<?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="2009-01-15 17:24:03"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04HBa0066O12-pky8R/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04HBa0066O12-pky8R/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-C04HBa0066O12-pky8R/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M6684" ref_strand="+" ref_description="SGN-M6684 C2_At1g22750 [cosii_markers]">
      <seq>agcaatggccttctcacattttctccccttttcagtacgctacctttctctcttctgcaacactcgaagacgaagaccgaatactcaaaaatggcagcaactttagcaattgcattgaagagtctcttctctgtgttgggatgtttgattacagccaccgtaatatacaccgtcgccactgatggccttcctttccgcatagaactccttaccccgtggatggcagctaccctgatagatttctacatccacatatttgttatatggtcttgggttgtctacaaggaatcaaactggattactgcaatactttgggtggtcttgctagtatgtttgggaagcattgctacatgtggctacatcgtgttgcaatttcttaagctttcaactcaggaatctttacaggatccaatttactttgtcctattacgacgtcaggaaaagactgaaacagaacaacagaagaaatgttctcttttaactgcaagaattctatttcctgctttgggctgtctgatgctagggacattgatttacaccattgtaactgatggttctccatttcgcagagatgtttttactccgtgggtgatagcaacagtgattgatttctatgttggtgttgtggctctctcggtttgggttgcttataaaggatcaagttggctgagtgcagctttatggataatacttattatttgttctggcagcatcagcacatgtggcctatatagctcttcagcttttcaatctttcatctcaagatcccgtctaccttgttctttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0066O12-pky8R/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C04HBa0066O12.1" temp_strand="-" temp_description="C04HBa0066O12.1  CU468256.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0066O12 upload_account_name:france">
        <position start="17436" stop="9917"/>
      </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="17136" g_stop="16922" g_length="215"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="215" r_length="215" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="16921" i_stop="15586" i_length="1336">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="15585" g_stop="15534" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="216" r_stop="267" r_length="52" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="15533" i_stop="15172" i_length="362">
            <donor d_prob="0.904" d_score="1.00"/>
            <acceptor a_prob="0.318" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="15171" g_stop="15098" g_length="74"/>
          <reference_exon_boundary r_type="cDNA" r_start="268" r_stop="341" r_length="74" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="15097" i_stop="14137" i_length="961">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.771" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="14136" g_stop="14035" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="342" r_stop="443" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="14034" i_stop="12698" i_length="1337">
            <donor d_prob="0.957" d_score="1.00"/>
            <acceptor a_prob="0.946" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="12697" g_stop="12557" g_length="141"/>
          <reference_exon_boundary r_type="cDNA" r_start="444" r_stop="584" r_length="141" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="12556" i_stop="11506" i_length="1051">
            <donor d_prob="0.941" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="11505" g_stop="11454" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="585" r_stop="636" r_length="52" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="11453" i_stop="11247" i_length="207">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.986" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="11246" g_stop="11173" g_length="74"/>
          <reference_exon_boundary r_type="cDNA" r_start="637" r_stop="710" r_length="74" r_score="0.959"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="11172" i_stop="10292" i_length="881">
            <donor d_prob="0.724" d_score="0.98"/>
            <acceptor a_prob="0.873" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="10291" g_stop="10217" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="711" r_stop="786" r_length="76" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0066O12.1" gen_strand="-" ref_id="SGN-M6684" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>785</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0066O12.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M6684" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="17136" e_stop="16922"/>
          <exon e_start="15585" e_stop="15534"/>
          <exon e_start="15171" e_stop="15098"/>
          <exon e_start="14136" e_stop="14035"/>
          <exon e_start="12697" e_stop="12557"/>
          <exon e_start="11505" e_stop="11454"/>
          <exon e_start="11246" e_stop="11173"/>
          <exon e_start="10291" e_stop="10217"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCAATGGCCTTCTCACATTTTCTCCCCTTTTCAGTACGCTTCCTTTCTCTCTTCTGCAACACTCGAAGACGAAGACCGAATACTCAAAAATGGCAGCAACTTTAGCAATTGCATTGAAGAGTCTCTTCTCTGTGTTGGGATGTTTGATTACAGCCACCGTAATATACACCGTCGCCACTGATGGCCTTCCTTTCCGCATAGAACTCCTTACCCCGTATTATCCTTTTCTCTCTCTCTCTCTGTCATACTAATCCTACCTTGAATTTCATTTTTTTTTGGATTATTAATGCTCCTGTTTGGATGAATTGGGGTTTGAATCTTTATCAGTACCAAAATTTGTTGAATTATGGATATAGAAAGTCAAAAGCCCTATCTAAATGCTTAAATTATTCAAAAAAGGATCACTTTTAGTTACATTTTTATATTTTGAACGCCTAAACCTGGATTTCTTTCTCCTCACCTTTACTAAGACTGTTTGGATGATTTTAAGCATTGTTTCGTGTTATACTGTATCTTTTTAATGAATATAATGTTTGGATAGATTGTATTGTTCTAATGTCACACTTCAGGAATTTGAGTTATAAACTTACAAGAAAAGTGTGCTAATATGAAAAATGTAGAATAAGATTATTAAATAACATATAAAGACAAAAAGAGAAGAAAATATTAAAGGGATGACACGATCACACCAAATTAGTGGTTACATAAAATGAGATTTTTAATTGTTACAATATCATACAATAGAATTTAAGTAACGATCAAAATGAACATTGTATTTAAATTAACAATATAATACGATGGGTAACAACCATCCAAACAAGGTGTAAAAGTTCAAGCTGCTAGAAATAAGACACTCTCTGGATTTCAATTTATTTGTCATACTTTCTCTTTTCGTTCGTTTATACAGGAATGCTCCTTTTCCTTTTTAGCAATTCTTTAATTCTAACTTTGCACGAGACTTCTTTAAGACCGCAAGATTAAAATGTATTTTGATTTATTTGACAAATCTTTAGTTCAGAAGTTCCTTTTCCTTCCTTCAACTTGGTACCAAGTTAAAACAGGACAAGCAAATTGAAACCGAGGGAGTGACTTTTTTTAATTAATTATGTGTTTAGTTATCTTATAGTAGTCCCTCATTCTCATTTTATTGTGAAGTTGTTACTGTTTGGAGAGTCCAACACTTTTTTTATTTCAACTTTCTCAAACTTCGTTTGAATATTTTGAATCATTAGCTATGTTGATTTGCACTGCTTTTCATGTAGTTTACGAATAGAACAGTTCTATTTTTAAAAAAATGAAGAATCTATACCCAAATTCATACTCAAAATAAGATTTCTGACCCTTGTACTCCGACAGAGGAGTAATATTTCTTTTGAAAACGGTTAAGAAAAAGGAACTAACTTGAAATTGAGATTTTGATTTGAAAAACAGTTTAGTCCCATCTGTATTCTTGATGTTGTTATTAATACCACTTACCTTGTCAAAAAAATAAATAGTTCAGTTCCATCTGCTTTCCAGACAATCTGAAATGAGTGGGATGAATCTTGCAGGTGGATGGCAGCTACCCTGATAGATTTCTACATCCACATATTTGTTATATGGGTATGCCATGATTAATTTAATGCTTCAAAATGTTTCATATGTGAACCTTTATTCTAAAGTCAATTGCATTTTATTTTTCTACAGTTTCACTAGCATTAAATAATGAGGAGAACATGTTTAATTTGGCGCACCTACTATGTTAGATGTCAGAGATATAAATGGTATAGGAGTTAGAGCTATAAATGTTATAAAGGTTAAGATTCTCAGACATTTGTGCAAGGGTTTTAACTGCATTGTAAACAATATTTTTATTCCAAGACATTGGCCAGAATGCATCACATGTTACTATGTTTCTCTGCTCTTAACATCTAAGAGCAGAACCGCAAAAGCAATGCTCTCATGTTTTGGTGTGGTGTTTTCAGTCTTGGGTTGTCTACAAGGAATCAAACTGGATTACTGCAATACTTTGGGTGGTCTTGCTAGTATGTTTGGGAAGGTATGCCACCCCTATTCCTGTATATAGAACAACTTTGATGTACTTTTAGTTTCAGATGATGACTGTTCTTTAAGCTTTCTCTTAGCATCTCTTATATGACTAAATTCTCAGGTTGAATAGGTCTCTATCTGTTGACATACACTGTTTTTTGTCTTCACCCATGGGCATTACAGTCTTAGGATTGATGTTCCCAATTATTTATATCTTGTGTTCGCTGCTATGAATTCCCTTCGTATATAGATAACTTCCTTGATGATATACCCAGTCAATCAATCAACTATACATCAAGCAGAACTAGGTCCGCGATTTGAATTCTCTACATATTTCTTGCTATTTGGGCCCACATCATTCCAATACTATCTAGAAGTTTGTCTTGTAAGGCAAAGTTCAAGAAAATCTCTAAATGTCACACTTATGAATCTAATATTTGTGCAAAAGCATAAATTAAGCGTCAATGCACACTAGTTGGTCTTATTGATTTGGATCTTTTCTTCCATGTTACTTTTTCAGATTTGCAATGATTCCTAGATTTTTTAGGTCTTTTCAGACAACCTCCTCCATGTGATTTAGGCCTTTCTCATCCCCTTCAGCACCTTCAATCACCATGTTACGCCAGTTAACTGGTGTATATTTGATGTATTTTAGGTCTATCAAAGATGACTTTCTCTTACTATATCCTCTATGTGTGCAACTGCACCCTTTGTTTCAACATATATTCAATTTTGTATGACTGCACATTTACCTTGATGTCTTTTGGCAACTTGTATTGCATAGGATACAAATTTTCTTGCATTCCAGTGTTGATGACTGTCTTCCTTTTCAGTTTGTATTATCCTTGCATGTCATCAGAAGGCCATGTTGTCATTGCCCCTACAAAGTTCAATCAATATCATGCATAAATTGCCAGTTTGTGATTATATATTCAGGGATGGTGATAACATTCTCTCTACTCCCTTTACAGCATTGCTACATGTGGCTACATCGTGTTGCAATTTCTTAAGCTTTCAACTCAGGAATCTTTACAGGATCCAATTTACTTTGTCCTATTACGACGTCAGGAAAAGTGAGTAGATATTTGCACAAAGTTCTTTTTTCCTTCATAGTTTCTGTTTTTATTTCTCTTTGGAGACCAGAAAAAGAAAAAGAGAGTTCAATTGGAAATGATATTTAGTTCATATATTTTCATGTATGCATGTCCAACTGTTTGAGGATACTCGTGAAACTGAAATATCATGCACAAGTTTGGTGTTTGGTTGGAGAATATATTTGCAAATGTAATATATAACTGTTGTTAACAAGAGCTACTCTTGTTGTTTTTGCTTCAGTTGCGTATCATGCCTGTTGTTTTGTTCAGAGTAGACATGTAGTGAAAATATCTAGAAAAATGTGGTTCTCAGAATAAAAGAAATGAAATTACATCTCTTCACAGGTCAAGACAATGGTGGAAACATAGCTTGTACTGGGTCTGGCATATTTATGTTCATTGTTCATTGTTTTACTCTTTATTGATCATATACTTATAGAGGTAAAGTCAAAGAATGTAAATATCACACTTGGGTTTATCAAACTTTGGCATTTGTCTTGGACAAGAATAGTGTTCAAATGCCTCATCCCCATCTTGGAAAAATGAAGTTTTCAATCATAGGGAGAAAACAGATTAGTCAACGAAATGTTGCATCCTCCATTTGTGCAGGAGGAATTGCCAGTTGAATACTTTAAATATGTGCCTGGTTTATTTGTTAGATACATCTTCCATTTTGTTAGTAGAGTTAGATAAAAGGTAACTGTGACTTTAATGTTATTTGAGTCGTTTAATTATTCACATATTGGGAAAAGAAACTAAAATCAAGTATTCTCAACAATAAAAAATACAAGTATCTTATCAGCAATATACTAAAGAGATGAAAAATTTGTGATTCGTTTTGTTATTTAGTGACGAGTGTTGTCTTTCTCAGTACTTAGTATGTCATATGTAGTTTCCGAAATCAAAGTACTATTATGTATACCACTTCTTAAGAATATTGGCTTCTTTTATATATCAGTCATCCAAGATCTTTTAGTGGAATTACAATGGTGCTTCTAACTGCAAGTTGGATCATTCATTTCATACTGTGTTTTCTAGTTACCCTTGTTGTGGTTGTTTCTTTTGTACAAGCCCTGCTGTGTACTACGTTATCAGGTCATATAGTCATGACATGTATTGATAACCTACTCTTTGCCGAAAATAATTATACAAAGCTGTAACTGATAGAGTGTTCCTTTAAAAAATATAATATGCAAGTGTTCATGGAGTTTGAAGCTTTCCTCATCAATGTTGTATTAGTGGCACCTATATTTTGTTAGTTTTCTTTGTGAAAATGACCTTAACTTATAATGATCTGATGAGATGTTGTGATTTAGGACTGAAACAGAACAACAGAAGAAATGTTCTCTTTTAACTGCAAGAATTCTATTTCCTGCTTTGGGCTGTCTGATGCTAGGGACATTGATTTACACCATTGTAACTGATGGTTCTCCATTTCGCAGAGATGTTTTTACTCCGTAAGTTATTTGTTTGTTTATTTATTCCTATTTAAAACAGATACCATCAACCTTGTTTTTTTCTGGTTAAATGGAGACTTTGCTACCGATTTTGAGGATAGCAGCATTGGCGGAGAACTTTGTCGGTGCTTGAAAGTTTTGTTTGTTTTCTTGTTTGAACTATAATTAGATCTCCGCTCTGCTGCTTTCTAAATTGATGCACTTTATGGGGAAGTAGCATAAACCTCTCGTAACTGGAAGTTTTTGTGCTATTGTGGAGGAAAACTCCCTTTTCATTTATTCAATGTCATATCAGCATTTTATTTATTTAAGGAAGTATATATGTCTTCCTGGAATGAGTTCCTAAATGAGAGAATATCTGCACTACAGTGATTCGAAGGTTGGGATGAGGTTACTGAAAATGACTTGTGCTCTCAGAATGTATAAAATTTCTATTAATAATATTGCCTCTCTCATTTTTCATGAACAAGGACTATTGATGATTTCTTACCTCATGTTAATCGTTTAATCCTTATTTGTTTCTTACCGTGTTAACTTTAAATATTATAACATATGATTAGACTGATCTATGGTGAGCTTTATAACTTTTCCCTATGTAACATGATACTACCTTCAGTGTGACATATGTCGGATAATATGGTATCTATGGTATTTCGAACTCTATTTCTCTGATGCTAAATTTCAATCGGAATTTTTGTATTAATTATCCTCTTCTTTGGTTTGCAAAGTCTAACTAAAATAAGCTCTTTCTTCCTCTAAATGGATTCACTATGTACAGGTCATTCTTAGGGCCTAGATTCATGAAACTTATCAGCATTTCCTCTCTCTACTCTGGTTGATGTCGTGCAACCCTAGAAAATTGTCTTCTTCTTTGTCCAAGGGGCTGCGGTCTATCATTTGCAAATTTGTTTAGAAGTTGTTCTGGAAAACAAACTTCATGAGTTTGTGCAGAAGTAATACATATGCATCCTCTTACATCAGCCGATTATAATTTTCTGCTTGGTATAAGTCTTACTTTGACATGCAATTTAAGAAGTCAATTTATGTGCAGGTGGGTGATAGCAACAGTGATTGATTTCTATGTTGGTGTTGTGGCTCTCTCGGTAAGCTTTTCACTGTTCATCTGCCTTTTTTTAAAATAATTTTTTTTTGGGAAATTCCCCTCTATTTATCTACCTTTGCTTTAGGAAGTCCAAAGTTTGTAAAATTCGATATATGGCTAGAGCCAGTTGCTGCATTAGGTGTCAAAATCATCAGTTAGGACTTTTCATGTGATTATTTATCTTAGATGAGTTGCACTGTTTTTTCAGGTTTGGGTTGCTTATAAGGAATCAAGTTGGCTGAGTGCAGCTTTATGGATAATACTTATAATTTGTTCTGGCAGGTACATGTTTTTTTTGGATAATGCATAAATTGTACTCCTCCATTCCATTTTATACGATGTAGTTTGACTGGACATGGAGTTTTAGAAATATGGAAATATTTTGCAATCTTTCAAAACTACTCTCTAAAAGAAATAATTTTTTAAATAGAAGTCGTGTACACCTATTGGAATTTTTGTCAAATAAACAGGATCCAACATGGGTAAAATGTAGATAGTGTCATTAAATATTTGCCAATTAAGGAAATATGTCAATTCTTTTTGGGCAAACTAGAAAGAAAAATGTGTCATATACATTGGAGCAGAGGGAGTATCAGTTTGAAGTTAGCTTCATCAGTACATCGTCTTATTTGTTGCTCTATGTAGGTGAAAGCAAAATATGAACTCTCATTCATATGTAATGGAATGAGGAGGAGTTCATATATATATGTGTTTGCATGCCTTAATGTGATTCTGAATGAGAAGAGGTTCTGTGAATTTGTCGAAATAACTTAAAAGATCTTGCTTGTTTGGCAAGAAGTCAATTAATATTTCAGCCTTTGCCTATGGCAACAACTTCATTAATAACTAATCTGCATTATTACCTTCTTCCATGCATTAAGCTTTAAGTTTTTAGAGTTCTCCTAAACATGAGTTAATATTCCATCATGAATAACCATAGTTCAATCTAGTTAGTATTTCCTAGACTTTATATTCCTTCAACTATATGTCTGTAAAGGACGACTTCATTATTTTCTATTGTGTTTCTTTTTCTCATGCCGGCAATTTTCTGGTCCCTCAAAAACTGATGGCACTTTTTCCGGCTATATTTATATGATATGTTACAACAATTTGTTTTTGGACCATAATTATATCTAATTCGTGCTTTGTGTTGATTTCCTCAGCATCAGCACATGT-GCCTATATAGCTCTTCAGCTTTTCAATCTTTCATCTCAAGATCCCGTCTACCTTGTTCTTTT</genome_strand>
        <mrna_strand>AGCAATGGCCTTCTCACATTTTCTCCCCTTTTCAGTACGCTACCTTTCTCTCTTCTGCAACACTCGAAGACGAAGACCGAATACTCAAAAATGGCAGCAACTTTAGCAATTGCATTGAAGAGTCTCTTCTCTGTGTTGGGATGTTTGATTACAGCCACCGTAATATACACCGTCGCCACTGATGGCCTTCCTTTCCGCATAGAACTCCTTACCCC........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGGATGGCAGCTACCCTGATAGATTTCTACATCCACATATTTGTTATATGG..........................................................................................................................................................................................................................................................................................................................................................................TCTTGGGTTGTCTACAAGGAATCAAACTGGATTACTGCAATACTTTGGGTGGTCTTGCTAGTATGTTTGGGAAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CATTGCTACATGTGGCTACATCGTGTTGCAATTTCTTAAGCTTTCAACTCAGGAATCTTTACAGGATCCAATTTACTTTGTCCTATTACGACGTCAGGAAAA.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACTGAAACAGAACAACAGAAGAAATGTTCTCTTTTAACTGCAAGAATTCTATTTCCTGCTTTGGGCTGTCTGATGCTAGGGACATTGATTTACACCATTGTAACTGATGGTTCTCCATTTCGCAGAGATGTTTTTACTCC...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGGGTGATAGCAACAGTGATTGATTTCTATGTTGGTGTTGTGGCTCTCTCG...............................................................................................................................................................................................................GTTTGGGTTGCTTATAAAGGATCAAGTTGGCTGAGTGCAGCTTTATGGATAATACTTATTATTTGTTCTGGCAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CATCAGCACATGTGGCCTATATAGCTCTTCAGCTTTTCAATCTTTCATCTCAAGATCCCGTCTACCTTGTTCTTTT</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="17136" PGL_stop="10217"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="17136" e_stop="16922"/>
            <exon e_start="15585" e_stop="15534"/>
            <exon e_start="15171" e_stop="15098"/>
            <exon e_start="14136" e_stop="14035"/>
            <exon e_start="12697" e_stop="12557"/>
            <exon e_start="11505" e_stop="11454"/>
            <exon e_start="11246" e_stop="11173"/>
            <exon e_start="10291" e_stop="10217"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.974" e_score="0.995"/>
          <exon-intron don_prob="0.904" acc_prob="0.318" e_score="1.000"/>
          <exon-intron don_prob="0.996" acc_prob="0.771" e_score="1.000"/>
          <exon-intron don_prob="0.957" acc_prob="0.946" e_score="1.000"/>
          <exon-intron don_prob="0.941" acc_prob="0.996" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.986" e_score="1.000"/>
          <exon-intron don_prob="0.724" acc_prob="0.873" e_score="0.959"/>
          <exon-only e_score="0.973"/>
        </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="0.995">
            <gDNA_exon_boundary e_start="17136" e_stop="16922" e_length="215"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.974">
            <gDNA_intron_boundary i_start="16921" i_stop="15586" i_length="1336"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="15585" e_stop="15534" e_length="52"/>
          </exon>
          <intron i_serial="2" don_prob="0.904" acc_prob="0.318">
            <gDNA_intron_boundary i_start="15533" i_stop="15172" i_length="362"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="15171" e_stop="15098" e_length="74"/>
          </exon>
          <intron i_serial="3" don_prob="0.996" acc_prob="0.771">
            <gDNA_intron_boundary i_start="15097" i_stop="14137" i_length="961"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="14136" e_stop="14035" e_length="102"/>
          </exon>
          <intron i_serial="4" don_prob="0.957" acc_prob="0.946">
            <gDNA_intron_boundary i_start="14034" i_stop="12698" i_length="1337"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="12697" e_stop="12557" e_length="141"/>
          </exon>
          <intron i_serial="5" don_prob="0.941" acc_prob="0.996">
            <gDNA_intron_boundary i_start="12556" i_stop="11506" i_length="1051"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="11505" e_stop="11454" e_length="52"/>
          </exon>
          <intron i_serial="6" don_prob="0.997" acc_prob="0.986">
            <gDNA_intron_boundary i_start="11453" i_stop="11247" i_length="207"/>
          </intron>
          <exon e_serial="7" e_score="0.959">
            <gDNA_exon_boundary e_start="11246" e_stop="11173" e_length="74"/>
          </exon>
          <intron i_serial="7" don_prob="0.724" acc_prob="0.873">
            <gDNA_intron_boundary i_start="11172" i_stop="10292" i_length="881"/>
          </intron>
          <exon e_serial="8" e_score="0.973">
            <gDNA_exon_boundary e_start="10291" e_stop="10217" e_length="75"/>
          </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="17136" stop="16922"/>
              <exon start="15585" stop="15534"/>
              <exon start="15171" stop="15098"/>
              <exon start="14136" stop="14035"/>
              <exon start="12697" stop="12557"/>
              <exon start="11505" stop="11454"/>
              <exon start="11246" stop="11173"/>
              <exon start="10291" stop="10217"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M6684" 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>AGCAATGGCCTTCTCACATTTTCTCCCCTTTTCAGTACGCTTCCTTTCTCTCTTCTGCAACACTCGAAGACGAAGACCGAATACTCAAAAATGGCAGCAACTTTAGCAATTGCATTGAAGAGTCTCTTCTCTGTGTTGGGATGTTTGATTACAGCCACCGTAATATACACCGTCGCCACTGATGGCCTTCCTTTCCGCATAGAACTCCTTACCCC : GTGGATGGCAGCTACCCTGATAGATTTCTACATCCACATATTTGTTATATGG : TCTTGGGTTGTCTACAAGGAATCAAACTGGATTACTGCAATACTTTGGGTGGTCTTGCTAGTATGTTTGGGAAG : CATTGCTACATGTGGCTACATCGTGTTGCAATTTCTTAAGCTTTCAACTCAGGAATCTTTACAGGATCCAATTTACTTTGTCCTATTACGACGTCAGGAAAA : GACTGAAACAGAACAACAGAAGAAATGTTCTCTTTTAACTGCAAGAATTCTATTTCCTGCTTTGGGCTGTCTGATGCTAGGGACATTGATTTACACCATTGTAACTGATGGTTCTCCATTTCGCAGAGATGTTTTTACTCC : GTGGGTGATAGCAACAGTGATTGATTTCTATGTTGGTGTTGTGGCTCTCTCG : GTTTGGGTTGCTTATAAGGAATCAAGTTGGCTGAGTGCAGCTTTATGGATAATACTTATAATTTGTTCTGGCAG : CATCAGCACATGTGCCTATATAGCTCTTCAGCTTTTCAATCTTTCATCTCAAGATCCCGTCTACCTTGTTCTTTT</gDNA_template>
            <first_frame> S  N  G  L  L  T  F  S  P  L  F  S  T  L  P  F  S  L  L  Q  H  S  K  T  K  T  E  Y  S  K  M  A  A  T  L  A  I  A  L  K  S  L  F  S  V  L  G  C  L  I  T  A  T  V  I  Y  T  V  A  T  D  G  L  P  F  R  I  E  L  L  T  P :   W  M  A  A  T  L  I  D  F  Y  I  H  I  F  V  I  W  :  S  W  V  V  Y  K  E  S  N  W  I  T  A  I  L  W  V  V  L  L  V  C  L  G  S :   I  A  T  C  G  Y  I  V  L  Q  F  L  K  L  S  T  Q  E  S  L  Q  D  P  I  Y  F  V  L  L  R  R  Q  E  K :   T  E  T  E  Q  Q  K  K  C  S  L  L  T  A  R  I  L  F  P  A  L  G  C  L  M  L  G  T  L  I  Y  T  I  V  T  D  G  S  P  F  R  R  D  V  F  T  P :   W  V  I  A  T  V  I  D  F  Y  V  G  V  V  A  L  S  :  V  W  V  A  Y  K  E  S  S  W  L  S  A  A  L  W  I  I  L  I  I  C  S  G  S :   I  S  T  C  A  Y  I  A  L  Q  L  F  N  L  S  S  Q  D  P  V  Y  L  V  L   </first_frame>
            <second_frame>  A  M  A  F  S  H  F  L  P  F  S  V  R  F  L  S  L  F  C  N  T  R  R  R  R  P  N  T  Q  K  W  Q  Q  L  *  Q  L  H  *  R  V  S  S  L  C  W  D  V  *  L  Q  P  P  *  Y  T  P  S  P  L  M  A  F  L  S  A  *  N  S  L  P   : R  G  W  Q  L  P  *  *  I  S  T  S  T  Y  L  L  Y  G :   L  G  L  S  T  R  N  Q  T  G  L  L  Q  Y  F  G  W  S  C  *  Y  V  W  E   : A  L  L  H  V  A  T  S  C  C  N  F  L  S  F  Q  L  R  N  L  Y  R  I  Q  F  T  L  S  Y  Y  D  V  R  K   : R  L  K  Q  N  N  R  R  N  V  L  F  *  L  Q  E  F  Y  F  L  L  W  A  V  *  C  *  G  H  *  F  T  P  L  *  L  M  V  L  H  F  A  E  M  F  L  L   : R  G  *  *  Q  Q  *  L  I  S  M  L  V  L  W  L  S  R :   F  G  L  L  I  R  N  Q  V  G  *  V  Q  L  Y  G  *  Y  L  *  F  V  L  A   : A  S  A  H  V  P  I  *  L  F  S  F  S  I  F  H  L  K  I  P  S  T  L  F  F  </second_frame>
            <third_frame>   Q  W  P  S  H  I  F  S  P  F  Q  Y  A  S  F  L  S  S  A  T  L  E  D  E  D  R  I  L  K  N  G  S  N  F  S  N  C  I  E  E  S  L  L  C  V  G  M  F  D  Y  S  H  R  N  I  H  R  R  H  *  W  P  S  F  P  H  R  T  P  Y  P  :  V  D  G  S  Y  P  D  R  F  L  H  P  H  I  C  Y  M   : V  L  G  C  L  Q  G  I  K  L  D  Y  C  N  T  L  G  G  L  A  S  M  F  G  K  :  H  C  Y  M  W  L  H  R  V  A  I  S  *  A  F  N  S  G  I  F  T  G  S  N  L  L  C  P  I  T  T  S  G  K  :  D  *  N  R  T  T  E  E  M  F  S  F  N  C  K  N  S  I  S  C  F  G  L  S  D  A  R  D  I  D  L  H  H  C  N  *  W  F  S  I  S  Q  R  C  F  Y  S  :  V  G  D  S  N  S  D  *  F  L  C  W  C  C  G  S  L   : G  L  G  C  L  *  G  I  K  L  A  E  C  S  F  M  D  N  T  Y  N  L  F  W  Q  :  H  Q  H  M  C  L  Y  S  S  S  A  F  Q  S  F  I  S  R  S  R  L  P  C  S  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/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0066O12.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="17136" stop="16922"/>
                    <exon start="15585" stop="15534"/>
                    <exon start="15171" stop="15098"/>
                    <exon start="14136" stop="14035"/>
                    <exon start="12697" stop="12557"/>
                    <exon start="11505" stop="11454"/>
                    <exon start="11246" stop="11173"/>
                    <exon start="10291" stop="10219"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>783</number_coding_nucleotides>
                  <number_encoded_amino_acids>261</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SNGLLTFSPLFSTLPFSLLQHSKTKTEYSKMAATLAIALKSLFSVLGCLITATVIYTVATDGLPFRIELLTPWMAATLIDFYIHIFVIWSWVVYKESNWITAILWVVLLVCLGSIATCGYIVLQFLKLSTQESLQDPIYFVLLRRQEKTETEQQKKCSLLTARILFPALGCLMLGTLIYTIVTDGSPFRRDVFTPWVIATVIDFYVGVVALSVWVAYKESSWLSAALWIILIICSGSISTCAYIALQLFNLSSQDPVYLVL</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 5 chains have been computed
$ 
$ memory statistics:
$ 2280 bytes spliced alignments in total
$ 1 spliced alignments have been stored
$ 2280 bytes was the average size of a spliced alignment
$ 5752 bytes predicted gene locations in total
$ 1 predicted gene locations have been stored
$ 5752 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 5 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-15 17:24:06
-->
