<?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="2008-02-20 12:19:22"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C12HBa0211M21-cjaUT/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/cxgn-bacpublish-resources-QQ7dXf/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-QQ7dXf/sgn_marker_seqs" ref_id="SGN-M449-F" ref_strand="+" ref_description="SGN-M449-F CT121-F [rflp_markers_forward]">
      <seq>cacctgtcacagttccaccagtaattaaaccatcacctaaagggaaaaaaccttgtccaccaacaacaaaggcaacatgcccaattgacacattgaaacttggggcttgtgtggatcttttaggtgggcttgttcatattgggcttggtgatccagctgttaatgaatgttgtccaatacttagtgggcttgttgaacttgaagctgctgcttgcctttgcacaacacttaaagtcaaattacttaacctcaaaatctatgtacctctagcacttcaactccttgttacttgtggaaagagtccaccacctggctacacttgttccatctaggtttccaatctgaaatttgaagaaattgcatggattgacatgaaaggatgtccaatttatgatttatttaatttctctccaccccaccccacccctcaaaattgtattttatgtattgttttattttggctttgtgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0211M21-cjaUT/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C12HBa0211M21.1" temp_strand="+" temp_description="C12HBa0211M21.1  AC217247.1 htgs_phase:1 submitted_to_sgn_as:C12HBa0211M21 upload_account_name:italy *** WORKING DRAFT SEQUENCE ***">
        <position start="15650" stop="17310"/>
      </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="15950" g_stop="16281" g_length="332"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="332" r_length="332" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16282" i_stop="16872" i_length="591">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="16873" g_stop="17010" g_length="138"/>
          <reference_exon_boundary r_type="cDNA" r_start="333" r_stop="470" r_length="138" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0211M21.1" gen_strand="+" ref_id="SGN-M449-F" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>470</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0211M21.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M449-F" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="15950" e_stop="16281"/>
          <exon e_start="16873" e_stop="17010"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACCAGTCACAGTTCCACCAGTAATTAAACCATCACCTAAAGGGAAAAAACCTTGTCCACCAACAACAAAGGCAACATGCCCAATTGACACATTGAAACTTGGGGCTTGTGTGGATCTTTTAGGTGGGCTTGTTCATATTGGCCTTGGTGATCCAGCTGTTAATGAATGTTGTCCAATACTTAGTGGGCTTGTTGAACTTGAAGCTGCTGCTTGCCTTTGCACAACACTTAAAGTCAAATTACTTAACCTCAAAATCTATGTACCTCTAGCACTTCAACTCCTTGTTACTTGTGGAAAGAGTCCACCACCTGGCTACACTTGTTCCATCTAGGTAATTATAACTTTTCCTCCTCTATTTTTTCACTCGGTATCTGGTACTCGCTTTGCTACCCAACCAATGATCGATAAAGCCTCAAAAAAACGAAGGGTGCTTAGTTATTAAACACCCGTCGTACTACTGTTTAAACATGCTTAGTAAAATTTATGATTTTCACCATCTGACCTGACTAATTTAAATTAGAGGTGAGGTAACGCGACTTCATTTTTAGTGTCGAATATGAAGTCTATAGTTACTTAGGTCCCCATCTTTATTGGTTATTAAGTAAATTTATGTATAGATATTAATTGATAACCTGATAAAAATGATATATATAATTAGTTACTTGTTATTACATATTAACAAATATAGATAATATAGAAATATATTAAACCTGATTTTACCTTGAATTTTAAATCTAAACTTGCGTTGTTATTCATTTGGTCTCTCAGAAAGGGAAAAAAAAGAATAAGATACGAAATTTGCTGCTAATCTATCGCGAAATGAAACATATATTTTTTAATAATTCGTTAGTAACTAGGATTAGCTACGTATTTTTATTGTTAATTAAACTTATTATTAATTTAAATTCTGATTAAATTGCAGGTTTCCAATCTGAAATTTGAAGAAATTGCATGGATTGCCATGAAAGGATGTCCAATTTATGATTTATTTAATTTCTCTCCACCCCACCCCACCCCTCAAAATTGTATTTTATGTATTGTTTTATTTTGGCTTTGTGGA</genome_strand>
        <mrna_strand>CACCTGTCACAGTTCCACCAGTAATTAAACCATCACCTAAAGGGAAAAAACCTTGTCCACCAACAACAAAGGCAACATGCCCAATTGACACATTGAAACTTGGGGCTTGTGTGGATCTTTTAGGTGGGCTTGTTCATATTGGGCTTGGTGATCCAGCTGTTAATGAATGTTGTCCAATACTTAGTGGGCTTGTTGAACTTGAAGCTGCTGCTTGCCTTTGCACAACACTTAAAGTCAAATTACTTAACCTCAAAATCTATGTACCTCTAGCACTTCAACTCCTTGTTACTTGTGGAAAGAGTCCACCACCTGGCTACACTTGTTCCATCTAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCCAATCTGAAATTTGAAGAAATTGCATGGATTGACATGAAAGGATGTCCAATTTATGATTTATTTAATTTCTCTCCACCCCACCCCACCCCTCAAAATTGTATTTTATGTATTGTTTTATTTTGGCTTTGTGGA</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/cxgn-bacpublish-resources-QQ7dXf/sgn_marker_seqs" ref_id="SGN-M389-R" ref_strand="+" ref_description="SGN-M389-R CT48-R [rflp_markers_reverse]">
      <seq>acctgtcacagttccaccagtaattaaaccatcacctaaagggaaaaaaccttgtccaccaacaacaaaggcaacatgcccaattgacacattgaaacttggggcttgtgtggatcttttaggtgggcttgttcatattgggcttggtgatccagctgttaatgaatgttgtccaatacttagtgggcttgttgaacttgaagcgctgcttgcctttgcacaacacttaaagtcaaattacttaacctcaaaatctatgtacctctagcacttcaactccttgttacttgtggaaagagtccaccacctggctacacttgttccatctaggtttccaatctgaaatttgaagaaattgcatggattgacatgaaaggatgtccaatttatgatttatttaatttctctccaccccaccccacccctcaaaattgtattttatgtattgttttattttggctttgtggaattgttatttaatggaattattattattat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0211M21-cjaUT/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C12HBa0211M21.1" temp_strand="+" temp_description="C12HBa0211M21.1  AC217247.1 htgs_phase:1 submitted_to_sgn_as:C12HBa0211M21 upload_account_name:italy *** WORKING DRAFT SEQUENCE ***">
        <position start="15651" stop="17340"/>
      </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="15951" g_stop="16281" g_length="331"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="330" r_length="330" r_score="0.991"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16282" i_stop="16872" i_length="591">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="16873" g_stop="17040" g_length="168"/>
          <reference_exon_boundary r_type="cDNA" r_start="331" r_stop="498" r_length="168" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0211M21.1" gen_strand="+" ref_id="SGN-M389-R" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>499</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0211M21.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M389-R" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="15951" e_stop="16281"/>
          <exon e_start="16873" e_stop="17040"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACCAGTCACAGTTCCACCAGTAATTAAACCATCACCTAAAGGGAAAAAACCTTGTCCACCAACAACAAAGGCAACATGCCCAATTGACACATTGAAACTTGGGGCTTGTGTGGATCTTTTAGGTGGGCTTGTTCATATTGGCCTTGGTGATCCAGCTGTTAATGAATGTTGTCCAATACTTAGTGGGCTTGTTGAACTTGAAGCTGCTGCTTGCCTTTGCACAACACTTAAAGTCAAATTACTTAACCTCAAAATCTATGTACCTCTAGCACTTCAACTCCTTGTTACTTGTGGAAAGAGTCCACCACCTGGCTACACTTGTTCCATCTAGGTAATTATAACTTTTCCTCCTCTATTTTTTCACTCGGTATCTGGTACTCGCTTTGCTACCCAACCAATGATCGATAAAGCCTCAAAAAAACGAAGGGTGCTTAGTTATTAAACACCCGTCGTACTACTGTTTAAACATGCTTAGTAAAATTTATGATTTTCACCATCTGACCTGACTAATTTAAATTAGAGGTGAGGTAACGCGACTTCATTTTTAGTGTCGAATATGAAGTCTATAGTTACTTAGGTCCCCATCTTTATTGGTTATTAAGTAAATTTATGTATAGATATTAATTGATAACCTGATAAAAATGATATATATAATTAGTTACTTGTTATTACATATTAACAAATATAGATAATATAGAAATATATTAAACCTGATTTTACCTTGAATTTTAAATCTAAACTTGCGTTGTTATTCATTTGGTCTCTCAGAAAGGGAAAAAAAAGAATAAGATACGAAATTTGCTGCTAATCTATCGCGAAATGAAACATATATTTTTTAATAATTCGTTAGTAACTAGGATTAGCTACGTATTTTTATTGTTAATTAAACTTATTATTAATTTAAATTCTGATTAAATTGCAGGTTTCCAATCTGAAATTTGAAGAAATTGCATGGATTGCCATGAAAGGATGTCCAATTTATGATTTATTTAATTTCTCTCCACCCCACCCCACCCCTCAAAATTGTATTTTATGTATTGTTTTATTTTGGCTTTGTGGAATTGTTATTTAATGGAATTATTATTATTAT</genome_strand>
        <mrna_strand>ACCTGTCACAGTTCCACCAGTAATTAAACCATCACCTAAAGGGAAAAAACCTTGTCCACCAACAACAAAGGCAACATGCCCAATTGACACATTGAAACTTGGGGCTTGTGTGGATCTTTTAGGTGGGCTTGTTCATATTGGGCTTGGTGATCCAGCTGTTAATGAATGTTGTCCAATACTTAGTGGGCTTGTTGAACTTGAAGC-GCTGCTTGCCTTTGCACAACACTTAAAGTCAAATTACTTAACCTCAAAATCTATGTACCTCTAGCACTTCAACTCCTTGTTACTTGTGGAAAGAGTCCACCACCTGGCTACACTTGTTCCATCTAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCCAATCTGAAATTTGAAGAAATTGCATGGATTGACATGAAAGGATGTCCAATTTATGATTTATTTAATTTCTCTCCACCCCACCCCACCCCTCAAAATTGTATTTTATGTATTGTTTTATTTTGGCTTTGTGGAATTGTTATTTAATGGAATTATTATTATTAT</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/cxgn-bacpublish-resources-QQ7dXf/sgn_marker_seqs" ref_id="SGN-M449-R" ref_strand="-" ref_description="SGN-M449-R CT121-R [rflp_markers_reverse]">
      <seq>taattaaaccatcacctaaagggaaaaaaccttgtccaccaacaacaaaggcaacatgcccaattgacacattgaaacttggggcttgtgtggatcttttaggtgggcttgttcatattgggcttggtgatccagctgttaatgaatgttgtccaatacttagtgggcttgttgaacttgaagctgctgcttgcctttgcacaacacttaaagtcaaattacttaacctcaaaatctatgtacctctagcacttcaactccttgttacttgtggaaagagtccaccacctggctacacttgttccatctaggtttccaatctgaaatttgaagaaattgcatggattgacatgaaaggatgtccaatttatgatttatttaatttctctccaccccaccccacccctcaaaattgtattttatgtattgttttattttggctttgtggaattgttatttaatggaattattattattattatcaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0211M21-cjaUT/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C12HBa0211M21.1" temp_strand="+" temp_description="C12HBa0211M21.1  AC217247.1 htgs_phase:1 submitted_to_sgn_as:C12HBa0211M21 upload_account_name:italy *** WORKING DRAFT SEQUENCE ***">
        <position start="15671" stop="17345"/>
      </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="15971" g_stop="16281" g_length="311"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="311" r_length="311" r_score="0.997"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16282" i_stop="16872" i_length="591">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="16873" g_stop="17052" g_length="180"/>
          <reference_exon_boundary r_type="cDNA" r_start="312" r_stop="491" r_length="180" r_score="0.967"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0211M21.1" gen_strand="+" ref_id="SGN-M449-R" ref_strand="-">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>491</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0211M21.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M449-R" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="15971" e_stop="16281"/>
          <exon e_start="16873" e_stop="17052"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAATTAAACCATCACCTAAAGGGAAAAAACCTTGTCCACCAACAACAAAGGCAACATGCCCAATTGACACATTGAAACTTGGGGCTTGTGTGGATCTTTTAGGTGGGCTTGTTCATATTGGCCTTGGTGATCCAGCTGTTAATGAATGTTGTCCAATACTTAGTGGGCTTGTTGAACTTGAAGCTGCTGCTTGCCTTTGCACAACACTTAAAGTCAAATTACTTAACCTCAAAATCTATGTACCTCTAGCACTTCAACTCCTTGTTACTTGTGGAAAGAGTCCACCACCTGGCTACACTTGTTCCATCTAGGTAATTATAACTTTTCCTCCTCTATTTTTTCACTCGGTATCTGGTACTCGCTTTGCTACCCAACCAATGATCGATAAAGCCTCAAAAAAACGAAGGGTGCTTAGTTATTAAACACCCGTCGTACTACTGTTTAAACATGCTTAGTAAAATTTATGATTTTCACCATCTGACCTGACTAATTTAAATTAGAGGTGAGGTAACGCGACTTCATTTTTAGTGTCGAATATGAAGTCTATAGTTACTTAGGTCCCCATCTTTATTGGTTATTAAGTAAATTTATGTATAGATATTAATTGATAACCTGATAAAAATGATATATATAATTAGTTACTTGTTATTACATATTAACAAATATAGATAATATAGAAATATATTAAACCTGATTTTACCTTGAATTTTAAATCTAAACTTGCGTTGTTATTCATTTGGTCTCTCAGAAAGGGAAAAAAAAGAATAAGATACGAAATTTGCTGCTAATCTATCGCGAAATGAAACATATATTTTTTAATAATTCGTTAGTAACTAGGATTAGCTACGTATTTTTATTGTTAATTAAACTTATTATTAATTTAAATTCTGATTAAATTGCAGGTTTCCAATCTGAAATTTGAAGAAATTGCATGGATTGCCATGAAAGGATGTCCAATTTATGATTTATTTAATTTCTCTCCACCCCACCCCACCCCTCAAAATTGTATTTTATGTATTGTTTTATTTTGGCTTTGTGGAATTGTTATTTAATGGAATTATTATTATTATTATCATTATTAC</genome_strand>
        <mrna_strand>TAATTAAACCATCACCTAAAGGGAAAAAACCTTGTCCACCAACAACAAAGGCAACATGCCCAATTGACACATTGAAACTTGGGGCTTGTGTGGATCTTTTAGGTGGGCTTGTTCATATTGGGCTTGGTGATCCAGCTGTTAATGAATGTTGTCCAATACTTAGTGGGCTTGTTGAACTTGAAGCTGCTGCTTGCCTTTGCACAACACTTAAAGTCAAATTACTTAACCTCAAAATCTATGTACCTCTAGCACTTCAACTCCTTGTTACTTGTGGAAAGAGTCCACCACCTGGCTACACTTGTTCCATCTAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCCAATCTGAAATTTGAAGAAATTGCATGGATTGACATGAAAGGATGTCCAATTTATGATTTATTTAATTTCTCTCCACCCCACCCCACCCCTCAAAATTGTATTTTATGTATTGTTTTATTTTGGCTTTGTGGAATTGTTATTTAATGGAATTATTATTATTATTATCAAAAAAAA</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="15950" PGL_stop="17052"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="15950" e_stop="16281"/>
            <exon e_start="16873" e_stop="17052"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.997" acc_prob="1.000" e_score="0.997"/>
          <exon-only e_score="0.994"/>
        </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="0.997">
            <gDNA_exon_boundary e_start="15950" e_stop="16281" e_length="332"/>
          </exon>
          <intron i_serial="1" don_prob="0.997" acc_prob="1.000">
            <gDNA_intron_boundary i_start="16282" i_stop="16872" i_length="591"/>
          </intron>
          <exon e_serial="2" e_score="0.994">
            <gDNA_exon_boundary e_start="16873" e_stop="17052" e_length="180"/>
          </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="15950" stop="16281"/>
              <exon start="16873" stop="17010"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M449-F" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="15951" stop="16281"/>
              <exon start="16873" stop="17040"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M389-R" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="15971" stop="16281"/>
              <exon start="16873" stop="17052"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M449-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>CACCAGTCACAGTTCCACCAGTAATTAAACCATCACCTAAAGGGAAAAAACCTTGTCCACCAACAACAAAGGCAACATGCCCAATTGACACATTGAAACTTGGGGCTTGTGTGGATCTTTTAGGTGGGCTTGTTCATATTGGCCTTGGTGATCCAGCTGTTAATGAATGTTGTCCAATACTTAGTGGGCTTGTTGAACTTGAAGCTGCTGCTTGCCTTTGCACAACACTTAAAGTCAAATTACTTAACCTCAAAATCTATGTACCTCTAGCACTTCAACTCCTTGTTACTTGTGGAAAGAGTCCACCACCTGGCTACACTTGTTCCATCTAG : GTTTCCAATCTGAAATTTGAAGAAATTGCATGGATTGCCATGAAAGGATGTCCAATTTATGATTTATTTAATTTCTCTCCACCCCACCCCACCCCTCAAAATTGTATTTTATGTATTGTTTTATTTTGGCTTTGTGGAATTGTTATTTAATGGAATTATTATTATTATTATCATTATTAC</gDNA_template>
            <first_frame> H  Q  S  Q  F  H  Q  *  L  N  H  H  L  K  G  K  N  L  V  H  Q  Q  Q  R  Q  H  A  Q  L  T  H  *  N  L  G  L  V  W  I  F  *  V  G  L  F  I  L  A  L  V  I  Q  L  L  M  N  V  V  Q  Y  L  V  G  L  L  N  L  K  L  L  L  A  F  A  Q  H  L  K  S  N  Y  L  T  S  K  S  M  Y  L  *  H  F  N  S  L  L  L  V  E  R  V  H  H  L  A  T  L  V  P  S  R :   F  P  I  *  N  L  K  K  L  H  G  L  P  *  K  D  V  Q  F  M  I  Y  L  I  S  L  H  P  T  P  P  L  K  I  V  F  Y  V  L  F  Y  F  G  F  V  E  L  L  F  N  G  I  I  I  I  I  I  I  I   </first_frame>
            <second_frame>  T  S  H  S  S  T  S  N  *  T  I  T  *  R  E  K  T  L  S  T  N  N  K  G  N  M  P  N  *  H  I  E  T  W  G  L  C  G  S  F  R  W  A  C  S  Y  W  P  W  *  S  S  C  *  *  M  L  S  N  T  *  W  A  C  *  T  *  S  C  C  L  P  L  H  N  T  *  S  Q  I  T  *  P  Q  N  L  C  T  S  S  T  S  T  P  C  Y  L  W  K  E  S  T  T  W  L  H  L  F  H  L   : G  F  Q  S  E  I  *  R  N  C  M  D  C  H  E  R  M  S  N  L  *  F  I  *  F  L  S  T  P  P  H  P  S  K  L  Y  F  M  Y  C  F  I  L  A  L  W  N  C  Y  L  M  E  L  L  L  L  L  S  L  L  </second_frame>
            <third_frame>   P  V  T  V  P  P  V  I  K  P  S  P  K  G  K  K  P  C  P  P  T  T  K  A  T  C  P  I  D  T  L  K  L  G  A  C  V  D  L  L  G  G  L  V  H  I  G  L  G  D  P  A  V  N  E  C  C  P  I  L  S  G  L  V  E  L  E  A  A  A  C  L  C  T  T  L  K  V  K  L  L  N  L  K  I  Y  V  P  L  A  L  Q  L  L  V  T  C  G  K  S  P  P  P  G  Y  T  C  S  I  *  :  V  S  N  L  K  F  E  E  I  A  W  I  A  M  K  G  C  P  I  Y  D  L  F  N  F  S  P  P  H  P  T  P  Q  N  C  I  L  C  I  V  L  F  W  L  C  G  I  V  I  *  W  N  Y  Y  Y  Y  Y  H  Y  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/">
            <orf_entry>
              <id_line>
                <gDNA id="C12HBa0211M21.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="15952" stop="16281"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>327</number_coding_nucleotides>
                  <number_encoded_amino_acids>109</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>PVTVPPVIKPSPKGKKPCPPTTKATCPIDTLKLGACVDLLGGLVHIGLGDPAVNECCPILSGLVELEAAACLCTTLKVKLLNLKIYVPLALQLLVTCGKSPPPGYTCSI*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 6 chains have been computed
$ 
$ memory statistics:
$ 6840 bytes spliced alignments in total
$ 3 spliced alignments have been stored
$ 2280 bytes was the average size of a spliced alignment
$ 5560 bytes predicted gene locations in total
$ 1 predicted gene locations have been stored
$ 5560 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: 2008-02-20 12:19:24
-->
