<?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 00:18:36"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C12HBa0095O18-gHfO3/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C12HBa0095O18-gHfO3/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-C12HBa0095O18-gHfO3/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8942" ref_strand="+" ref_description="SGN-M8942 C2_At5g43140 [cosii_markers]">
      <seq>attcatcaaactggaaaaaacagagaagaaaaaaaatctcaaattcattcaaaaatgggactaaattttctaacaagcttagctaaacgcacaacaattcaacattcaaaccgttgtttcacttctaagaattcaatttccagaatatggactgaatctaaatcttatagtagtaaaaatttcaatacaaatacagttagtaaaaccccttctttttcgtttttgttactttttcgaaaatcatattcatcatcttcgtctgcgaaaacccaattggggtttttggcatggtatttaggagctctagaagctcgtccaattatcacgaaaagtatttcttctgctgttatttatgctgcttctgatgtaacttcacagatgattatgatgtcaccttcagattctttagatataattaggactctacgaatggctagctttggactattaattttaggaacagcacagcattattggtttaactttgtggcaagtgtattgccgaagcgggataccattagtacattgaagaagctattgatgggacagcttggttttgggcctgtaattaattctattttcttctctttcaatgctgctctacaaggtgagaatgggggggaaatcgttgcaaggttgaagcgtgacctgctcccaacaatgatgaatggcctaatgtactggccgttgtgtgatttcttgacatataaagtaatccctgtccatttgcagccattagccaacagtgcattcgcgtatgcttggacgatatatttgacgtatatggccagttccaagaaagccattgctgtttagtaagcaaccccttctccagaagcctcaaaacatcacaaattgagataaaactactgctgatcagtcctcatattgagttgctcaaacattgtttacagaatgatatagaataggtcaagacccttgattcaatagctacaaactgattatttcttccattaattttccttgttttcaatttccagtgtatcgatgaagacgagtctttgagtatacacctcgtctacatcattagaatgtcgtacttttcgtatagatacattataacttcagatcataaatttcaagagtctttctttacataaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0095O18-gHfO3/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C12HBa0095O18.1" temp_strand="-" temp_description="C12HBa0095O18.1  AC234112.1 htgs_phase:2 submitted_to_sgn_as:C12HBa0095O18*** upload_account_name:italy SEQUENCING IN PROGRESS ***">
        <position start="59755" stop="55630"/>
      </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="59455" g_stop="59078" g_length="378"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="378" r_length="378" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="59077" i_stop="58351" i_length="727">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="58350" g_stop="58122" g_length="229"/>
          <reference_exon_boundary r_type="cDNA" r_start="379" r_stop="607" r_length="229" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="58121" i_stop="56804" i_length="1318">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="56803" g_stop="56679" g_length="125"/>
          <reference_exon_boundary r_type="cDNA" r_start="608" r_stop="732" r_length="125" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="56678" i_stop="56320" i_length="359">
            <donor d_prob="0.918" d_score="1.00"/>
            <acceptor a_prob="0.893" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="56319" g_stop="55923" g_length="397"/>
          <reference_exon_boundary r_type="cDNA" r_start="733" r_stop="1129" r_length="397" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0095O18.1" gen_strand="-" ref_id="SGN-M8942" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>1129</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0095O18.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M8942" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="59455" e_stop="59078"/>
          <exon e_start="58350" e_stop="58122"/>
          <exon e_start="56803" e_stop="56679"/>
          <exon e_start="56319" e_stop="55923"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCATCAAACTGGAAAAAACAGAGAAGAAAAAAAATCTCAAATTCATTCAAAAATGGGACTAAATTTTCTAACAAGCTTAGCTAAACGCACAACAATTCAACATTCAAACCGTTGTTTCACTTCTAAGAATTCAATTTCCAGAATATGGACTGAATCTAAATCTTATAGTAGTAAAAATTTCAATACAAATACAGTTAGTAAAACCCCTTCTTTTTCGTTTTTGTTACTTTTTCGAAAATCATATTCATCATCTTCGTCTGCGAAAACCCAATTGGGGTTTTTGGCATGGTATTTAGGAGCTCTAGAAGCTCGTCCAATTATCACGAAAAGTATTTCTTCTGCTGTTATTTATGCTGCTTCTGATGTAACTTCACAGGTAATTTCCTATTTTGTTTGCTAATTTTTGTAATTTAATTTAGTTTTAATTTGCTAATTTCAGCGGAAAATGGTTTAGATTATGTTGTAATTGTAATTTTCTGGAGAATTTTTGGTTTGATTTGATTATCTAAGTATAGAAGGTAATAAATGATAATGGTTTACACGAAAAGATAGTTTTTTTTTTTGGTTAGTTGAAATGTTAAGCTCTAGTTTGGCTATAAATTTTGAGATTGAAACTCGAAAATTTGAGCTTTTAAAGTTGTATACGTTGTGTTTGAACATGCATTTTACTTGGAAAAAGTTTGAAGTTTTGTAAGCAAAAGTCCCCAAAAACCAGTTTTGGGAATCGGAGAATATTTGAAGATGATCGAATTTCATGGCCAAATAGATATTTGAAGACAACTTTTTCAAAATTTACTCCCAAAATGTATGGCCAAATGCTAGCTAAATGTTGATATATTAAGAAATAGTTACGTTCTTAAAGAACGACTTCCATTTTCCTTTGTTTGGGTGAAAATATTTTCGACAATTCAAGAAAACCAAATGGGAAAATGATTTTAGTGAAGGAAAACAATTTCCAGTTTCCACCATACCGAAGCACAACATATACTGGTGATTTTTGTTTTGATTAGACAAACGAAATGGAATGTTTGAATTTTTTGATGTGATAAAAATTGATTAAACATGAGTTGTGACTTGTCGACTATGTGGTTTGCATTTTTCAGATGATTATGATGTCACCTTCAGATTCTTTAGATATAATTAGGACTCTACGAATGGCTAGCTTTGGACTATTAATTTTAGGAACAGCACAGCATTATTGGTTTAACTTTGTGGCAAGTGTATTGCCGAAGCGGGATACCATTAGTACATTGAAGAAGCTATTGATGGGACAGCTTGGTTTTGGGCCTGTAATTAATTCTATTTTCTTCTCTTTCAATGCTGCTCTACAAGGTACACATTAGGTTCTTCTCTCTTTTATTCGCTTTCTGCCTAGTTCTTGCTTTCTAGTACTACAGTCGCTAGTTCGTTTCTTAATTATGCTATTTGTCACAACTCACAATTGATACTAAAAGGCACATAACTTTACTTCCGGACTTCCTGAGTATTTCTATGTATCCCAAAAGAGCAGTTCAGAGTGGGACATCAGAATCTAGTGATACACACTACACCACTATGAGGGGGATTTAACCTTGCTTCTTTCCTGCATTATAGTGTAAAGCAATATGTTTGTTCTGTATATTCCGAGGGGAAAAAGAACATGACAAATTATAGAAAAATACAAATAACATAAGGGAAAATCATAGAGGCAGAATAAGGGTGGTCCAATGTGTATAATACATCGTTAATAGTAAAAATGATAAATTCTTTTTTCCTGCCGAGTGCCGAATGATTGCACATTAGTCATTTGGTAATATTATTCAACTATAAATCAAACTAATAATTTATTGAATGCTGAGAGCTTTCACGGCTTTTCTTTGACATGAATTTTACAAGCTTCGGAAAAACCTAACAATAAAATGAATATCTGTGGAAGTGCAAACAAGACTATTTGATATATGGAGACCTCATAGAAAATAACTTATGTTTTTGTTCTTATCCAAAAAAAAAAAGAAGAAGAAGAAAGAAACTAATGTTTCGTATTTTTTTTTATCAGTAAACTAGTGTTTCGTATTGTTTAATTTTAGTCAACCATATAGACAATAAGGGTTCTTGTGTGCAAAAATGCTTCATACTTGTCTTTGCATAGATGCCTCCCCTACTCCCCCAATTTCGCCGGGCAGCACTTGCTATATACATGCATACACAGTCAGAGGATTTAAATGTAGCTGAGTACATAATCTATTGGTGAAACTTTACCACATCCAGTTGTTAGGTACATAAGATGTTTAAGTTGGTGGGGCTGGTCGAATGATATAGGTGAAACTTTACCACGTCTAGTGGCTGAGGTTCTGAATATTACATTAAAGGGAGCTGTTTCTTCTAAGCTTTTTCCTCCTGTGAATCTCTGCCAGTATTGACACTTTAATTGCCAGTATTGATTGTTAACACATTTGAAAAGTTTCATGACTACGTCAACATTTTCAAGGGTGTTTTTTTTTTAAAAAAAAAAAACTCGTTGAGTTAATGTTCTGTTTAAGAAATCTGCTTCTGTGATCTATGATTATTTGTCGGTTATGCTAGGTCTGATGATTACCTTTGCCTTTTGATTTACCGTCTCATTGGTGCAACATGATTTAATCCTTTAACTCTTTCTTGTTTTCACATTCAGGTGAGAATGGGGGGGAAATCGTTGCAAGGTTGAAGCGTGACCTGCTCCCAACAATGATGAATGGCCTAATGTACTGGCCGTTGTGTGATTTCTTGACATATAAAGTAATCCCTGTCCATTTGCAGGTACTATGTTACACTTGTCTTTTTTGTAAGGACACTAGCACATTTATGTTTCATGAGATTTATGTTGCTCGGACTCTCCAAAGTTGCTGGCACACTCCTGTCGGATCCTCTAGAAATGCATTACTTTTGGAGGATCCAACATGCACTTGGTGACATTTCTGAAGAGTTCGAGCAACATAGATTAATGAGATGATCCACAACTTCTGAGGTCCGACTACAAGCCCTTAACGGAAGCATCTATTGCTCTAGTTTTTATCCATCTCAAATTTATTTAAATTGCTCAATTCGATTCCAATTATTCTGAATTTGTTCTTTTAAACACTCACAAGGTTAACGTTTTTGGTAATGCTCTTTAACAGCCATTAGCCAACAGTGCATTCGCGTATGCTTGGACGATATATTTGACGTATATGGCCAGTTCCAAGAAAGCCATTGCTGTTTAGTAAGCAACCCCTTCTCCAGAAGCCTCAAAACATCACAAATTGAGATAAAACTACTGCTGATCAGTCCTCATATTGAGTTGCTCAAACATTGTTTACAGAATGATATAGAATAGGTCAAGACCCTTGATTCAATAGCTACAAACTGATTATTTCTTCCATTAATTTTCCTTGTTTTCAATTTCCAGTGTATCGATGAAGACGAGTCTTTGAGTATACACCTCGTCTACATCATTAGAATGTCGTACTTTTCGTATAGATACATTATAACTTCAGATCATAAATTTCAAGAGTCTTTCTTTACATAAATTGAGAC</genome_strand>
        <mrna_strand>ATTCATCAAACTGGAAAAAACAGAGAAGAAAAAAAATCTCAAATTCATTCAAAAATGGGACTAAATTTTCTAACAAGCTTAGCTAAACGCACAACAATTCAACATTCAAACCGTTGTTTCACTTCTAAGAATTCAATTTCCAGAATATGGACTGAATCTAAATCTTATAGTAGTAAAAATTTCAATACAAATACAGTTAGTAAAACCCCTTCTTTTTCGTTTTTGTTACTTTTTCGAAAATCATATTCATCATCTTCGTCTGCGAAAACCCAATTGGGGTTTTTGGCATGGTATTTAGGAGCTCTAGAAGCTCGTCCAATTATCACGAAAAGTATTTCTTCTGCTGTTATTTATGCTGCTTCTGATGTAACTTCACAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGATTATGATGTCACCTTCAGATTCTTTAGATATAATTAGGACTCTACGAATGGCTAGCTTTGGACTATTAATTTTAGGAACAGCACAGCATTATTGGTTTAACTTTGTGGCAAGTGTATTGCCGAAGCGGGATACCATTAGTACATTGAAGAAGCTATTGATGGGACAGCTTGGTTTTGGGCCTGTAATTAATTCTATTTTCTTCTCTTTCAATGCTGCTCTACAAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGAATGGGGGGGAAATCGTTGCAAGGTTGAAGCGTGACCTGCTCCCAACAATGATGAATGGCCTAATGTACTGGCCGTTGTGTGATTTCTTGACATATAAAGTAATCCCTGTCCATTTGCAG.......................................................................................................................................................................................................................................................................................................................................................................CCATTAGCCAACAGTGCATTCGCGTATGCTTGGACGATATATTTGACGTATATGGCCAGTTCCAAGAAAGCCATTGCTGTTTAGTAAGCAACCCCTTCTCCAGAAGCCTCAAAACATCACAAATTGAGATAAAACTACTGCTGATCAGTCCTCATATTGAGTTGCTCAAACATTGTTTACAGAATGATATAGAATAGGTCAAGACCCTTGATTCAATAGCTACAAACTGATTATTTCTTCCATTAATTTTCCTTGTTTTCAATTTCCAGTGTATCGATGAAGACGAGTCTTTGAGTATACACCTCGTCTACATCATTAGAATGTCGTACTTTTCGTATAGATACATTATAACTTCAGATCATAAATTTCAAGAGTCTTTCTTTACATAAAAAAAAAA</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-C12HBa0095O18-gHfO3/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8942-2" ref_strand="+" ref_description="SGN-M8942-2 C2_At5g43140-2 [cosii_markers]">
      <seq>cttacctcatttttcccaatttcctcagtgttctttgatcttcaaaacccccaaattcatcaaactggaaaaacagagaagaaaaaatctcaaattcattcaaaaatgggactaaattttctaacaagcttagctaaacgcacaacaattcaacattcaaagcgttgtttcacttccaagaattcaatttccagaatatggactgaatctaaatcttatagtaaaaatttcaatacaaatacagttacgaaaaccccttctttttcattttcgttactttttcgaaaatcgtattcatcagcttcatcttcgtctgcgaaaacccaagtggggtttttggcatggtatttaggagctctagaagctcgtccaattatcacgaaaagtatttcttctgctgttatttatgctgcttctgatgttacttcacagatgattatgatgtcaccttcagattctttagatataattaggactctacgaatggctagctttggactattaattttaggaacagcacagcatcattggtttaactttgtggcaagggtattgccgaagcgggataccattagtacattgaagaagctgtcgatgggacagcttggttttgggcctgtaattaattctattttcttctctttcaatgctgctctacaaggtgagaatgggggggaaatcgttgcgaggttgaagcgtgacctgctcccaacaatgatgaacggcctaatgtactggccgttgtgtgatttcttgacatataaagtaatccctgtccatttgcagccattagccaacagtgcattcgcatatgcgtggacgatatatttgacgtatatggccagttccaagaaagccattgctgcttagtatgcaacccctgctctggaagtctcaaaaccgcgcaaattgagataaaactattgctgatcagtcctgcatattgagttactcaacattattcacaggatggtgtagaataggtcaaggcccttgattcaagagccacaatttgattcattcttccatttattttccttattttcagtttccagtgtattgatgaagacgagtcattgagtatacacctcgtctacatcattaaaatgtcgtacttttcgtagagatacattataatttaaatcataaatttcaaaagtctttctgagacagaaggaaaggagtataaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0095O18-gHfO3/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C12HBa0095O18.1" temp_strand="-" temp_description="C12HBa0095O18.1  AC234112.1 htgs_phase:2 submitted_to_sgn_as:C12HBa0095O18*** upload_account_name:italy SEQUENCING IN PROGRESS ***">
        <position start="59788" stop="55639"/>
      </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="59487" g_stop="59078" g_length="410"/>
          <reference_exon_boundary r_type="cDNA" r_start="24" r_stop="432" r_length="409" r_score="0.932"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="59077" i_stop="58351" i_length="727">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="58350" g_stop="58122" g_length="229"/>
          <reference_exon_boundary r_type="cDNA" r_start="433" r_stop="661" r_length="229" r_score="0.983"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="58121" i_stop="56804" i_length="1318">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="56803" g_stop="56679" g_length="125"/>
          <reference_exon_boundary r_type="cDNA" r_start="662" r_stop="786" r_length="125" r_score="0.984"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="56678" i_stop="56320" i_length="359">
            <donor d_prob="0.918" d_score="1.00"/>
            <acceptor a_prob="0.893" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="56319" g_stop="55939" g_length="381"/>
          <reference_exon_boundary r_type="cDNA" r_start="787" r_stop="1166" r_length="380" r_score="0.898"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0095O18.1" gen_strand="-" ref_id="SGN-M8942-2" ref_strand="+">
        <total_alignment_score>0.936</total_alignment_score>
        <cumulative_length_of_scored_exons>1145</cumulative_length_of_scored_exons>
        <coverage percentage="0.961" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0095O18.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M8942-2" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="59487" e_stop="59078"/>
          <exon e_start="58350" e_stop="58122"/>
          <exon e_start="56803" e_stop="56679"/>
          <exon e_start="56319" e_stop="55939"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCAGTGTTCTTTGATCTTCAAAAACCCCCAAATTCATCAAACTGGAAAAAACAGAGAAGAAAAAAAATCTCAAATTCATTCAAAAATGGGACTAAATTTTCTAACAAGCTTAGCTAAACGCACAACAATTCAACATTCAAACCGTTGTTTCACTTCTAAGAATTCAATTTCCAGAATATGGACTGAATCTAAATCTTATAGTAGTAAAAATTTCAATACAAATACAGTTAGTAAAACCCCTTCTTTTTCGTTTTTGTTACTTTTTCGAAAATCATA-T--TCA---TCATCTTCGTCTGCGAAAACCCAATTGGGGTTTTTGGCATGGTATTTAGGAGCTCTAGAAGCTCGTCCAATTATCACGAAAAGTATTTCTTCTGCTGTTATTTATGCTGCTTCTGATGTAACTTCACAGGTAATTTCCTATTTTGTTTGCTAATTTTTGTAATTTAATTTAGTTTTAATTTGCTAATTTCAGCGGAAAATGGTTTAGATTATGTTGTAATTGTAATTTTCTGGAGAATTTTTGGTTTGATTTGATTATCTAAGTATAGAAGGTAATAAATGATAATGGTTTACACGAAAAGATAGTTTTTTTTTTTGGTTAGTTGAAATGTTAAGCTCTAGTTTGGCTATAAATTTTGAGATTGAAACTCGAAAATTTGAGCTTTTAAAGTTGTATACGTTGTGTTTGAACATGCATTTTACTTGGAAAAAGTTTGAAGTTTTGTAAGCAAAAGTCCCCAAAAACCAGTTTTGGGAATCGGAGAATATTTGAAGATGATCGAATTTCATGGCCAAATAGATATTTGAAGACAACTTTTTCAAAATTTACTCCCAAAATGTATGGCCAAATGCTAGCTAAATGTTGATATATTAAGAAATAGTTACGTTCTTAAAGAACGACTTCCATTTTCCTTTGTTTGGGTGAAAATATTTTCGACAATTCAAGAAAACCAAATGGGAAAATGATTTTAGTGAAGGAAAACAATTTCCAGTTTCCACCATACCGAAGCACAACATATACTGGTGATTTTTGTTTTGATTAGACAAACGAAATGGAATGTTTGAATTTTTTGATGTGATAAAAATTGATTAAACATGAGTTGTGACTTGTCGACTATGTGGTTTGCATTTTTCAGATGATTATGATGTCACCTTCAGATTCTTTAGATATAATTAGGACTCTACGAATGGCTAGCTTTGGACTATTAATTTTAGGAACAGCACAGCATTATTGGTTTAACTTTGTGGCAAGTGTATTGCCGAAGCGGGATACCATTAGTACATTGAAGAAGCTATTGATGGGACAGCTTGGTTTTGGGCCTGTAATTAATTCTATTTTCTTCTCTTTCAATGCTGCTCTACAAGGTACACATTAGGTTCTTCTCTCTTTTATTCGCTTTCTGCCTAGTTCTTGCTTTCTAGTACTACAGTCGCTAGTTCGTTTCTTAATTATGCTATTTGTCACAACTCACAATTGATACTAAAAGGCACATAACTTTACTTCCGGACTTCCTGAGTATTTCTATGTATCCCAAAAGAGCAGTTCAGAGTGGGACATCAGAATCTAGTGATACACACTACACCACTATGAGGGGGATTTAACCTTGCTTCTTTCCTGCATTATAGTGTAAAGCAATATGTTTGTTCTGTATATTCCGAGGGGAAAAAGAACATGACAAATTATAGAAAAATACAAATAACATAAGGGAAAATCATAGAGGCAGAATAAGGGTGGTCCAATGTGTATAATACATCGTTAATAGTAAAAATGATAAATTCTTTTTTCCTGCCGAGTGCCGAATGATTGCACATTAGTCATTTGGTAATATTATTCAACTATAAATCAAACTAATAATTTATTGAATGCTGAGAGCTTTCACGGCTTTTCTTTGACATGAATTTTACAAGCTTCGGAAAAACCTAACAATAAAATGAATATCTGTGGAAGTGCAAACAAGACTATTTGATATATGGAGACCTCATAGAAAATAACTTATGTTTTTGTTCTTATCCAAAAAAAAAAAGAAGAAGAAGAAAGAAACTAATGTTTCGTATTTTTTTTTATCAGTAAACTAGTGTTTCGTATTGTTTAATTTTAGTCAACCATATAGACAATAAGGGTTCTTGTGTGCAAAAATGCTTCATACTTGTCTTTGCATAGATGCCTCCCCTACTCCCCCAATTTCGCCGGGCAGCACTTGCTATATACATGCATACACAGTCAGAGGATTTAAATGTAGCTGAGTACATAATCTATTGGTGAAACTTTACCACATCCAGTTGTTAGGTACATAAGATGTTTAAGTTGGTGGGGCTGGTCGAATGATATAGGTGAAACTTTACCACGTCTAGTGGCTGAGGTTCTGAATATTACATTAAAGGGAGCTGTTTCTTCTAAGCTTTTTCCTCCTGTGAATCTCTGCCAGTATTGACACTTTAATTGCCAGTATTGATTGTTAACACATTTGAAAAGTTTCATGACTACGTCAACATTTTCAAGGGTGTTTTTTTTTTAAAAAAAAAAAACTCGTTGAGTTAATGTTCTGTTTAAGAAATCTGCTTCTGTGATCTATGATTATTTGTCGGTTATGCTAGGTCTGATGATTACCTTTGCCTTTTGATTTACCGTCTCATTGGTGCAACATGATTTAATCCTTTAACTCTTTCTTGTTTTCACATTCAGGTGAGAATGGGGGGGAAATCGTTGCAAGGTTGAAGCGTGACCTGCTCCCAACAATGATGAATGGCCTAATGTACTGGCCGTTGTGTGATTTCTTGACATATAAAGTAATCCCTGTCCATTTGCAGGTACTATGTTACACTTGTCTTTTTTGTAAGGACACTAGCACATTTATGTTTCATGAGATTTATGTTGCTCGGACTCTCCAAAGTTGCTGGCACACTCCTGTCGGATCCTCTAGAAATGCATTACTTTTGGAGGATCCAACATGCACTTGGTGACATTTCTGAAGAGTTCGAGCAACATAGATTAATGAGATGATCCACAACTTCTGAGGTCCGACTACAAGCCCTTAACGGAAGCATCTATTGCTCTAGTTTTTATCCATCTCAAATTTATTTAAATTGCTCAATTCGATTCCAATTATTCTGAATTTGTTCTTTTAAACACTCACAAGGTTAACGTTTTTGGTAATGCTCTTTAACAGCCATTAGCCAACAGTGCATTCGCGTATGCTTGGACGATATATTTGACGTATATGGCCAGTTCCAAGAAAGCCATTGCTGTTTAGTAAGCAACCCCTTCTCCAGAAGCCTCAAAACATCACAAATTGAGATAAAACTACTGCTGATCAGTCCT-CATATTGAGTTGCTCAAACATTGTTTACAGAATGATATAGAATAGGTCAAGACCCTTGATTCAATAGCTACAAACTGATTATTTCTTCCATTAATTTTCCTTGTTTTCAATTTCCAGTGTATCGATGAAGACGAGTCTTTGAGTATACACCTCGTCTACATCATTAGAATGTCGTACTTTTCGTATAGATACATTATAACTTCAGATCATAAATTTCAAGAGTCTTTCT</genome_strand>
        <mrna_strand>CTCAGTGTTCTTTGATCTTC-AAAACCCCCAAATTCATCAAACTGG-AAAAACAGAGAAG--AAAAAATCTCAAATTCATTCAAAAATGGGACTAAATTTTCTAACAAGCTTAGCTAAACGCACAACAATTCAACATTCAAAGCGTTGTTTCACTTCCAAGAATTCAATTTCCAGAATATGGACTGAATCTAAATC-T-TA-TAGTAAAAATTTCAATACAAATACAGTTACGAAAACCCCTTCTTTTTCATTTTCGTTACTTTTTCGAAAATCGTATTCATCAGCTTCATCTTCGTCTGCGAAAACCCAAGTGGGGTTTTTGGCATGGTATTTAGGAGCTCTAGAAGCTCGTCCAATTATCACGAAAAGTATTTCTTCTGCTGTTATTTATGCTGCTTCTGATGTTACTTCACAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGATTATGATGTCACCTTCAGATTCTTTAGATATAATTAGGACTCTACGAATGGCTAGCTTTGGACTATTAATTTTAGGAACAGCACAGCATCATTGGTTTAACTTTGTGGCAAGGGTATTGCCGAAGCGGGATACCATTAGTACATTGAAGAAGCTGTCGATGGGACAGCTTGGTTTTGGGCCTGTAATTAATTCTATTTTCTTCTCTTTCAATGCTGCTCTACAAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGAATGGGGGGGAAATCGTTGCGAGGTTGAAGCGTGACCTGCTCCCAACAATGATGAACGGCCTAATGTACTGGCCGTTGTGTGATTTCTTGACATATAAAGTAATCCCTGTCCATTTGCAG.......................................................................................................................................................................................................................................................................................................................................................................CCATTAGCCAACAGTGCATTCGCATATGCGTGGACGATATATTTGACGTATATGGCCAGTTCCAAGAAAGCCATTGCTGCTTAGTATGCAACCCCTGCTCTGGAAGTCTCAAAACCGCGCAAATTGAGATAAAACTATTGCTGATCAGTCCTGCATATTGAGTTACTC-AACATTATTCACAGGATGGTGTAGAATAGGTCAAGGCCCTTGATTCAAGAGCCACAATTTGATTCATTCTTCCATTTATTTTCCTTATTTTCAGTTTCCAGTGTATTGATGAAGACGAGTCATTGAGTATACACCTCGTCTACATCATTAAAATGTCGTACTTTTCGTAGAGATACATTATAA-TTTAAATCATAAATTTCAAAAGTCTTTCT</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-C12HBa0095O18-gHfO3/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M6726" ref_strand="+" ref_description="SGN-M6726 C2_At1g27700 [cosii_markers]">
      <seq>cccaccttaccaaattgataaaaaaaaaagaaaaaagattcttctactttaaatttgatccaagcaaatccaaattggttcattatttttgttgataaaattataaattgttgattgaatcaattttgggttttcccaatttgtttgggatttttttttttgtaaaattcgatttggtggttgaagggtatgggttcatattttgatcgatgggagaaagatccgttcttctctgctgcagaagaggttcaggaatctgccgacaggatggaatcaacttatagaacatggattcatgcgttgaaggatacttctggacgttggaattccgacgagctatgcagagacctaaggactacccttggcactgctaaatggcagttggaggaatttgatcgggcagttagttcgagctacaataatacttcaactgatgatgctaaagaaaggcatggtgaatttgttattgccatggataatcagattaaaaaagtagagaagagtctaaatgagtcagctttttcacaaggcaatcaatgggtgcgcttggacgagagggaactcgatgaactagccgtgtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12HBa0095O18-gHfO3/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C12HBa0095O18.1" temp_strand="+" temp_description="C12HBa0095O18.1  AC234112.1 htgs_phase:2 submitted_to_sgn_as:C12HBa0095O18*** upload_account_name:italy SEQUENCING IN PROGRESS ***">
        <position start="63983" stop="65808"/>
      </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="64261" g_stop="64538" g_length="278"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="266" r_length="266" r_score="0.885"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="64539" i_stop="64996" i_length="458">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.960" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="64997" g_stop="65111" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="267" r_stop="381" r_length="115" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="65112" i_stop="65308" i_length="197">
            <donor d_prob="0.259" d_score="0.98"/>
            <acceptor a_prob="0.992" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="65309" g_stop="65508" g_length="200"/>
          <reference_exon_boundary r_type="cDNA" r_start="382" r_stop="581" r_length="200" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12HBa0095O18.1" gen_strand="+" ref_id="SGN-M6726" ref_strand="+">
        <total_alignment_score>0.933</total_alignment_score>
        <cumulative_length_of_scored_exons>593</cumulative_length_of_scored_exons>
        <coverage percentage="1.021" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12HBa0095O18.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M6726" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="64261" e_stop="64538"/>
          <exon e_start="64997" e_stop="65111"/>
          <exon e_start="65309" e_stop="65508"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCCACCTTACCAAATTGATAAAAAAAAAAAAAGAAGAAAAAATATTCTTCTACTTTAAATTTGATCCAAGCAAATCCAAATTGGTTCATTGTTTGTTTTTTTTTTGATAAAATTATAAATTTGTGATTGAATCAATTTTGGGTTTTCCCTTTTTTTTTTTTGGAATTTTTTGTGAAAAATTCGATTTGGGGGTTGAAGGATATGGGTTCATATTTTGATCGATGGGAGAAAGATCCGTTCTTCTCTGCTGCAGAGGAGGTTCAGGAATCTGCCGACAGGTAATTTTATATTTTTTTGAATTTTTTTTTTTTGTAATTTTTTCTGATTTTTTTTTTGCTAATTTGTGTGTTTTTAGGGTTTTAAAATCAATAGTTCGTTTTGGAAGGTCAATTTATTTACTGGTATTGAAATGAAATGAGCTGTTGTAGAGTTGAAATGGATATAGATGATGGGTAATTGGTTGATTTTTAAAAAAAATAAATTTGGGAGGTTTTGGATTAGTTTTGTTGTGTGAGTTAAATATTTTTTTGTTGTTGTTGTTGTTGATGGTGGTGTGAGGATAGATGAGAAGAATTAGCTAGTGTTTTAGTTTGGGGTTCGAACCTGAGACCTCGTGGATAATGATTTTGTGTGAATTTATTTATGATAGTGGTGCAAAGTTTGAAGCTTTTGTTGGTTTTAGTTTGTGGGGTTTTGTTCTTTTTGTTGAAATGTTTGTTTAATTTGATTTTTCAAGGATGGAATCAACTTATAGAACATGGATTCATGCGTTGAAGGATACTTCTGGACGTTGGAATTCCGACGAGCTGTGCAGAGACCTAAGGACTACCCTTGGCACTGCTAAATGGCAGGTACGACTCCTTCCCGAACACAACTCCCCCTGCCCCATAGAAGGAACATAACAGATAAAGAGAAATGACAAAAAAAAAAAAGATTAACGGACACGTGTACTCGCATATAGGGTGTTAATGTTGGACGGACACGTGTATTCGCATATAGGGTGTAATGTTGGATGCAATAAAAGTTGAATTTCTTAATGTTAATGCAGTTGGAGGAATTTGATCGGGCAGTTAGTTCAAGCTACAGTAATACATCAACTGATGATGCTAAAGAAAGGCATGGTGAATTTGTTATTGCCATGGATAATCAGATTAAGAAAGTAGAGAAGAGTCTAAATGAATCAGCTTTTTCACAAGGCAATCAATGGGTGCGCTTGGATGAGAGGGAGCTCGATGAACTAGCCGTGTT</genome_strand>
        <mrna_strand>CCCACCTTACCAAATTGAT----A-AAAAAAA-AAGAAAAAAGATTCTTCTACTTTAAATTTGATCCAAGCAAATCCAAATTGGTTCA-----T-TATTTTTGTTGATAAAATTATAAATTGTTGATTGAATCAATTTTGGGTTTTCCCAATTTGTTTGGGATTTTTTTTTTTGTAAAATTCGATTTGGTGGTTGAAGGGTATGGGTTCATATTTTGATCGATGGGAGAAAGATCCGTTCTTCTCTGCTGCAGAAGAGGTTCAGGAATCTGCCGACAG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGGAATCAACTTATAGAACATGGATTCATGCGTTGAAGGATACTTCTGGACGTTGGAATTCCGACGAGCTATGCAGAGACCTAAGGACTACCCTTGGCACTGCTAAATGGCAG.....................................................................................................................................................................................................TTGGAGGAATTTGATCGGGCAGTTAGTTCGAGCTACAATAATACTTCAACTGATGATGCTAAAGAAAGGCATGGTGAATTTGTTATTGCCATGGATAATCAGATTAAAAAAGTAGAGAAGAGTCTAAATGAGTCAGCTTTTTCACAAGGCAATCAATGGGTGCGCTTGGACGAGAGGGAACTCGATGAACTAGCCGTGTT</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="59487" PGL_stop="55923"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="59487" e_stop="59078"/>
            <exon e_start="58350" e_stop="58122"/>
            <exon e_start="56803" e_stop="56679"/>
            <exon e_start="56319" e_stop="55923"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.978" e_score="0.932"/>
          <exon-intron don_prob="1.000" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.918" acc_prob="0.893" e_score="1.000"/>
          <exon-only e_score="0.987"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.932">
            <gDNA_exon_boundary e_start="59487" e_stop="59078" e_length="410"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.978">
            <gDNA_intron_boundary i_start="59077" i_stop="58351" i_length="727"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="58350" e_stop="58122" e_length="229"/>
          </exon>
          <intron i_serial="2" don_prob="1.000" acc_prob="1.000">
            <gDNA_intron_boundary i_start="58121" i_stop="56804" i_length="1318"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="56803" e_stop="56679" e_length="125"/>
          </exon>
          <intron i_serial="3" don_prob="0.918" acc_prob="0.893">
            <gDNA_intron_boundary i_start="56678" i_stop="56320" i_length="359"/>
          </intron>
          <exon e_serial="4" e_score="0.987">
            <gDNA_exon_boundary e_start="56319" e_stop="55923" e_length="397"/>
          </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="59487" stop="59078"/>
              <exon start="58350" stop="58122"/>
              <exon start="56803" stop="56679"/>
              <exon start="56319" stop="55939"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8942-2" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="59455" stop="59078"/>
              <exon start="58350" stop="58122"/>
              <exon start="56803" stop="56679"/>
              <exon start="56319" stop="55923"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8942" 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>CTCAGTGTTCTTTGATCTTCAAAAACCCCCAAATTCATCAAACTGGAAAAAACAGAGAAGAAAAAAAATCTCAAATTCATTCAAAAATGGGACTAAATTTTCTAACAAGCTTAGCTAAACGCACAACAATTCAACATTCAAACCGTTGTTTCACTTCTAAGAATTCAATTTCCAGAATATGGACTGAATCTAAATCTTATAGTAGTAAAAATTTCAATACAAATACAGTTAGTAAAACCCCTTCTTTTTCGTTTTTGTTACTTTTTCGAAAATCATATTCATCATCTTCGTCTGCGAAAACCCAATTGGGGTTTTTGGCATGGTATTTAGGAGCTCTAGAAGCTCGTCCAATTATCACGAAAAGTATTTCTTCTGCTGTTATTTATGCTGCTTCTGATGTAACTTCACAG : ATGATTATGATGTCACCTTCAGATTCTTTAGATATAATTAGGACTCTACGAATGGCTAGCTTTGGACTATTAATTTTAGGAACAGCACAGCATTATTGGTTTAACTTTGTGGCAAGTGTATTGCCGAAGCGGGATACCATTAGTACATTGAAGAAGCTATTGATGGGACAGCTTGGTTTTGGGCCTGTAATTAATTCTATTTTCTTCTCTTTCAATGCTGCTCTACAAG : GTGAGAATGGGGGGGAAATCGTTGCAAGGTTGAAGCGTGACCTGCTCCCAACAATGATGAATGGCCTAATGTACTGGCCGTTGTGTGATTTCTTGACATATAAAGTAATCCCTGTCCATTTGCAG : CCATTAGCCAACAGTGCATTCGCGTATGCTTGGACGATATATTTGACGTATATGGCCAGTTCCAAGAAAGCCATTGCTGTTTAGTAAGCAACCCCTTCTCCAGAAGCCTCAAAACATCACAAATTGAGATAAAACTACTGCTGATCAGTCCTCATATTGAGTTGCTCAAACATTGTTTACAGAATGATATAGAATAGGTCAAGACCCTTGATTCAATAGCTACAAACTGATTATTTCTTCCATTAATTTTCCTTGTTTTCAATTTCCAGTGTATCGATGAAGACGAGTCTTTGAGTATACACCTCGTCTACATCATTAGAATGTCGTACTTTTCGTATAGATACATTATAACTTCAGATCATAAATTTCAAGAGTCTTTCTTTACATAAATTGAGAC</gDNA_template>
            <first_frame> L  S  V  L  *  S  S  K  T  P  K  F  I  K  L  E  K  T  E  K  K  K  N  L  K  F  I  Q  K  W  D  *  I  F  *  Q  A  *  L  N  A  Q  Q  F  N  I  Q  T  V  V  S  L  L  R  I  Q  F  P  E  Y  G  L  N  L  N  L  I  V  V  K  I  S  I  Q  I  Q  L  V  K  P  L  L  F  R  F  C  Y  F  F  E  N  H  I  H  H  L  R  L  R  K  P  N  W  G  F  W  H  G  I  *  E  L  *  K  L  V  Q  L  S  R  K  V  F  L  L  L  L  F  M  L  L  L  M  *  L  H  R :   *  L  *  C  H  L  Q  I  L  *  I  *  L  G  L  Y  E  W  L  A  L  D  Y  *  F  *  E  Q  H  S  I  I  G  L  T  L  W  Q  V  Y  C  R  S  G  I  P  L  V  H  *  R  S  Y  *  W  D  S  L  V  L  G  L  *  L  I  L  F  S  S  L  S  M  L  L  Y  K  :  V  R  M  G  G  K  S  L  Q  G  *  S  V  T  C  S  Q  Q  *  *  M  A  *  C  T  G  R  C  V  I  S  *  H  I  K  *  S  L  S  I  C  S :   H  *  P  T  V  H  S  R  M  L  G  R  Y  I  *  R  I  W  P  V  P  R  K  P  L  L  F  S  K  Q  P  L  L  Q  K  P  Q  N  I  T  N  *  D  K  T  T  A  D  Q  S  S  Y  *  V  A  Q  T  L  F  T  E  *  Y  R  I  G  Q  D  P  *  F  N  S  Y  K  L  I  I  S  S  I  N  F  P  C  F  Q  F  P  V  Y  R  *  R  R  V  F  E  Y  T  P  R  L  H  H  *  N  V  V  L  F  V  *  I  H  Y  N  F  R  S  *  I  S  R  V  F  L  Y  I  N  *  D </first_frame>
            <second_frame>  S  V  F  F  D  L  Q  K  P  P  N  S  S  N  W  K  K  Q  R  R  K  K  I  S  N  S  F  K  N  G  T  K  F  S  N  K  L  S  *  T  H  N  N  S  T  F  K  P  L  F  H  F  *  E  F  N  F  Q  N  M  D  *  I  *  I  L  *  *  *  K  F  Q  Y  K  Y  S  *  *  N  P  F  F  F  V  F  V  T  F  S  K  I  I  F  I  I  F  V  C  E  N  P  I  G  V  F  G  M  V  F  R  S  S  R  S  S  S  N  Y  H  E  K  Y  F  F  C  C  Y  L  C  C  F  *  C  N  F  T   : D  D  Y  D  V  T  F  R  F  F  R  Y  N  *  D  S  T  N  G  *  L  W  T  I  N  F  R  N  S  T  A  L  L  V  *  L  C  G  K  C  I  A  E  A  G  Y  H  *  Y  I  E  E  A  I  D  G  T  A  W  F  W  A  C  N  *  F  Y  F  L  L  F  Q  C  C  S  T  R :   *  E  W  G  G  N  R  C  K  V  E  A  *  P  A  P  N  N  D  E  W  P  N  V  L  A  V  V  *  F  L  D  I  *  S  N  P  C  P  F  A   : A  I  S  Q  Q  C  I  R  V  C  L  D  D  I  F  D  V  Y  G  Q  F  Q  E  S  H  C  C  L  V  S  N  P  F  S  R  S  L  K  T  S  Q  I  E  I  K  L  L  L  I  S  P  H  I  E  L  L  K  H  C  L  Q  N  D  I  E  *  V  K  T  L  D  S  I  A  T  N  *  L  F  L  P  L  I  F  L  V  F  N  F  Q  C  I  D  E  D  E  S  L  S  I  H  L  V  Y  I  I  R  M  S  Y  F  S  Y  R  Y  I  I  T  S  D  H  K  F  Q  E  S  F  F  T  *  I  E   </second_frame>
            <third_frame>   Q  C  S  L  I  F  K  N  P  Q  I  H  Q  T  G  K  N  R  E  E  K  K  S  Q  I  H  S  K  M  G  L  N  F  L  T  S  L  A  K  R  T  T  I  Q  H  S  N  R  C  F  T  S  K  N  S  I  S  R  I  W  T  E  S  K  S  Y  S  S  K  N  F  N  T  N  T  V  S  K  T  P  S  F  S  F  L  L  L  F  R  K  S  Y  S  S  S  S  S  A  K  T  Q  L  G  F  L  A  W  Y  L  G  A  L  E  A  R  P  I  I  T  K  S  I  S  S  A  V  I  Y  A  A  S  D  V  T  S  Q  :  M  I  M  M  S  P  S  D  S  L  D  I  I  R  T  L  R  M  A  S  F  G  L  L  I  L  G  T  A  Q  H  Y  W  F  N  F  V  A  S  V  L  P  K  R  D  T  I  S  T  L  K  K  L  L  M  G  Q  L  G  F  G  P  V  I  N  S  I  F  F  S  F  N  A  A  L  Q   : G  E  N  G  G  E  I  V  A  R  L  K  R  D  L  L  P  T  M  M  N  G  L  M  Y  W  P  L  C  D  F  L  T  Y  K  V  I  P  V  H  L  Q  :  P  L  A  N  S  A  F  A  Y  A  W  T  I  Y  L  T  Y  M  A  S  S  K  K  A  I  A  V  *  *  A  T  P  S  P  E  A  S  K  H  H  K  L  R  *  N  Y  C  *  S  V  L  I  L  S  C  S  N  I  V  Y  R  M  I  *  N  R  S  R  P  L  I  Q  *  L  Q  T  D  Y  F  F  H  *  F  S  L  F  S  I  S  S  V  S  M  K  T  S  L  *  V  Y  T  S  S  T  S  L  E  C  R  T  F  R  I  D  T  L  *  L  Q  I  I  N  F  K  S  L  S  L  H  K  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="C12HBa0095O18.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="59485" stop="59078"/>
                    <exon start="58350" stop="58122"/>
                    <exon start="56803" stop="56679"/>
                    <exon start="56319" stop="56236"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>843</number_coding_nucleotides>
                  <number_encoded_amino_acids>281</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>QCSLIFKNPQIHQTGKNREEKKSQIHSKMGLNFLTSLAKRTTIQHSNRCFTSKNSISRIWTESKSYSSKNFNTNTVSKTPSFSFLLLFRKSYSSSSSAKTQLGFLAWYLGALEARPIITKSISSAVIYAASDVTSQMIMMSPSDSLDIIRTLRMASFGLLILGTAQHYWFNFVASVLPKRDTISTLKKLLMGQLGFGPVINSIFFSFNAALQGENGGEIVARLKRDLLPTMMNGLMYWPLCDFLTYKVIPVHLQPLANSAFAYAWTIYLTYMASSKKAIAV*</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="64261" PGL_stop="65508"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="64261" e_stop="64538"/>
            <exon e_start="64997" e_stop="65111"/>
            <exon e_start="65309" e_stop="65508"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.960" e_score="0.885"/>
          <exon-intron don_prob="0.259" acc_prob="0.992" e_score="0.991"/>
          <exon-only e_score="0.965"/>
        </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="0.885">
            <gDNA_exon_boundary e_start="64261" e_stop="64538" e_length="278"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.960">
            <gDNA_intron_boundary i_start="64539" i_stop="64996" i_length="458"/>
          </intron>
          <exon e_serial="2" e_score="0.991">
            <gDNA_exon_boundary e_start="64997" e_stop="65111" e_length="115"/>
          </exon>
          <intron i_serial="2" don_prob="0.259" acc_prob="0.992">
            <gDNA_intron_boundary i_start="65112" i_stop="65308" i_length="197"/>
          </intron>
          <exon e_serial="3" e_score="0.965">
            <gDNA_exon_boundary e_start="65309" e_stop="65508" e_length="200"/>
          </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="64261" stop="64538"/>
              <exon start="64997" stop="65111"/>
              <exon start="65309" stop="65508"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M6726" 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>CCCACCTTACCAAATTGATAAAAAAAAAAAAAGAAGAAAAAATATTCTTCTACTTTAAATTTGATCCAAGCAAATCCAAATTGGTTCATTGTTTGTTTTTTTTTTGATAAAATTATAAATTTGTGATTGAATCAATTTTGGGTTTTCCCTTTTTTTTTTTTGGAATTTTTTGTGAAAAATTCGATTTGGGGGTTGAAGGATATGGGTTCATATTTTGATCGATGGGAGAAAGATCCGTTCTTCTCTGCTGCAGAGGAGGTTCAGGAATCTGCCGACAG : GATGGAATCAACTTATAGAACATGGATTCATGCGTTGAAGGATACTTCTGGACGTTGGAATTCCGACGAGCTGTGCAGAGACCTAAGGACTACCCTTGGCACTGCTAAATGGCAG : TTGGAGGAATTTGATCGGGCAGTTAGTTCAAGCTACAGTAATACATCAACTGATGATGCTAAAGAAAGGCATGGTGAATTTGTTATTGCCATGGATAATCAGATTAAGAAAGTAGAGAAGAGTCTAAATGAATCAGCTTTTTCACAAGGCAATCAATGGGTGCGCTTGGATGAGAGGGAGCTCGATGAACTAGCCGTGTT</gDNA_template>
            <first_frame> P  T  L  P  N  *  *  K  K  K  K  K  K  K  Y  S  S  T  L  N  L  I  Q  A  N  P  N  W  F  I  V  C  F  F  F  D  K  I  I  N  L  *  L  N  Q  F  W  V  F  P  F  F  F  L  E  F  F  V  K  N  S  I  W  G  L  K  D  M  G  S  Y  F  D  R  W  E  K  D  P  F  F  S  A  A  E  E  V  Q  E  S  A  D  R :   M  E  S  T  Y  R  T  W  I  H  A  L  K  D  T  S  G  R  W  N  S  D  E  L  C  R  D  L  R  T  T  L  G  T  A  K  W  Q  :  L  E  E  F  D  R  A  V  S  S  S  Y  S  N  T  S  T  D  D  A  K  E  R  H  G  E  F  V  I  A  M  D  N  Q  I  K  K  V  E  K  S  L  N  E  S  A  F  S  Q  G  N  Q  W  V  R  L  D  E  R  E  L  D  E  L  A  V   </first_frame>
            <second_frame>  P  P  Y  Q  I  D  K  K  K  K  R  R  K  N  I  L  L  L  *  I  *  S  K  Q  I  Q  I  G  S  L  F  V  F  F  L  I  K  L  *  I  C  D  *  I  N  F  G  F  S  L  F  F  F  W  N  F  L  *  K  I  R  F  G  G  *  R  I  W  V  H  I  L  I  D  G  R  K  I  R  S  S  L  L  Q  R  R  F  R  N  L  P  T   : G  W  N  Q  L  I  E  H  G  F  M  R  *  R  I  L  L  D  V  G  I  P  T  S  C  A  E  T  *  G  L  P  L  A  L  L  N  G  S :   W  R  N  L  I  G  Q  L  V  Q  A  T  V  I  H  Q  L  M  M  L  K  K  G  M  V  N  L  L  L  P  W  I  I  R  L  R  K  *  R  R  V  *  M  N  Q  L  F  H  K  A  I  N  G  C  A  W  M  R  G  S  S  M  N  *  P  C  </second_frame>
            <third_frame>   H  L  T  K  L  I  K  K  K  K  E  E  K  I  F  F  Y  F  K  F  D  P  S  K  S  K  L  V  H  C  L  F  F  F  *  *  N  Y  K  F  V  I  E  S  I  L  G  F  P  F  F  F  F  G  I  F  C  E  K  F  D  L  G  V  E  G  Y  G  F  I  F  *  S  M  G  E  R  S  V  L  L  C  C  R  G  G  S  G  I  C  R  Q  :  D  G  I  N  L  *  N  M  D  S  C  V  E  G  Y  F  W  T  L  E  F  R  R  A  V  Q  R  P  K  D  Y  P  W  H  C  *  M  A   : V  G  G  I  *  S  G  S  *  F  K  L  Q  *  Y  I  N  *  *  C  *  R  K  A  W  *  I  C  Y  C  H  G  *  S  D  *  E  S  R  E  E  S  K  *  I  S  F  F  T  R  Q  S  M  G  A  L  G  *  E  G  A  R  *  T  S  R  V </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="C12HBa0095O18.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="64387" stop="64538"/>
                    <exon start="64997" stop="65111"/>
                    <exon start="65309" stop="65506"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>465</number_coding_nucleotides>
                  <number_encoded_amino_acids>155</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LNQFWVFPFFFLEFFVKNSIWGLKDMGSYFDRWEKDPFFSAAEEVQESADRMESTYRTWIHALKDTSGRWNSDELCRDLRTTLGTAKWQLEEFDRAVSSSYSNTSTDDAKERHGEFVIAMDNQIKKVEKSLNESAFSQGNQWVRLDERELDELAV</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 37 chains have been computed
$ 
$ memory statistics:
$ 6328 bytes spliced alignments in total
$ 3 spliced alignments have been stored
$ 2109 bytes was the average size of a spliced alignment
$ 6864 bytes predicted gene locations in total
$ 2 predicted gene locations have been stored
$ 3432 bytes was the average size of a predicted gene location
$ 1 megabytes was the average size of the backtrace matrix
$ 38 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-16 00:18:48
-->
