<?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="2009-01-07 09:13:17"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C12SLe0097H19-JSAZU/GenomeThreader_SGN_U_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C12SLe0097H19-JSAZU/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" 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-C12SLe0097H19-JSAZU/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U338087" ref_strand="+" ref_description="SGN-U338087        Tomato 200607 #1 [1 ESTs aligned]">
      <seq>atttttcagagagagtttttcagcagctaaaagagagaaaaaagagagaaattcgcagtcaaaaatccagccataacaaccaacttcaaattgcgattcccgcttcgtttcttgtccgattgagctgatttttggacagcatattatcttcatctcaatctttgattaggaactgacagagttggatttggtggtctgcagcttcagttttgctgtcgtgaacagtagctgcgaaattggtgattttgctcctttaattctctagatttggagcaatcttattttgttgttgctcgttgtttgacactttgttttgtggccaattttggagaacaatattgtaactcttggtgattatagtggagcttttggacccgtggttttttactcttcacatcgaaggggtttccacgtaaatcttgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12SLe0097H19-JSAZU/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12SLe0097H19.1" temp_strand="+" temp_description="C12SLe0097H19.1  AC216403.1 htgs_phase:1 submitted_to_sgn_as:C12SLe0097H19 upload_account_name:italy *** WORKING DRAFT SEQUENCE ***">
        <position start="25106" stop="26131"/>
      </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="25406" g_stop="25831" g_length="426"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="425" r_length="425" r_score="0.960"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12SLe0097H19.1" gen_strand="+" ref_id="SGN-U338087" ref_strand="+">
        <total_alignment_score>0.960</total_alignment_score>
        <cumulative_length_of_scored_exons>426</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12SLe0097H19.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U338087" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25406" e_stop="25831"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTTTTAGAGAGAGTTTTTCAGCAGCCAAAAGAGAGAAAAAAAGAGAGAAATTCGTAGTCAAAAATCCAGCCATAACAACCAACTTCAAATTGCGATTTCCGCTTCGTTTCTTGTCCGATTGAGCTGATTTTTGGACAGCATATTATCTTCATCTCAATCTTTGATTAGGAACTAACAGAGTTGAATTTGGTGGTCTTCAGCTTCAGTTTTGCTATCGTGAACAGTAGCTGCGAAATTGGTGATTTTGCTCCTTTAATTCTCTAGATTTGGTGCAATATTATTTTGTTGTTGCTCGTTGTTTGGCACTTTGTTTTGTGGCCAATTTTGGAGAACAATATTGTAACTCTTGGTGATTATAGTGGAGCTTTTGGTCCCGTGGTTTTTTACTCTTCACACCGAAGGGTTTTCTACGTAAATCTTGGTG</genome_strand>
        <mrna_strand>ATTTTTCAGAGAGAGTTTTTCAGCAGCTAAAAGAGAG-AAAAAAGAGAGAAATTCGCAGTCAAAAATCCAGCCATAACAACCAACTTCAAATTGCGATTCCCGCTTCGTTTCTTGTCCGATTGAGCTGATTTTTGGACAGCATATTATCTTCATCTCAATCTTTGATTAGGAACTGACAGAGTTGGATTTGGTGGTCTGCAGCTTCAGTTTTGCTGTCGTGAACAGTAGCTGCGAAATTGGTGATTTTGCTCCTTTAATTCTCTAGATTTGGAGCAATCTTATTTTGTTGTTGCTCGTTGTTTGACACTTTGTTTTGTGGCCAATTTTGGAGAACAATATTGTAACTCTTGGTGATTATAGTGGAGCTTTTGGACCCGTGGTTTTTTACTCTTCACATCGAAGGGGTTTCCACGTAAATCTTGATG</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-C12SLe0097H19-JSAZU/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U313673" ref_strand="+" ref_description="SGN-U313673        Tomato 200607 #1 [72 ESTs aligned] arabidopsis/peptide: AT5G62180.1 | Symbol: None | expressed protein, similar to PrMC3, Pinus radiata, GI:5487873 | chr5:24996070-24997075 REVERSE | Aliases: MMI9.26 (evalue: 3e-63, score=239) genbank/nr: gi|8574455|gb|AAF77578.1| pepper esterase [Capsicum annuum](evalue: 7e-141, score=503)">
      <seq>tatctgagatatcagatatattctgaaatacatatacataagaagagatgtgaacgagaaaagagagtacggagtgagataaagaaagacaagttaaaaagtaagaaaaatatgaattcattgcatctcaaaaaaaaaaaattacccataattattgcaattttcaatataataattcctagtggtcacttgccagaaatattcttcttcttcttatatataacccctaatatatagctaacttcctataatacatatttttgggatcaataattatgtctagccaaaaatttgttcgtccaatttttgacaatccatttttgaacattgaagaattaccaaatgatacaattaaacgtcaacctgaacccctcacacaagccaattttgatcccaatggtacttctttagtcatatctaaggatgtagacctagacagcaataaaaaaacatggatgagaatctacgtaccacgacgaataattgcaaatcatgacgatgataaattgccagttattttctactatcatggcggaggctttgtcttctttcatgttaatagttatggttcggatctattttgtcaacaactatctgagaaacttgacgcgatgattattgcccttgaatatcgtttggcccctgaaaatcgacttcctgcagcttacgatgatgccatagatgggttaaattggattaaatcaactcaagatgaatggattcaaaattatgctaatttgagtaatgtttatctttttggatcaagttctggtggaaacttggcttaccatgcagggttacgcgtagcatctttttcagacaaaaaactagaaccagtgaagatcaaagggcttatcttgcatcaaccatatttcagtggaaaaaataggacagaatctgaagagaagctaaaagatgatccaactttgccatttcaagcaattgataagatgtttgacttgtccttaccaaaaggaacactagatcatgatcatgaatattccaacccattacttaacggagggtcaaagcatttagatgatatgatcacacgaggctgggggatccttgtcaccggtgtctctgaagatcctttaatcgatgcctcgcgcaactttgctgattttattgaaaagaaaggtgtaaaaactttcaagctctttggagatggttaccatgttattgagttgtttgagccatctaaggctgcagtcttatttgatgccattagggatctcatatctgctactaaaaattaaaagtattgagtttgttttgttatatttccttttgtgcaaataagagaggagtgtatagtatgcattcctttgtgtgtaagattactttaagttgttatatttttctcatgaataaaagtttttaggattgagttagttctaatatctactaaatttgtaagtttaaagacataatatcatcacccaaaaattagttgcaaagcaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12SLe0097H19-JSAZU/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12SLe0097H19.1" temp_strand="-" temp_description="C12SLe0097H19.1  AC216403.1 htgs_phase:1 submitted_to_sgn_as:C12SLe0097H19 upload_account_name:italy *** WORKING DRAFT SEQUENCE ***">
        <position start="33113" stop="27429"/>
      </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="32813" g_stop="32019" g_length="795"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="795" r_length="795" r_score="0.990"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="32018" i_stop="28403" i_length="3616">
            <donor d_prob="0.926" d_score="1.00"/>
            <acceptor a_prob="0.975" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="28402" g_stop="27736" g_length="667"/>
          <reference_exon_boundary r_type="cDNA" r_start="796" r_stop="1462" r_length="667" r_score="0.999"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="1463" polyA_stop="1488"/>
      <MATCH_line gen_id="C12SLe0097H19.1" gen_strand="-" ref_id="SGN-U313673" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>1462</cumulative_length_of_scored_exons>
        <coverage percentage="0.983" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12SLe0097H19.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U313673" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="32813" e_stop="32019"/>
          <exon e_start="28402" e_stop="27736"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATCTGAGATATCAGATATATTCTGAAATACATATACATAAGAAGAGATGTGAACGAGAAAAGAGCGTACAGAGTGAGATAAAGAAAGACAAGTTAAAAAGTAAGAAAAATATGAATTCATTGCATCTCAAAAAAAAAAAATTACACATAATTATTGCAATTTTCAATATAATAATTCCTAGTTGTCACTTGTCAGTAATATTCTTCTTCTTCTTATATATAACCCCTAATATATAGCTAACTTCCTATAATACATATTTTTGTGATCAATAATTATGTCTAGCCAAAAATTTGTTCGTCCAATTTTTGACAATCCATTTTTGAACATTGAAGAATTACCAAATGATACAATTAAACGTCAACCTGAACCCCTCACACAAGCCAATTTTGATCCCAATGGTACTTCTTTAGTCATATCTAAGGATGTAGACCTAGACAGCAATAAAAAAACATGGATGAGAATCTACGTACCACGACGAATAATTGCAAATCATGACGATGATAAATTGCCAGTTATTTTCTACTATCATGGCGGAGGCTTTGTCTTCTTTCATGTTAATAGTTATGGTTCGGATCTATTTTGTCAACAACTATCTGAGAAACTTGACGCGATGATTATTGCCCTTGAATATCGTTTGGCCCCTGAAAATCGACTTCCTGCAGCTTACGATGATGCCATAGATGGGTTAAATTGGATTAAATCAACTCAAGATGAATGGATTCAAAATTATGCTGATTTGAGTAATGTTTATCTTTTTGGATCAAGTTCTGGTGGAAACTTGGCTTACCATGCAGGTACTTTGTTAGAGTTATTTGGATTCAAGATTTAAAATTGATACATTCAATTCTCTATATATTTATGTTCATTATAGTAACAAAGTATCTTAGTTTAACTGGATACTAAGTTTTTGAATTTTATGATTTCAAATTAAAATATCATGATGTGTAGTATTTTCAAACTGGTGGCGTAAATTTACGCCAAAAAAGGTTTGGGATAACGGTATCATTTACTTCCTTTCTTTCAATTTATATGATTTATTTTTTTTTAATCAGTCAAAAAAGAGTTATATCACATTTTCTTTGTTGACAAATATTTAACAATATTGTCAAATAGTTTATGCTTGTTGAGTCCCACTTATTTGGCAAGAAGTCTACATTAGGTGTACTCTTTTTAAGGTTAGTTTGGTAACATTGTAAAGTATTCCTTTTAAGTTTCTTTTAACTATGTGCTCAATCAAACTATATATTAGGTGAGGAGGGAATAATAAGGAGATTAACTAGCTTTGATTAGAGTACATCCCTTTTATTAACTGTCTAAATTTATATGTATTGAACTAATTATAATTTTATGGGCTAATTTTGTCACCCTTACCTACAGGGTTACGCGTAACATCTTTTTCAGACAAAAAACTAGAACCAGTGAAGATCAAAGGGCTTATCTTGCATCAACCATATTTCAGTGGAAAAAATAGGACAGAATCTGAAGAGAAGCTAAGAGATGATCCAACTTTGCCATTTCAAGCAATTGATAAGATGTTTGACTTGTCCTTACCAAAAGGAACACTAGATCATGATCATGAATATTCCAACCCATTACTTAACGGAGGGTCAAAGCATTTAGATGATATGATCACACGAGGCTGGGGGATCCTTGTCACCGGTGTCTCTGAAGATCCTTTAATCGGTGCCTCGACTTTGCTGATTTTATTGAAAAGAAAGGTGTAAAAACTTTCAAGCTCTTTGGAGATGGTTACCATGTTATTGAGTTGTTTGAGCCATCTAAGGCTGCAGTCTTATTTGATGCCATTAGGGATCTCATATCTGCTACTAAAAATTAAAAGTATTGAGTTTGTTTTGTTATATTTCCTTTTGTGCAAATAAGAGTGGAGTGTATAGTATGCATTCCTTTGTGTGTAAGATTACTTTAAGTTGTTATATTTTTCTCATGAATAAAAGTTTCTAGGATTGAGTTAGTTCTAATATCTACTAAATTTGTAAATTTAAAGACATAATATCATCACCCAAAAATTAGTTGCAAAGCATACATATGTATGATATTATTTTCTGATCCTTCGCATGGATGTTGGTGAGAAATTTAGACTTTGAAATTTATTGAATGTGAAATATTCAATAAGACAAGAATAGAATTTATGAAAACCATGCATGTGATTAATCAACCCCAATCATTTTTATCAAATTCAACTTAACTTCTATTAAAAAGGATGTGGTGGCAAAGTTTTAAAAATTGATTCTACTTTGTTAGACCCACAACTAAAAGCTTGTTCAACTAGACAAACTTATGTACTAATAAACATTATCATAATTTCATAATTTTTACTACACACTCTCTCTCTCTCTTTTGCATGAGACAGTAATAGTTGAGTGGTTGATTCGATTCCTTGGAAAACTTTATTCTTTGTGTTTCACAATAACCTGTGCACCACTCTTTTTCTAGCTTAGCTTGTGCAATCCTATAGGCAGAGAGAGTAGTATGGTGGGAATATTGATCAATAATGAAGCTGTCCAAGTGATTGAATCCACCACTCAACTGCTACTATTTTATGTAAATGAAAGAGAAAAGTAAAACATGAAATGATAATAATAAATAATATTATGTAAGTATGTCTAGTTGAACATGTTTTAAGTTTTGGGGTCCAGCAAAGTAGGATAATTTTTTGAATTTGCAACCATTTCCTCTTTAAATAGATGTGAATATGAATGTGATGAAAATGATACGGGCTGATTAACCAAGATTCATATAGAGAAGTGTCACTTTGGTATGAAGCTTTTCCTACCAAAGGTGACTTTAACAGTTTAGTCCTATAAAAAATGTAACAATAGTATGTAGTTTTGATGATTGACAAAGTATTTTGATGTTTTACAAAGTAAACTATGTTGCATTGTTTATTGTCATCAAAAAGGGAGAAATTGTTTAGAAATAGGTGAACATATAGATGATTAATAAACTTAACGTGGTTCATCTTATATATAATCAATTAGGTTAATCAAATCCACACACATGAATGCAGACAACCTGTATAGATATGAGAGATTGCAGCAAAGAAAAAACTAATAAATTTATAAATAAAAGATGTAAAAAAAGAAACAACTTAAATGAAGAAGTAAAATAAGAGTAAAAGTAAAGTCCAGGCGGCCCGCACACCACCCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACACGCTCTCCGGGTGGGGTGCGGCCGCCTCTTAATTATGTCTAGCCAAAAATTTGTTCGTCCAATTTTTGACAATCTATTTTTGAACATTGAAGAATTACCAAATGATACAATTAAACGTCAACCTGAACCCCTCACACAAGCCAATTTTGATCCCAATGGTACTTCTTTAGTCATATCTAAGGATGTAGACCTAGACAGCAATAAAAAAACATGGATGAGAATCTACGTACCACGACGAATAATTGCAAATCATGACGATGATAAATTGCCAGTTATTTTCTACTATCATGGCGGAGGCTTTGTCTTCTTTCATGTTAATAGTTATGGTTCGGATCTATTTTGTCAACAACTATCTGAGAAACTTGACGCGATGATTATTGCCCTTGAATATCGTTTGGCCCCTGAAAATCGACTTCCGGCAGCTTACGATGATGCCATAGATGGGTTAAATTGGATTAAATCAACTCAAGATGAATGGATTCAAAATTATGCTAATTTGAGTAATGTTTATCTTTTTGGATCAAGTTCTGGTGGAAACTTGGCTTACCATGCAGGTACTTTGTTAGAGTTATTTGGATTCAAGATTTAAAATTGATACATTCAATTCTCTATATATTTATGTTCATTATAGTAACAAAGTATCTTAGTTTAACTGGATACTAAATTTTTGAATTTTATGATTTCAAATTAAAATATCATGATGTGTAGTATTTTTAAACTGGTGGCGTAAATTTACGACAAAAAAGGTTTGGGATAACGGTATCATTTACTTCCTTTCTTTCAATTTATATGATTTAGTTTTCTTTTTTAATCAGTAAAAAAGAGTTATATCACATTTTCTTTGTTGACAAATATTTAACAATATTGTCAAATAGTTTATGCTTGTTGAGTCCCACTTATTTGGCAAGAAGTCTACATTAGGTGTACTCTTTTTAAGGTTAGTTTGGTAACATTGTAAAGTATTCCTTTTAAGTTTCTTTTAACTCTGTGCTCAATCAAACTATATATTAGGTGAGGAGGGAATAATAAGGAGATTAACTAGCTTTGATTAGAGTACATCCCTTTTATTAACCGTCTAAATTTATATGTATTGAACTAATTATAATTTTATGGGCTAATTTTGTCACCCTTACCTACAGGGTTACGCGTAGCATCTTTTTCAGACAAAAAACTAGAACCAGTGAAGATCAAAGGGCTTATCTTGCATCAACCATATTTCAGTGGAAAAAATAGGACAGAATCTGAAGAGAAGCTAAAAGATGATCCAACTTTGCCATTTCAAGCAATTGATAAGATGTTTGACTTGTCCTTACCAAAAGGAACACTAGATCATGATCATGAATATTCCAACCCATTACTTAACGGAGGGTCAAAGCATTTAGATGATATGATCACACGAGGCTGGGGGATCCTTGTCACCGGTGTCTCTGAAGATCCTTTAATCGATGCCTCGCGCAACTTTGCTGATTTTATTGAAAAGAAAGGTGTAAAAACTTTCAAGCTCTTTGGAGATGGTTACCATGTTATTGAGTTGTTTGAGCCATCTAAGGCTGCAGTCTTATTTGATGCCATTAGGGATCTCATATCTGCTACTAAAAATTAAAAGTATTGAGTTTGTTTTGTTATATTTCCTTTTGTGCAAATAAGAGAGGAGTGTATAGTATGCATTCCTTTGTGTGTAAGATTACTTTAAGTTGTTATATTTTTCTCATGAATAAAAGTTTCTAGGATTGAGTTAGTTCTAATATCTACTAAATTTGTAAGTTTAAAGACATAATATCATCACCCAAAAATTAGTTGCAAAGC</genome_strand>
        <mrna_strand>TATCTGAGATATCAGATATATTCTGAAATACATATACATAAGAAGAGATGTGAACGAGAAAAGAGAGTACGGAGTGAGATAAAGAAAGACAAGTTAAAAAGTAAGAAAAATATGAATTCATTGCATCTCAAAAAAAAAAAATTACCCATAATTATTGCAATTTTCAATATAATAATTCCTAGTGGTCACTTGCCAGAAATATTCTTCTTCTTCTTATATATAACCCCTAATATATAGCTAACTTCCTATAATACATATTTTTGGGATCAATAATTATGTCTAGCCAAAAATTTGTTCGTCCAATTTTTGACAATCCATTTTTGAACATTGAAGAATTACCAAATGATACAATTAAACGTCAACCTGAACCCCTCACACAAGCCAATTTTGATCCCAATGGTACTTCTTTAGTCATATCTAAGGATGTAGACCTAGACAGCAATAAAAAAACATGGATGAGAATCTACGTACCACGACGAATAATTGCAAATCATGACGATGATAAATTGCCAGTTATTTTCTACTATCATGGCGGAGGCTTTGTCTTCTTTCATGTTAATAGTTATGGTTCGGATCTATTTTGTCAACAACTATCTGAGAAACTTGACGCGATGATTATTGCCCTTGAATATCGTTTGGCCCCTGAAAATCGACTTCCTGCAGCTTACGATGATGCCATAGATGGGTTAAATTGGATTAAATCAACTCAAGATGAATGGATTCAAAATTATGCTAATTTGAGTAATGTTTATCTTTTTGGATCAAGTTCTGGTGGAAACTTGGCTTACCATGCAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTTACGCGTAGCATCTTTTTCAGACAAAAAACTAGAACCAGTGAAGATCAAAGGGCTTATCTTGCATCAACCATATTTCAGTGGAAAAAATAGGACAGAATCTGAAGAGAAGCTAAAAGATGATCCAACTTTGCCATTTCAAGCAATTGATAAGATGTTTGACTTGTCCTTACCAAAAGGAACACTAGATCATGATCATGAATATTCCAACCCATTACTTAACGGAGGGTCAAAGCATTTAGATGATATGATCACACGAGGCTGGGGGATCCTTGTCACCGGTGTCTCTGAAGATCCTTTAATCGATGCCTCGCGCAACTTTGCTGATTTTATTGAAAAGAAAGGTGTAAAAACTTTCAAGCTCTTTGGAGATGGTTACCATGTTATTGAGTTGTTTGAGCCATCTAAGGCTGCAGTCTTATTTGATGCCATTAGGGATCTCATATCTGCTACTAAAAATTAAAAGTATTGAGTTTGTTTTGTTATATTTCCTTTTGTGCAAATAAGAGAGGAGTGTATAGTATGCATTCCTTTGTGTGTAAGATTACTTTAAGTTGTTATATTTTTCTCATGAATAAAAGTTTTTAGGATTGAGTTAGTTCTAATATCTACTAAATTTGTAAGTTTAAAGACATAATATCATCACCCAAAAATTAGTTGCAAAGC</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-C12SLe0097H19-JSAZU/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U329531" ref_strand="+" ref_description="SGN-U329531        Tomato 200607 #1 [3 ESTs aligned] arabidopsis/peptide: AT4G23160.1 | Symbol: None | protein kinase family protein, contains Pfam domain PF00069: Protein kinase domain | chr4:12129496-12134198 FORWARD | Aliases: F21P8.50, F21P8_50 (evalue: 5e-38, score=139) genbank/nr: putative(evalue: 2e-47, score=171)">
      <seq>gctgtggaaaggtacaaggctcgacttgtggcaaagggttatagccaacaagaggggttagattacactgagatcttctctccagtttctaagatggttactgtcaggtcggttgtggctgtggcaacagctaaacattggtctatttttcagatggatgttcataatgcttttcttcaaggggatttaatggaggaggtgtatttagaggttccttctggttttgccagccaggaggggaaacatgttgtctgcaaattacataagtctctttatggactcaaacaggcgcctaggcaatggaacaagaaactcacagatgcattggtacaacttggcttctcacaaagtcattttgactattctttattcaccaagacagttcaaggaaagctggtaattgtcttagtttatgtggatgattttcaggtaacaggaagcaatacagacttgattctacaaacaaggatgacttaaagctaaagttcaaaatgaaagatcttggagaattgaagttttttctaggaattcaatttgctagatcacaaaagggaatagtgatgagccaaaggaagtatgcattggaactaattattgagttgggattangaggaactaaactagnttacacacctttggaacaaatctgaagctacatcagttgactatgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C12SLe0097H19-JSAZU/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C12SLe0097H19.1" temp_strand="-" temp_description="C12SLe0097H19.1  AC216403.1 htgs_phase:1 submitted_to_sgn_as:C12SLe0097H19 upload_account_name:italy *** WORKING DRAFT SEQUENCE ***">
        <position start="59122" stop="57847"/>
      </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="58822" g_stop="58147" g_length="676"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="673" r_length="673" r_score="0.957"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C12SLe0097H19.1" gen_strand="-" ref_id="SGN-U329531" ref_strand="+">
        <total_alignment_score>0.957</total_alignment_score>
        <cumulative_length_of_scored_exons>676</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C12SLe0097H19.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U329531" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="58822" e_stop="58147"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGTGGAAAGGTACAAGGCTCGACTTGTGGCAAAGGGTTATAGCCAACAAGAGGGGTTAGATTACACTGAGACCTTCTCTCCAGTTTCTAAGATGGTTACTGTCAGGTCGGTTGTGGCTGTGGTAGCAGCTAAACATTGGTCTATTTTTCATATGGATGTTCATAATGCTTTTCTTCAAGGGGATTTAGTGGAGGAGGTGTATTTAGAGGTTCCTTCTGGTTTTGCCAGACAGGAGGGGAAGCATGTTGTCTGCAAATTACATAAGTCTCTTTATGGACTCAAACAGGCACCTAGTCAATGGAATAAGAAACTCACAGATGCATTGGTACAACTTGGCTTCTCACAAAGTAATTTTGACTATTCTTTATTCACCAAGACAGTTCAAGGAGAGCTGGTAATTGTCTTAGTTTATGTGGATGATTTGTTGGTAACAGGAAGCAATACAGACTTGATTCTACAAACAAGGAATGACTTAAAGCTAAAGTTCAAAATGAAAGATCTTGGAGAATTGAAGTTTTTTCTAGGAATTGAATTTGCTAGATAACAAAAGGGAATAGTGATGAGCCAAAGGAAGTATGCATTGGAACTAATTAGTGAGTTCGGATTACGTGGCACTAAACCAGTTAACACACCTTTGGAAACAAATCTGAAGCTTACATCAGTTGACTGTGATG</genome_strand>
        <mrna_strand>GCTGTGGAAAGGTACAAGGCTCGACTTGTGGCAAAGGGTTATAGCCAACAAGAGGGGTTAGATTACACTGAGATCTTCTCTCCAGTTTCTAAGATGGTTACTGTCAGGTCGGTTGTGGCTGTGGCAACAGCTAAACATTGGTCTATTTTTCAGATGGATGTTCATAATGCTTTTCTTCAAGGGGATTTAATGGAGGAGGTGTATTTAGAGGTTCCTTCTGGTTTTGCCAGCCAGGAGGGGAAACATGTTGTCTGCAAATTACATAAGTCTCTTTATGGACTCAAACAGGCGCCTAGGCAATGGAACAAGAAACTCACAGATGCATTGGTACAACTTGGCTTCTCACAAAGTCATTTTGACTATTCTTTATTCACCAAGACAGTTCAAGGAAAGCTGGTAATTGTCTTAGTTTATGTGGATGATTTTCAGGTAACAGGAAGCAATACAGACTTGATTCTACAAACAAGG-ATGACTTAAAGCTAAAGTTCAAAATGAAAGATCTTGGAGAATTGAAGTTTTTTCTAGGAATTCAATTTGCTAGATCACAAAAGGGAATAGTGATGAGCCAAAGGAAGTATGCATTGGAACTAATTATTGAGTTGGGATTANGAGGAACTAAACTAGNTTACACACCTTTGG-AACAAATCTGAAGC-TACATCAGTTGACTATGATG</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="25406" PGL_stop="25831"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="25406" e_stop="25831"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.960"/>
        </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="0.960">
            <gDNA_exon_boundary e_start="25406" e_stop="25831" e_length="426"/>
          </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="25406" stop="25831"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U338087" 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>ATTTTTTAGAGAGAGTTTTTCAGCAGCCAAAAGAGAGAAAAAAAGAGAGAAATTCGTAGTCAAAAATCCAGCCATAACAACCAACTTCAAATTGCGATTTCCGCTTCGTTTCTTGTCCGATTGAGCTGATTTTTGGACAGCATATTATCTTCATCTCAATCTTTGATTAGGAACTAACAGAGTTGAATTTGGTGGTCTTCAGCTTCAGTTTTGCTATCGTGAACAGTAGCTGCGAAATTGGTGATTTTGCTCCTTTAATTCTCTAGATTTGGTGCAATATTATTTTGTTGTTGCTCGTTGTTTGGCACTTTGTTTTGTGGCCAATTTTGGAGAACAATATTGTAACTCTTGGTGATTATAGTGGAGCTTTTGGTCCCGTGGTTTTTTACTCTTCACACCGAAGGGTTTTCTACGTAAATCTTGGTG</gDNA_template>
            <first_frame> I  F  *  R  E  F  F  S  S  Q  K  R  E  K  K  R  E  I  R  S  Q  K  S  S  H  N  N  Q  L  Q  I  A  I  S  A  S  F  L  V  R  L  S  *  F  L  D  S  I  L  S  S  S  Q  S  L  I  R  N  *  Q  S  *  I  W  W  S  S  A  S  V  L  L  S  *  T  V  A  A  K  L  V  I  L  L  L  *  F  S  R  F  G  A  I  L  F  C  C  C  S  L  F  G  T  L  F  C  G  Q  F  W  R  T  I  L  *  L  L  V  I  I  V  E  L  L  V  P  W  F  F  T  L  H  T  E  G  F  S  T  *  I  L  V </first_frame>
            <second_frame>  F  F  R  E  S  F  S  A  A  K  R  E  K  K  R  E  K  F  V  V  K  N  P  A  I  T  T  N  F  K  L  R  F  P  L  R  F  L  S  D  *  A  D  F  W  T  A  Y  Y  L  H  L  N  L  *  L  G  T  N  R  V  E  F  G  G  L  Q  L  Q  F  C  Y  R  E  Q  *  L  R  N  W  *  F  C  S  F  N  S  L  D  L  V  Q  Y  Y  F  V  V  A  R  C  L  A  L  C  F  V  A  N  F  G  E  Q  Y  C  N  S  W  *  L  *  W  S  F  W  S  R  G  F  L  L  F  T  P  K  G  F  L  R  K  S  W   </second_frame>
            <third_frame>   F  L  E  R  V  F  Q  Q  P  K  E  R  K  K  E  R  N  S  *  S  K  I  Q  P  *  Q  P  T  S  N  C  D  F  R  F  V  S  C  P  I  E  L  I  F  G  Q  H  I  I  F  I  S  I  F  D  *  E  L  T  E  L  N  L  V  V  F  S  F  S  F  A  I  V  N  S  S  C  E  I  G  D  F  A  P  L  I  L  *  I  W  C  N  I  I  L  L  L  L  V  V  W  H  F  V  L  W  P  I  L  E  N  N  I  V  T  L  G  D  Y  S  G  A  F  G  P  V  V  F  Y  S  S  H  R  R  V  F  Y  V  N  L  G  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C12SLe0097H19.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="-" PGL_start="32813" PGL_stop="27736"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="32813" e_stop="32019"/>
            <exon e_start="28402" e_stop="27736"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.926" acc_prob="0.975" e_score="0.990"/>
          <exon-only e_score="0.999"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.990">
            <gDNA_exon_boundary e_start="32813" e_stop="32019" e_length="795"/>
          </exon>
          <intron i_serial="1" don_prob="0.926" acc_prob="0.975">
            <gDNA_intron_boundary i_start="32018" i_stop="28403" i_length="3616"/>
          </intron>
          <exon e_serial="2" e_score="0.999">
            <gDNA_exon_boundary e_start="28402" e_stop="27736" e_length="667"/>
          </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="32813" stop="32019"/>
              <exon start="28402" stop="27736"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U313673" 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>TATCTGAGATATCAGATATATTCTGAAATACATATACATAAGAAGAGATGTGAACGAGAAAAGAGCGTACAGAGTGAGATAAAGAAAGACAAGTTAAAAAGTAAGAAAAATATGAATTCATTGCATCTCAAAAAAAAAAAATTACACATAATTATTGCAATTTTCAATATAATAATTCCTAGTTGTCACTTGTCAGTAATATTCTTCTTCTTCTTATATATAACCCCTAATATATAGCTAACTTCCTATAATACATATTTTTGTGATCAATAATTATGTCTAGCCAAAAATTTGTTCGTCCAATTTTTGACAATCCATTTTTGAACATTGAAGAATTACCAAATGATACAATTAAACGTCAACCTGAACCCCTCACACAAGCCAATTTTGATCCCAATGGTACTTCTTTAGTCATATCTAAGGATGTAGACCTAGACAGCAATAAAAAAACATGGATGAGAATCTACGTACCACGACGAATAATTGCAAATCATGACGATGATAAATTGCCAGTTATTTTCTACTATCATGGCGGAGGCTTTGTCTTCTTTCATGTTAATAGTTATGGTTCGGATCTATTTTGTCAACAACTATCTGAGAAACTTGACGCGATGATTATTGCCCTTGAATATCGTTTGGCCCCTGAAAATCGACTTCCTGCAGCTTACGATGATGCCATAGATGGGTTAAATTGGATTAAATCAACTCAAGATGAATGGATTCAAAATTATGCTGATTTGAGTAATGTTTATCTTTTTGGATCAAGTTCTGGTGGAAACTTGGCTTACCATGCAG : GGTTACGCGTAGCATCTTTTTCAGACAAAAAACTAGAACCAGTGAAGATCAAAGGGCTTATCTTGCATCAACCATATTTCAGTGGAAAAAATAGGACAGAATCTGAAGAGAAGCTAAAAGATGATCCAACTTTGCCATTTCAAGCAATTGATAAGATGTTTGACTTGTCCTTACCAAAAGGAACACTAGATCATGATCATGAATATTCCAACCCATTACTTAACGGAGGGTCAAAGCATTTAGATGATATGATCACACGAGGCTGGGGGATCCTTGTCACCGGTGTCTCTGAAGATCCTTTAATCGATGCCTCGCGCAACTTTGCTGATTTTATTGAAAAGAAAGGTGTAAAAACTTTCAAGCTCTTTGGAGATGGTTACCATGTTATTGAGTTGTTTGAGCCATCTAAGGCTGCAGTCTTATTTGATGCCATTAGGGATCTCATATCTGCTACTAAAAATTAAAAGTATTGAGTTTGTTTTGTTATATTTCCTTTTGTGCAAATAAGAGAGGAGTGTATAGTATGCATTCCTTTGTGTGTAAGATTACTTTAAGTTGTTATATTTTTCTCATGAATAAAAGTTTCTAGGATTGAGTTAGTTCTAATATCTACTAAATTTGTAAGTTTAAAGACATAATATCATCACCCAAAAATTAGTTGCAAAGC</gDNA_template>
            <first_frame> Y  L  R  Y  Q  I  Y  S  E  I  H  I  H  K  K  R  C  E  R  E  K  S  V  Q  S  E  I  K  K  D  K  L  K  S  K  K  N  M  N  S  L  H  L  K  K  K  K  L  H  I  I  I  A  I  F  N  I  I  I  P  S  C  H  L  S  V  I  F  F  F  F  L  Y  I  T  P  N  I  *  L  T  S  Y  N  T  Y  F  C  D  Q  *  L  C  L  A  K  N  L  F  V  Q  F  L  T  I  H  F  *  T  L  K  N  Y  Q  M  I  Q  L  N  V  N  L  N  P  S  H  K  P  I  L  I  P  M  V  L  L  *  S  Y  L  R  M  *  T  *  T  A  I  K  K  H  G  *  E  S  T  Y  H  D  E  *  L  Q  I  M  T  M  I  N  C  Q  L  F  S  T  I  M  A  E  A  L  S  S  F  M  L  I  V  M  V  R  I  Y  F  V  N  N  Y  L  R  N  L  T  R  *  L  L  P  L  N  I  V  W  P  L  K  I  D  F  L  Q  L  T  M  M  P  *  M  G  *  I  G  L  N  Q  L  K  M  N  G  F  K  I  M  L  I  *  V  M  F  I  F  L  D  Q  V  L  V  E  T  W  L  T  M  Q  :  G  Y  A  *  H  L  F  Q  T  K  N  *  N  Q  *  R  S  K  G  L  S  C  I  N  H  I  S  V  E  K  I  G  Q  N  L  K  R  S  *  K  M  I  Q  L  C  H  F  K  Q  L  I  R  C  L  T  C  P  Y  Q  K  E  H  *  I  M  I  M  N  I  P  T  H  Y  L  T  E  G  Q  S  I  *  M  I  *  S  H  E  A  G  G  S  L  S  P  V  S  L  K  I  L  *  S  M  P  R  A  T  L  L  I  L  L  K  R  K  V  *  K  L  S  S  S  L  E  M  V  T  M  L  L  S  C  L  S  H  L  R  L  Q  S  Y  L  M  P  L  G  I  S  Y  L  L  L  K  I  K  S  I  E  F  V  L  L  Y  F  L  L  C  K  *  E  R  S  V  *  Y  A  F  L  C  V  *  D  Y  F  K  L  L  Y  F  S  H  E  *  K  F  L  G  L  S  *  F  *  Y  L  L  N  L  *  V  *  R  H  N  I  I  T  Q  K  L  V  A  K  </first_frame>
            <second_frame>  I  *  D  I  R  Y  I  L  K  Y  I  Y  I  R  R  D  V  N  E  K  R  A  Y  R  V  R  *  R  K  T  S  *  K  V  R  K  I  *  I  H  C  I  S  K  K  K  N  Y  T  *  L  L  Q  F  S  I  *  *  F  L  V  V  T  C  Q  *  Y  S  S  S  S  Y  I  *  P  L  I  Y  S  *  L  P  I  I  H  I  F  V  I  N  N  Y  V  *  P  K  I  C  S  S  N  F  *  Q  S  I  F  E  H  *  R  I  T  K  *  Y  N  *  T  S  T  *  T  P  H  T  S  Q  F  *  S  Q  W  Y  F  F  S  H  I  *  G  C  R  P  R  Q  Q  *  K  N  M  D  E  N  L  R  T  T  T  N  N  C  K  S  *  R  *  *  I  A  S  Y  F  L  L  S  W  R  R  L  C  L  L  S  C  *  *  L  W  F  G  S  I  L  S  T  T  I  *  E  T  *  R  D  D  Y  C  P  *  I  S  F  G  P  *  K  S  T  S  C  S  L  R  *  C  H  R  W  V  K  L  D  *  I  N  S  R  *  M  D  S  K  L  C  *  F  E  *  C  L  S  F  W  I  K  F  W  W  K  L  G  L  P  C  R :   V  T  R  S  I  F  F  R  Q  K  T  R  T  S  E  D  Q  R  A  Y  L  A  S  T  I  F  Q  W  K  K  *  D  R  I  *  R  E  A  K  R  *  S  N  F  A  I  S  S  N  *  *  D  V  *  L  V  L  T  K  R  N  T  R  S  *  S  *  I  F  Q  P  I  T  *  R  R  V  K  A  F  R  *  Y  D  H  T  R  L  G  D  P  C  H  R  C  L  *  R  S  F  N  R  C  L  A  Q  L  C  *  F  Y  *  K  E  R  C  K  N  F  Q  A  L  W  R  W  L  P  C  Y  *  V  V  *  A  I  *  G  C  S  L  I  *  C  H  *  G  S  H  I  C  Y  *  K  L  K  V  L  S  L  F  C  Y  I  S  F  C  A  N  K  R  G  V  Y  S  M  H  S  F  V  C  K  I  T  L  S  C  Y  I  F  L  M  N  K  S  F  *  D  *  V  S  S  N  I  Y  *  I  C  K  F  K  D  I  I  S  S  P  K  N  *  L  Q  S </second_frame>
            <third_frame>   S  E  I  S  D  I  F  *  N  T  Y  T  *  E  E  M  *  T  R  K  E  R  T  E  *  D  K  E  R  Q  V  K  K  *  E  K  Y  E  F  I  A  S  Q  K  K  K  I  T  H  N  Y  C  N  F  Q  Y  N  N  S  *  L  S  L  V  S  N  I  L  L  L  L  I  Y  N  P  *  Y  I  A  N  F  L  *  Y  I  F  L  *  S  I  I  M  S  S  Q  K  F  V  R  P  I  F  D  N  P  F  L  N  I  E  E  L  P  N  D  T  I  K  R  Q  P  E  P  L  T  Q  A  N  F  D  P  N  G  T  S  L  V  I  S  K  D  V  D  L  D  S  N  K  K  T  W  M  R  I  Y  V  P  R  R  I  I  A  N  H  D  D  D  K  L  P  V  I  F  Y  Y  H  G  G  G  F  V  F  F  H  V  N  S  Y  G  S  D  L  F  C  Q  Q  L  S  E  K  L  D  A  M  I  I  A  L  E  Y  R  L  A  P  E  N  R  L  P  A  A  Y  D  D  A  I  D  G  L  N  W  I  K  S  T  Q  D  E  W  I  Q  N  Y  A  D  L  S  N  V  Y  L  F  G  S  S  S  G  G  N  L  A  Y  H  A   : G  L  R  V  A  S  F  S  D  K  K  L  E  P  V  K  I  K  G  L  I  L  H  Q  P  Y  F  S  G  K  N  R  T  E  S  E  E  K  L  K  D  D  P  T  L  P  F  Q  A  I  D  K  M  F  D  L  S  L  P  K  G  T  L  D  H  D  H  E  Y  S  N  P  L  L  N  G  G  S  K  H  L  D  D  M  I  T  R  G  W  G  I  L  V  T  G  V  S  E  D  P  L  I  D  A  S  R  N  F  A  D  F  I  E  K  K  G  V  K  T  F  K  L  F  G  D  G  Y  H  V  I  E  L  F  E  P  S  K  A  A  V  L  F  D  A  I  R  D  L  I  S  A  T  K  N  *  K  Y  *  V  C  F  V  I  F  P  F  V  Q  I  R  E  E  C  I  V  C  I  P  L  C  V  R  L  L  *  V  V  I  F  F  S  *  I  K  V  S  R  I  E  L  V  L  I  S  T  K  F  V  S  L  K  T  *  Y  H  H  P  K  I  S  C  K   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C12SLe0097H19.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="32547" stop="32019"/>
                    <exon start="28402" stop="27939"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>990</number_coding_nucleotides>
                  <number_encoded_amino_acids>330</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SIIMSSQKFVRPIFDNPFLNIEELPNDTIKRQPEPLTQANFDPNGTSLVISKDVDLDSNKKTWMRIYVPRRIIANHDDDKLPVIFYYHGGGFVFFHVNSYGSDLFCQQLSEKLDAMIIALEYRLAPENRLPAAYDDAIDGLNWIKSTQDEWIQNYADLSNVYLFGSSSGGNLAYHAGLRVASFSDKKLEPVKIKGLILHQPYFSGKNRTESEEKLKDDPTLPFQAIDKMFDLSLPKGTLDHDHEYSNPLLNGGSKHLDDMITRGWGILVTGVSEDPLIDASRNFADFIEKKGVKTFKLFGDGYHVIELFEPSKAAVLFDAIRDLISATKN*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C12SLe0097H19.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="32813" stop="32577"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>234</number_coding_nucleotides>
                  <number_encoded_amino_acids>78</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>YLRYQIYSEIHIHKKRCEREKSVQSEIKKDKLKSKKNMNSLHLKKKKLHIIIAIFNIIIPSCHLSVIFFFFLYITPNI*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="-" PGL_start="58822" PGL_stop="58147"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="58822" e_stop="58147"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.957"/>
        </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="0.957">
            <gDNA_exon_boundary e_start="58822" e_stop="58147" e_length="676"/>
          </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="58822" stop="58147"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U329531" 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="3" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GCTGTGGAAAGGTACAAGGCTCGACTTGTGGCAAAGGGTTATAGCCAACAAGAGGGGTTAGATTACACTGAGACCTTCTCTCCAGTTTCTAAGATGGTTACTGTCAGGTCGGTTGTGGCTGTGGTAGCAGCTAAACATTGGTCTATTTTTCATATGGATGTTCATAATGCTTTTCTTCAAGGGGATTTAGTGGAGGAGGTGTATTTAGAGGTTCCTTCTGGTTTTGCCAGACAGGAGGGGAAGCATGTTGTCTGCAAATTACATAAGTCTCTTTATGGACTCAAACAGGCACCTAGTCAATGGAATAAGAAACTCACAGATGCATTGGTACAACTTGGCTTCTCACAAAGTAATTTTGACTATTCTTTATTCACCAAGACAGTTCAAGGAGAGCTGGTAATTGTCTTAGTTTATGTGGATGATTTGTTGGTAACAGGAAGCAATACAGACTTGATTCTACAAACAAGGAATGACTTAAAGCTAAAGTTCAAAATGAAAGATCTTGGAGAATTGAAGTTTTTTCTAGGAATTGAATTTGCTAGATAACAAAAGGGAATAGTGATGAGCCAAAGGAAGTATGCATTGGAACTAATTAGTGAGTTCGGATTACGTGGCACTAAACCAGTTAACACACCTTTGGAAACAAATCTGAAGCTTACATCAGTTGACTGTGATG</gDNA_template>
            <first_frame> A  V  E  R  Y  K  A  R  L  V  A  K  G  Y  S  Q  Q  E  G  L  D  Y  T  E  T  F  S  P  V  S  K  M  V  T  V  R  S  V  V  A  V  V  A  A  K  H  W  S  I  F  H  M  D  V  H  N  A  F  L  Q  G  D  L  V  E  E  V  Y  L  E  V  P  S  G  F  A  R  Q  E  G  K  H  V  V  C  K  L  H  K  S  L  Y  G  L  K  Q  A  P  S  Q  W  N  K  K  L  T  D  A  L  V  Q  L  G  F  S  Q  S  N  F  D  Y  S  L  F  T  K  T  V  Q  G  E  L  V  I  V  L  V  Y  V  D  D  L  L  V  T  G  S  N  T  D  L  I  L  Q  T  R  N  D  L  K  L  K  F  K  M  K  D  L  G  E  L  K  F  F  L  G  I  E  F  A  R  *  Q  K  G  I  V  M  S  Q  R  K  Y  A  L  E  L  I  S  E  F  G  L  R  G  T  K  P  V  N  T  P  L  E  T  N  L  K  L  T  S  V  D  C  D  </first_frame>
            <second_frame>  L  W  K  G  T  R  L  D  L  W  Q  R  V  I  A  N  K  R  G  *  I  T  L  R  P  S  L  Q  F  L  R  W  L  L  S  G  R  L  W  L  W  *  Q  L  N  I  G  L  F  F  I  W  M  F  I  M  L  F  F  K  G  I  *  W  R  R  C  I  *  R  F  L  L  V  L  P  D  R  R  G  S  M  L  S  A  N  Y  I  S  L  F  M  D  S  N  R  H  L  V  N  G  I  R  N  S  Q  M  H  W  Y  N  L  A  S  H  K  V  I  L  T  I  L  Y  S  P  R  Q  F  K  E  S  W  *  L  S  *  F  M  W  M  I  C  W  *  Q  E  A  I  Q  T  *  F  Y  K  Q  G  M  T  *  S  *  S  S  K  *  K  I  L  E  N  *  S  F  F  *  E  L  N  L  L  D  N  K  R  E  *  *  *  A  K  G  S  M  H  W  N  *  L  V  S  S  D  Y  V  A  L  N  Q  L  T  H  L  W  K  Q  I  *  S  L  H  Q  L  T  V  M </second_frame>
            <third_frame>   C  G  K  V  Q  G  S  T  C  G  K  G  L  *  P  T  R  G  V  R  L  H  *  D  L  L  S  S  F  *  D  G  Y  C  Q  V  G  C  G  C  G  S  S  *  T  L  V  Y  F  S  Y  G  C  S  *  C  F  S  S  R  G  F  S  G  G  G  V  F  R  G  S  F  W  F  C  Q  T  G  G  E  A  C  C  L  Q  I  T  *  V  S  L  W  T  Q  T  G  T  *  S  M  E  *  E  T  H  R  C  I  G  T  T  W  L  L  T  K  *  F  *  L  F  F  I  H  Q  D  S  S  R  R  A  G  N  C  L  S  L  C  G  *  F  V  G  N  R  K  Q  Y  R  L  D  S  T  N  K  E  *  L  K  A  K  V  Q  N  E  R  S  W  R  I  E  V  F  S  R  N  *  I  C  *  I  T  K  G  N  S  D  E  P  K  E  V  C  I  G  T  N  *  *  V  R  I  T  W  H  *  T  S  *  H  T  F  G  N  K  S  E  A  Y  I  S  *  L  *   </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="C12SLe0097H19.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="58822" stop="58277"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>543</number_coding_nucleotides>
                  <number_encoded_amino_acids>181</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>AVERYKARLVAKGYSQQEGLDYTETFSPVSKMVTVRSVVAVVAAKHWSIFHMDVHNAFLQGDLVEEVYLEVPSGFARQEGKHVVCKLHKSLYGLKQAPSQWNKKLTDALVQLGFSQSNFDYSLFTKTVQGELVIVLVYVDDLLVTGSNTDLILQTRNDLKLKFKMKDLGELKFFLGIEFAR*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 35 chains have been computed
$ 
$ memory statistics:
$ 6104 bytes spliced alignments in total
$ 3 spliced alignments have been stored
$ 2034 bytes was the average size of a spliced alignment
$ 7912 bytes predicted gene locations in total
$ 3 predicted gene locations have been stored
$ 2637 bytes was the average size of a predicted gene location
$ 4 megabytes was the average size of the backtrace matrix
$ 58 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-07 09:14:27
-->
