  P  R  *  G  *  H  L  D  L  I  E  Q  Q  K  Q  H  H  S  C  S  F  S  *  H  E  L  L  F  G  Q  C  H  R  L  R  D  L  P  S  L  A  Y  S  D  *  G  Q  F  S  C  H  E  Q  Q  H  C  C  C  Y  L  S  H  *  P  *  Q  P  P  *  L  S  S  Y  S  L  Q  L  V  V  *  E  *  P  S  A  L  V  H  L  S  Q  T  S  S  L  P  Q  D  N  N  H  R  P  H  H  P  H  R  D  N  R  F  P  L  A  K  D  *  T  S  P  G  A  D  S  *   </first_frame>
            <second_frame>  D  F  S  H  D  T  T  T  T  R  I  L  I  T  K  H  M  S  I  S  G  R  L  I  S  I  S  S  S  S  S  S  R  S  V  V  I  R  I  S  I  S  S  V  R  D  L  A  I  V  I  V   : G  S  S  S  S  S  S  I  V  V  I  P  M  K  T  S  K  I  H  H  *  V  *  V  V  S  S  H  H  S  N  F  R  S  L  V  E  V  D  I  W  T  *  L  S  S  R  S  S  T  I  H  V  H  F  H  S  M  N  C  S  L  V  N  A  T  A  S  G  I  C  L  H  W  H  I  R  T  R  A  S  F  L  A  M  S  S  N  I  V  V  V  T  F  P  I  S  H  S  S  R  H  S  F  L  L  I  R  F  S  L  L  S  K  N  S  H  L  P  W  S  I  S  H  K  P  H  L  F  L  R  I  T  I  I  V  L  I  I  L  I  E  I  I  D  F  L  W  Q  K  I  K  L  L  L  V  L  I  L  E  </second_frame>
            <third_frame>   T  F  H  M  I  L  Q  L  L  G  F  S  S  L  N  I  *  V  L  V  A  D  *  S  A  L  A  A  A  A  A  A  E  V  *  *  *  G  S  A  *  V  V  *  G  T  W  P  *  L  L  L  :  V  V  V  V  V  V  P  L  L  L  F  P  *  K  P  A  R  F  I  I  E  F  K  S  F  P  P  T  I  P  I  F  A  A  S  L  R  L  T  F  G  P  N  *  A  A  E  A  A  P  F  M  F  I  F  I  A  *  I  A  L  W  S  M  P  P  P  P  G  F  A  F  I  G  I  F  G  L  G  P  V  F  L  P  *  A  A  T  L  L  L  L  P  F  P  L  A  I  A  A  A  I  A  F  F  L  F  A  S  A  C  C  L  R  I  A  I  C  L  G  P  S  L  T  N  L  I  S  S  S  G  *  Q  S  S  S  S  S  S  S  S  R  *  S  I  S  S  G  K  R  L  N  F  S  W  C  *  F  L  R </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="C05HBa0168M18.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="3521" stop="3171"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>351</number_coding_nucleotides>
                  <number_encoded_amino_acids>117</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LSSRSSTIHVHFHSMNCSLVNATASGICLHWHIRTRASFLAMSSNIVVVTFPISHSSRHSFLLIRFSLLSKNSHLPWSISHKPHLFLRITIIVLIILIEIIDFLWQKIKLLLVLILE</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C05HBa0168M18.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="4094" stop="3938"/>
                    <exon start="3649" stop="3588"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>216</number_coding_nucleotides>
                  <number_encoded_amino_acids>72</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>DFSHDTTTTRILITKHMSISGRLISISSSSSSRSVVIRISISSVRDLAIVIVGSSSSSSIVVIPMKTSKIHH*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="3829" e_stop="3368"/>
          </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="3829" e_stop="3368" e_length="462"/>
          </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="3829" stop="3368"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M188-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="1" AGS_serial="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>ATTAGCATTTGTGCTGGATTGTACTGTTGTTGTTGGCCTCCGTTGTTCATGTTCATTAGCATCGAGGCAGAGGAAGGATGATGATGACCACCGGTGGATAAAGATCCCGGTATAGCATTGTTTTGATGACCTTGAAATCCACCCGCGTTCAAGAATGCAGCAACGTTGTTGTTATTGTTAGTAGTAGTAGTAGTAGTTCCATTGTTGTTATTCCCATGAAAACCAGCAAGATTCATCATTGAGTTTAAGTCGTTTCCTCCCACCATTCCAATTTTCGCAGCCTCGTTGAGGTTGACATTTGGACCTAATTGAGCAGCAGAAGCAGCACCATTCATGTTCATTTTCATAGCATGAATTGCTCTTTGGTCAATGCCACCGCCTCCGGGATTTGCCTTCATTGGCATATTCGGACTAGGGCCAGTTTTCTTGCCATGAGCAGCAACATTGTTGTTGTTACCTTTC</gDNA_template>
            <first_frame> I  S  I  C  A  G  L  Y  C  C  C  W  P  P  L  F  M  F  I  S  I  E  A  E  E  G  *  *  *  P  P  V  D  K  D  P  G  I  A  L  F  *  *  P  *  N  P  P  A  F  K  N  A  A  T  L  L  L  L  L  V  V  V  V  V  V  P  L  L  L  F  P  *  K  P  A  R  F  I  I  E  F  K  S  F  P  P  T  I  P  I  F  A  A  S  L  R  L  T  F  G  P  N  *  A  A  E  A  A  P  F  M  F  I  F  I  A  *  I  A  L  W  S  M  P  P  P  P  G  F  A  F  I  G  I  F  G  L  G  P  V  F  L  P  *  A  A  T  L  L  L  L  P  F </first_frame>
            <second_frame>  L  A  F  V  L  D  C  T  V  V  V  G  L  R  C  S  C  S  L  A  S  R  Q  R  K  D  D  D  D  H  R  W  I  K  I  P  V  *  H  C  F  D  D  L  E  I  H  P  R  S  R  M  Q  Q  R  C  C  Y  C  *  *  *  *  *  *  F  H  C  C  Y  S  H  E  N  Q  Q  D  S  S  L  S  L  S  R  F  L  P  P  F  Q  F  S  Q  P  R  *  G  *  H  L  D  L  I  E  Q  Q  K  Q  H  H  S  C  S  F  S  *  H  E  L  L  F  G  Q  C  H  R  L  R  D  L  P  S  L  A  Y  S  D  *  G  Q  F  S  C  H  E  Q  Q  H  C  C  C  Y  L   </second_frame>
            <third_frame>   *  H  L  C  W  I  V  L  L  L  L  A  S  V  V  H  V  H  *  H  R  G  R  G  R  M  M  M  T  T  G  G  *  R  S  R  Y  S  I  V  L  M  T  L  K  S  T  R  V  Q  E  C  S  N  V  V  V  I  V  S  S  S  S  S  S  S  I  V  V  I  P  M  K  T  S  K  I  H  H  *  V  *  V  V  S  S  H  H  S  N  F  R  S  L  V  E  V  D  I  W  T  *  L  S  S  R  S  S  T  I  H  V  H  F  H  S  M  N  C  S  L  V  N  A  T  A  S  G  I  C  L  H  W  H  I  R  T  R  A  S  F  L  A  M  S  S  N  I  V  V  V  T  F  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C05HBa0168M18.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 5 chains have been computed
$ 
$ memory statistics:
$ 6600 bytes spliced alignments in total
$ 3 spliced alignments have been stored
$ 2200 bytes was the average size of a spliced alignment
$ 5648 bytes predicted gene locations in total
$ 1 predicted gene locations have been stored
$ 5648 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: 2009-01-16 02:20:50
-->
