<?xml version="1.0" encoding="ISO-8859-1"?>
<GTH_output xmlns="http://www.genomethreader.org/GTH_output/" GTH_XML_version="1.1">
  <header xmlns="http://www.genomethreader.org/GTH_output/header/">
    <source program="GenomeThreader" version="0.9.54" build_date="2006-07-28 11:55:15" run_date="2009-01-15 13:18:59"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C09HBa0099F14-VXIp7/GenomeThreader_SGN_U_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C09HBa0099F14-VXIp7/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-C09HBa0099F14-VXIp7/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U346957" ref_strand="+" ref_description="SGN-U346957        Tomato 200607 #1 [1 ESTs aligned] arabidopsis/peptide: | Symbol: None | tRNA methyl transferase family protein, contains Pfam PF03054: tRNA methyl transferase profile; similar to tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase (EC 2.1.1.61). (Swiss-Prot:Q8ZPZ4) (Salmonella typhimurium) | chr1:19022647-19025175 REVERSE | Aliases: F11M15.16, F11M15_16(evalue: 3e-11, score=66.2) genbank/nr: gi|15223816|ref|NP_175542.1| expressed protein [Arabidopsis thaliana] gi|25298371|pir||H96550 hypothetical protein F11M15.16 [imported] - Arabidopsis thaliana gi|4836940|gb|AAD30642.1| Unknown protein [Arabidopsis thaliana](evalue: 3e-09, score=66.2)">
      <seq>ctttggtcagtcatgttatatgaaaagcaatccactattctttagtttcgttagcgtgatagtgaaaaatttattttcaggtgcttttatggatgccattagtggaatggaatttgactttgttgcttcgggacattatgcaaagattgtccatgcatctactgagcagctggacgaaccttctgtcttggaattgtcaaaagatatggtgtgtttttatattcgtacatgtttcttagagcctcttaccctattttcttttgtaaaagtttgatatgttcacttgagaaggggatatcttgaagatgagagtggtgtggaagagtcttgcttcactgtaggtaaaatgaagaacatatgggaaatgacttacagatatacatggttgggaattaaacattatagtcccatcaaaagaagttcttttgtaagagacagacatttagcagttgaggatacaaagtttgatttaacaccttcccaacccacctagcccccgttgcttttaaccaagatatcttctttgaacttatgatcaacgtctttcacgactgtctgtataattctttcaggtaaatttggtatatgtttcttgagatatattacatttggttcttatcttgaaaaatatagtaaatgtgatgaagcgtcttaagatatatctcataatgaaattgtaatgtagatctcgaaattatgattaaaaacagataaataaaacaaccaaagcaaatatattattctgttgaaggttcatatgtagtatcaatactgctccaagaatgatggttaactaggagttcatcatcttttgatacagaagaaatagtttaatttgccacacttcaattcctgatttactgagagttttacatctta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09HBa0099F14-VXIp7/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C09HBa0099F14.1" temp_strand="-" temp_description="C09HBa0099F14.1  EU139069.1 htgs_phase:2 submitted_to_sgn_as:C09HBa0099F14 upload_account_name:spain">
        <position start="8317" stop="6840"/>
      </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="8018" g_stop="7140" g_length="879"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="879" r_length="879" r_score="0.999"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C09HBa0099F14.1" gen_strand="-" ref_id="SGN-U346957" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>879</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09HBa0099F14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U346957" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="8018" e_stop="7140"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTGGTCAGTCATGTTATATGAAAAGCAATCCACTATTCTTTAGTTTCGTTAGCGTGATAGTGAAAAATTTATTTTCAGGTGCTTTTATGGATGCCATTAGTGGAATGGAATTTGACTTTGTTGCTTCGGGACATTATGCAAAGATTGTCCATGCATCTACTGAGCAGCTGGACGAACCTTCTGTCTTGGAATTGTCAAAAGATATGGTGTGTTTTTATATTCGTACATGTTTCTTAGAGCCTCTTACCCTATTTTCTTTTGTAAAAGTTTGATATGTTCACTTGAGAAGGGGATATCTTGAAGATGAGAGTGGTGTGGAAGAGTCTTGCTTCACTGTAGGTAAAATGAAGAACATATGGGAAATGACTTACAGATATACATGGTTGGGAATTAAACATTATAGTCCCATCAAAAGAAGTTCTTTTGTAAGAGACAGACATTTAGCAGTTGAGGATACAAAGTTTGATTTAACACCTTCCCAACCCACCTAGCCCCCGTTGCTTTTAACCAAGATATCTTCTTTGAACTTATGATCAACGTCTTTCACGACTGTCTGTATAATTCTTTCAGGTAAATTTGGTATATGTTTCTTGAGATATATTACATTTGGTTCTTATCTTGAAAAATATAGTAAATGTGATGAAGCGTCTTAAGATATATCTCATAATGAAATTGTAATGTAGATCTCGAAATTATGATTAAAAACAGATAAATAAAACAACCAAAGCAAATATATTATTCTGTTGAAGGTTCATATGTAGTATCAATACTGCTCCAAGAATGATGGTTAACTAGGAGTTCATCATCTTTTGATACAGAAGAAATAGTTTAATTTGCCACACTTCAATTCCTGATTTACTGAGAGTTTTACATCTTA</genome_strand>
        <mrna_strand>CTTTGGTCAGTCATGTTATATGAAAAGCAATCCACTATTCTTTAGTTTCGTTAGCGTGATAGTGAAAAATTTATTTTCAGGTGCTTTTATGGATGCCATTAGTGGAATGGAATTTGACTTTGTTGCTTCGGGACATTATGCAAAGATTGTCCATGCATCTACTGAGCAGCTGGACGAACCTTCTGTCTTGGAATTGTCAAAAGATATGGTGTGTTTTTATATTCGTACATGTTTCTTAGAGCCTCTTACCCTATTTTCTTTTGTAAAAGTTTGATATGTTCACTTGAGAAGGGGATATCTTGAAGATGAGAGTGGTGTGGAAGAGTCTTGCTTCACTGTAGGTAAAATGAAGAACATATGGGAAATGACTTACAGATATACATGGTTGGGAATTAAACATTATAGTCCCATCAAAAGAAGTTCTTTTGTAAGAGACAGACATTTAGCAGTTGAGGATACAAAGTTTGATTTAACACCTTCCCAACCCACCTAGCCCCCGTTGCTTTTAACCAAGATATCTTCTTTGAACTTATGATCAACGTCTTTCACGACTGTCTGTATAATTCTTTCAGGTAAATTTGGTATATGTTTCTTGAGATATATTACATTTGGTTCTTATCTTGAAAAATATAGTAAATGTGATGAAGCGTCTTAAGATATATCTCATAATGAAATTGTAATGTAGATCTCGAAATTATGATTAAAAACAGATAAATAAAACAACCAAAGCAAATATATTATTCTGTTGAAGGTTCATATGTAGTATCAATACTGCTCCAAGAATGATGGTTAACTAGGAGTTCATCATCTTTTGATACAGAAGAAATAGTTTAATTTGCCACACTTCAATTCCTGATTTACTGAGAGTTTTACATCTTA</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-C09HBa0099F14-VXIp7/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U340239" ref_strand="+" ref_description="SGN-U340239        Tomato 200607 #1 [1 ESTs aligned] arabidopsis/peptide: | Symbol: None | expressed protein, ; expression supported by MPSS | chr2:19660284-19664981 REVERSE | Aliases: T9J23.20(evalue: 1e-26, score=117) genbank/nr: gi|15227204|ref|NP_182326.1| hypothetical protein [Arabidopsis thaliana] gi|25409089|pir||G84922 hypothetical protein At2g48050 [imported] - Arabidopsis thaliana gi|4249412|gb|AAD13709.1| hypothetical protein [Arabidopsis thaliana](evalue: 9e-25, score=117)">
      <seq>gaggggtgtttctcaagtacaatccattgggaatcaagctgtaaacaatattgtgagctttctaaacattccaccagatgactctgattctaatgagacttcaactgctggagatggaatatcttatgagagagagggtgagaatacctctgtacacctcatctggaccgttctacttctttgcaatctgataggagtagaacgtctgaagcagcaagtttgcaaattgggagaatattctaccacatctggttccagatgcgttcaaataatgatgttgtgtgctattgtggctttcttctcgtctttctttggaactttagtttgctttctatgctgtacctggcagctctctttctgtatgcgctttgtgtgaacactgggccaagttacattttctgggttattatgctaatctacacagaaatatacattttgatccagtatatttatcaaataattattcagcacttgtggttttagcattcagtccactactcttcaagagctgggttttcctaccaaaaggataacatcatcttttgtcattagttcactgcccactatttctggtgtaccttgtttaccctcatacagagcactataacggcaaaagaatggtgaatggttttctctaggatacagtacttgnaaaagtagacttttggacccaaaggaggacatagtggcatctgggtggattg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09HBa0099F14-VXIp7/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C09HBa0099F14.1" temp_strand="+" temp_description="C09HBa0099F14.1  EU139069.1 htgs_phase:2 submitted_to_sgn_as:C09HBa0099F14 upload_account_name:spain">
        <position start="43877" stop="45170"/>
      </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="44172" g_stop="44870" g_length="699"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="704" r_length="704" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C09HBa0099F14.1" gen_strand="+" ref_id="SGN-U340239" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>699</cumulative_length_of_scored_exons>
        <coverage percentage="0.993" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09HBa0099F14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U340239" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="44172" e_stop="44870"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGATGGTGTTTCTCAAGTACAATCCATTGGGAATCAAGCTGTAAACAATATTGTGAGCTTTCTAAACATTCCACCAGATGACTCTGATTCTAATGAGACTTCAACTGCTGGAGATGGAATATCTTATGAGAGAGAGGGTGAGAATA-CTCTGTACA-CTCATCTGGACCGTTCTACTTCTTTGCAATCTGATAGGAGTAGAACGTCTGAAGCAGCAAGTTTGCAAATTGGGAGAATATTCTACCACATCTGGTTCCAGATGCGTTCAAATAATGATGTTGTGTGCTATTGTGGCTTTCTTCTCGTCTTTCTTTGGAACTTTAGTTTGCTTTCTATGCTGTACCTGGCAGCTCTCTTTCTGTATGCGCTTTGTGTGAACACTGGGCCAAGTTACATTTTCTGGGTTATTATGCTAATCTACACAGAAATATACATTTTGATCCAGTATATTTATCAAATAATTATTCAGCAC-TGTGGTTTTAGCATTCAGTCCACTACTCTTCAAGAGCTGGGTTTTCCTACCAAAAGGATAACATCATCTTTTGTCATTAGTTCACTG-CCACTATTTCTGGTGTA-CTTGTTTACCCTCATACAGAGCACTATAACGGCAAAAG-ATGGTGAATGGTTTTCTCTAGGATACAGTACTTGGAAAAGTAGACTTTTGGACCCAAAGGAGGACATAGTGGCATCTGGGTGGATTG</genome_strand>
        <mrna_strand>GAG-GGGTGTTTCTCAAGTACAATCCATTGGGAATCAAGCTGTAAACAATATTGTGAGCTTTCTAAACATTCCACCAGATGACTCTGATTCTAATGAGACTTCAACTGCTGGAGATGGAATATCTTATGAGAGAGAGGGTGAGAATACCTCTGTACACCTCATCTGGACCGTTCTACTTCTTTGCAATCTGATAGGAGTAGAACGTCTGAAGCAGCAAGTTTGCAAATTGGGAGAATATTCTACCACATCTGGTTCCAGATGCGTTCAAATAATGATGTTGTGTGCTATTGTGGCTTTCTTCTCGTCTTTCTTTGGAACTTTAGTTTGCTTTCTATGCTGTACCTGGCAGCTCTCTTTCTGTATGCGCTTTGTGTGAACACTGGGCCAAGTTACATTTTCTGGGTTATTATGCTAATCTACACAGAAATATACATTTTGATCCAGTATATTTATCAAATAATTATTCAGCACTTGTGGTTTTAGCATTCAGTCCACTACTCTTCAAGAGCTGGGTTTTCCTACCAAAAGGATAACATCATCTTTTGTCATTAGTTCACTGCCCACTATTTCTGGTGTACCTTGTTTACCCTCATACAGAGCACTATAACGGCAAAAGAATGGTGAATGGTTTTCTCTAGGATACAGTACTTGNAAAAGTAGACTTTTGGACCCAAAGGAGGACATAGTGGCATCTGGGTGGATTG</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-C09HBa0099F14-VXIp7/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U330144" ref_strand="+" ref_description="SGN-U330144        Tomato 200607 #1 [2 ESTs aligned] arabidopsis/peptide: | Symbol: None | expressed protein | chr2:19658266-19659835 REVERSE | Aliases: T9J23.19(evalue: 8e-33, score=136) genbank/nr: hypothetical(evalue: 1e-34, score=148)">
      <seq>agatgaaacaccgcagggcttgctaggtgatactctcagcaaattcagtatatggggtctctacatcacatttgttttagcagttggtcgcttcatcagactgcagtgctctgacttacggatgagaatcccatatgaaaatcttccttcatgtgatagattgattgccatctgtgaggatatatatgctgcaagagcagagggtgagctcgtggtggaggaaatcctatactggacattagtgaagatatacaggtccccgcacatgttgctcgagtatactaagtctgattagcctagtaagaaaagtttactctcaactgcaactgatgtttgtcctaacgcatatgtagaagagtgactaaccaataccccatagaattcatctttatccttgcagtgaacatgccaaaacttccaaacgatcttttttgttttagcttgaagtggagcagatgacagaaacatttgtaaatataggcagagtgcaaaatatagcaacagttctgtttaaaacacaccttat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09HBa0099F14-VXIp7/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C09HBa0099F14.1" temp_strand="+" temp_description="C09HBa0099F14.1  EU139069.1 htgs_phase:2 submitted_to_sgn_as:C09HBa0099F14 upload_account_name:spain">
        <position start="48811" stop="50008"/>
      </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="49016" g_stop="49029" g_length="14"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="14" r_length="14" r_score="0.929"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="49030" i_stop="49110" i_length="81">
            <donor d_prob="0.998" d_score="0.00"/>
            <acceptor a_prob="0.871" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="49111" g_stop="49255" g_length="145"/>
          <reference_exon_boundary r_type="cDNA" r_start="15" r_stop="159" r_length="145" r_score="0.986"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="49256" i_stop="49341" i_length="86">
            <donor d_prob="0.982" d_score="0.98"/>
            <acceptor a_prob="0.956" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="49342" g_stop="49708" g_length="367"/>
          <reference_exon_boundary r_type="cDNA" r_start="160" r_stop="526" r_length="367" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C09HBa0099F14.1" gen_strand="+" ref_id="SGN-U330144" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>526</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09HBa0099F14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U330144" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="49016" e_stop="49029"/>
          <exon e_start="49111" e_stop="49255"/>
          <exon e_start="49342" e_stop="49708"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAGGAAACACCGCGTAAGTAGTTTATAATTTTTCACATAGAATGAGAAATCTAGTGTATTATGTTGATCACTAACAATTTTTATGCAATTTTAGAGGGCTTGCTAGGTGATACTCTCAGCAAATTCAGTATATGGGGTCTCTACATCACATTTGTTTTAGCAGTCGGTCGCTTCATCAGACTGCAGTGCTCTGACCTACGGATGAGAATCCCATATGAAAATCTTCCTTCATGTGATAGGTAATACTAAGTCGCAGTCTGATTTTTAATATCTCTGTAAATAAAATCGTACACTTCTAAAAATGCACGATTTTGGTTCCACACAGATTGATTGCCATCTGTGAGGATATATATGCTGCAAGAGCTGAGGGTGAGCTCGTGGTGGAGGAAATCCTATACTGGACATTAGTGAAGATATACAGGTCCCCGCACATGTTGCTCGAGTATACTAAGTCTGATTAGCCTAGTAAGAAAAGTTTACTCTCAACTGCGACTGATGTTTGTCCTAACGCATATGTAGAAGAGTGACTAACCAATACCCCATAGAATTCATCTTTATCCTTGCAGTGAACATGCCAAAACTTCCAAACGATCTTTTTTGTTTTAGCTTGAAGTGGAGCAGATGACAGAAACATATGTAAATATAGGCAGAGCGCAAAATATAGCAACAGTTCTGTGTAAAACACACCTTAT</genome_strand>
        <mrna_strand>AGATGAAACACCGC.................................................................................AGGGCTTGCTAGGTGATACTCTCAGCAAATTCAGTATATGGGGTCTCTACATCACATTTGTTTTAGCAGTTGGTCGCTTCATCAGACTGCAGTGCTCTGACTTACGGATGAGAATCCCATATGAAAATCTTCCTTCATGTGATAG......................................................................................ATTGATTGCCATCTGTGAGGATATATATGCTGCAAGAGCAGAGGGTGAGCTCGTGGTGGAGGAAATCCTATACTGGACATTAGTGAAGATATACAGGTCCCCGCACATGTTGCTCGAGTATACTAAGTCTGATTAGCCTAGTAAGAAAAGTTTACTCTCAACTGCAACTGATGTTTGTCCTAACGCATATGTAGAAGAGTGACTAACCAATACCCCATAGAATTCATCTTTATCCTTGCAGTGAACATGCCAAAACTTCCAAACGATCTTTTTTGTTTTAGCTTGAAGTGGAGCAGATGACAGAAACATTTGTAAATATAGGCAGAGTGCAAAATATAGCAACAGTTCTGTTTAAAACACACCTTAT</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-C09HBa0099F14-VXIp7/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U331343" ref_strand="+" ref_description="SGN-U331343        Tomato 200607 #1 [2 ESTs aligned] genbank/nr: hypothetical(evalue: 4e-06, score=41.2)">
      <seq>cctcgtgcgcacgaggcacattctaaggcatttgtgttctagtatttcacttgtgttctttgtagagtgaaataaatattggtgtagttgttctttggtgcatgtaggatcattttcaccctaaccacgttaaatatttttttcttccttattctttgatttcacgtttccgctaacaattggtatcagagccaaagttccacatcagaaaataattactttcattttctgtagttccgaatacattgtagtagaaaaggaagaacaagtaagaaatgagttccatgaagtttaaaattgatagatttagtgggcaaaacaacttcagtatctgaaaaatccagatgatggagttattgcggagggaaggttcaatccatgctattgacgaaaaatacctcgataagatatcgaatttcgataaggagaagattgaaggagatgcattgcgtgtaatccaactgtcccttgcacctaacgtactttgtgaagtgagtacaagtaccgaagagacgaccaaggagttatgggaaaagctagagtacaataatgttgttacaatgacatcttcatacatttaagatggattcaggtactttgttgcaagaccatctaggtgcattcaataaacttgtgatggacttagaaactgctggaattcangangataaaaattgcatgggtcttgctattttcattgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09HBa0099F14-VXIp7/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C09HBa0099F14.1" temp_strand="+" temp_description="C09HBa0099F14.1  EU139069.1 htgs_phase:2 submitted_to_sgn_as:C09HBa0099F14 upload_account_name:spain">
        <position start="53327" stop="54591"/>
      </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="53630" g_stop="54312" g_length="683"/>
          <reference_exon_boundary r_type="cDNA" r_start="20" r_stop="702" r_length="683" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C09HBa0099F14.1" gen_strand="+" ref_id="SGN-U331343" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>683</cumulative_length_of_scored_exons>
        <coverage percentage="0.973" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09HBa0099F14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U331343" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="53630" e_stop="54312"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCTAAGGCATTTGTGTTCTAGTATTTCACTTGTGTTCTTTGTAGAGTGAAATAAATATTGGTGTAGTTGTTCTTTGGTGCATGTAGGATCATTTTCACCCTAACCACGTTAAATATTTTTTTCTTCCTTATTCTTTGATTTCACGTTTCCGCTAACAATTGGTATCAGAGCCAAAGTTCCACATCAAATTTTATTTACTTTCATTTTCTGTAGTTCCGAATACATTGAAGTAAAAAAGGAAGAACAAGTAAGAAATGAGTTCCATGAAGTTTAAGGTTGATAGATTTAGTGGGCAAAACAACTTCAATATCTGAAAAATCCAGATGATGGAGTTATTGCGGAGGGAAGGTTCAATCCATGCTATTGACGAAAAATACCTCGATAAGATATCGAATTTCGATAAGGAGAAGATTGAAGGAGATGCATTGCGTGTAATCCAACTGTCCCTTGCACCTAACGTACTTTGTGAAGTGAGAACAAATACCGAAGAGACGACCAAGGAGTTATGGGAAAAGCTAGAGTACAATAATGTTGTTACAATGACATCTTCATACATTTAAGATGGATTCAGGTACTTTGTTGCAAGACCATCTAGGTGCATTCAATAAACTTGTGATGGACTTAGAAACTGCAGGAATTCAGGAGGATAAATCTTGCATGTTCTTTGCTATTTTCATTGAC</genome_strand>
        <mrna_strand>ATTCTAAGGCATTTGTGTTCTAGTATTTCACTTGTGTTCTTTGTAGAGTGAAATAAATATTGGTGTAGTTGTTCTTTGGTGCATGTAGGATCATTTTCACCCTAACCACGTTAAATATTTTTTTCTTCCTTATTCTTTGATTTCACGTTTCCGCTAACAATTGGTATCAGAGCCAAAGTTCCACATCAGAAAATAATTACTTTCATTTTCTGTAGTTCCGAATACATTGTAGTAGAAAAGGAAGAACAAGTAAGAAATGAGTTCCATGAAGTTTAAAATTGATAGATTTAGTGGGCAAAACAACTTCAGTATCTGAAAAATCCAGATGATGGAGTTATTGCGGAGGGAAGGTTCAATCCATGCTATTGACGAAAAATACCTCGATAAGATATCGAATTTCGATAAGGAGAAGATTGAAGGAGATGCATTGCGTGTAATCCAACTGTCCCTTGCACCTAACGTACTTTGTGAAGTGAGTACAAGTACCGAAGAGACGACCAAGGAGTTATGGGAAAAGCTAGAGTACAATAATGTTGTTACAATGACATCTTCATACATTTAAGATGGATTCAGGTACTTTGTTGCAAGACCATCTAGGTGCATTCAATAAACTTGTGATGGACTTAGAAACTGCTGGAATTCANGANGATAAAAATTGCATGGGTCTTGCTATTTTCATTGAC</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-C09HBa0099F14-VXIp7/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U324842" ref_strand="+" ref_description="SGN-U324842        Tomato 200607 #1 [5 ESTs aligned] arabidopsis/peptide: | Symbol: None | zinc knuckle (CCHC-type) family protein, contains Pfam domain, PF00098: Zinc knuckle | chr2:3820372-3820734 REVERSE | Aliases: F7B19.19, F7B19_19(evalue: 4e-09, score=58.5) genbank/nr: gi|53689765|gb|AAU89775.1| pol polyprotein-like [Solanum tuberosum] (evalue: 2e-102, score=374)">
      <seq>taaggttgagaatcgaagaggataataaggctgcagaaaagaggtcacgtggtaattcagcaatatctggagtaaattttgttgaagaagattccacaaaattcaagaaaagaaagaaagcatctggtccaaaacgcaatcctcctaagaagaaattcaatggaaactgctttaattgtggtaaacatggtcatagggctaatgaatgccggggtcctaagaaggacaagaaaaagaaggatcaagcaaacttggctgaatccaaaggagaaatggacgatctctgtgcaatgctttcagaatgtaacttggttggaaatccaagagaatggtggatagattctggtgcctcatgccatgtttgtgccaacaaagaattattttcatcatatactctagcacttacagatgaaaaattatttatggcaaactccgctgttgcaaaggtggaaggaactggcaaagtcctattaaagatgacatcaggcaaggtagtgactttgaatatggtctcatatgttccagaattgagaaataatttagtttcaattccaattctgaccaagaatggatttaaatgtgtatttgtttttgataaagtagtagtaagcaaaaatgatatgtatgtaggaaaagactaccttagtgatggccttttcaaactcaatgtaattgcagttgatatgaataaagattttgcttctttttaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09HBa0099F14-VXIp7/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C09HBa0099F14.1" temp_strand="-" temp_description="C09HBa0099F14.1  EU139069.1 htgs_phase:2 submitted_to_sgn_as:C09HBa0099F14 upload_account_name:spain">
        <position start="63800" stop="62493"/>
      </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="63500" g_stop="62793" g_length="708"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="709" r_length="709" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="710" polyA_stop="744"/>
      <MATCH_line gen_id="C09HBa0099F14.1" gen_strand="-" ref_id="SGN-U324842" ref_strand="+">
        <total_alignment_score>0.968</total_alignment_score>
        <cumulative_length_of_scored_exons>708</cumulative_length_of_scored_exons>
        <coverage percentage="0.952" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09HBa0099F14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U324842" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="63500" e_stop="62793"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAGGTTGAGAATCAAAAAGGATAATAAGGCTGCAGAAAAGAGGTCACGTGATAATTCAGCAATATC-GGAGTAAATTTTGTTGAAGAAGATTCCACAAAATTAAAGAAAAGAAAGAAAGCATCTGGTCCAAAAAGTAATCCTCCTAAGAAGAAATTCAATGGAAACTGCTTTAATTGTGGTAAACATGGTCATAGGGCTAATGAATGCCGGGGTCCTAAGAAGGACAAGAAAAAGAAGGATCAAGCAAACTTGGCTGAATCCAAAGGAGAAATGGACGTTCTATGTGCAATGCTTTCAGAATGTAACTTGGTTGGAAATCCAAGAGAATGGTGGATAGATTCTGGTGCCTCATGCCATGTTTATGCCAACAAAGAATTATTTTCATCATATACTCCAGCACTTACAGATGAAAAATTGTTTATGGCAAACTCCGTTGTTGCAAAGGTGGAAGGAACTGGCAAAGTCCTATTAAAGATGACATCAGGCAAGGTGGTGACTTTGAATAGGGTCTCATATGTTCCAGAATTGAGAAAGAATTTAGTTTCAATTCCAGTTCTGACCAAGAATGAATTTAAATGTGTATTTGTTTCTGATAAAGTAGTAGTAAGCAAAAATGATATGTATGTAGGAAAAGGCTACCTTAGTGATGGCCTTTTCAAACTCAATGTAATTGCAGTTTATATGAATAAAGATTTTGCTTCTTCTTA</genome_strand>
        <mrna_strand>TAAGGTTGAGAATCGAAGAGGATAATAAGGCTGCAGAAAAGAGGTCACGTGGTAATTCAGCAATATCTGGAGTAAATTTTGTTGAAGAAGATTCCACAAAATTCAAGAAAAGAAAGAAAGCATCTGGTCCAAAACGCAATCCTCCTAAGAAGAAATTCAATGGAAACTGCTTTAATTGTGGTAAACATGGTCATAGGGCTAATGAATGCCGGGGTCCTAAGAAGGACAAGAAAAAGAAGGATCAAGCAAACTTGGCTGAATCCAAAGGAGAAATGGACGATCTCTGTGCAATGCTTTCAGAATGTAACTTGGTTGGAAATCCAAGAGAATGGTGGATAGATTCTGGTGCCTCATGCCATGTTTGTGCCAACAAAGAATTATTTTCATCATATACTCTAGCACTTACAGATGAAAAATTATTTATGGCAAACTCCGCTGTTGCAAAGGTGGAAGGAACTGGCAAAGTCCTATTAAAGATGACATCAGGCAAGGTAGTGACTTTGAATATGGTCTCATATGTTCCAGAATTGAGAAATAATTTAGTTTCAATTCCAATTCTGACCAAGAATGGATTTAAATGTGTATTTGTTTTTGATAAAGTAGTAGTAAGCAAAAATGATATGTATGTAGGAAAAGACTACCTTAGTGATGGCCTTTTCAAACTCAATGTAATTGCAGTTGATATGAATAAAGATTTTGCTTCTTTTTA</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-C09HBa0099F14-VXIp7/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U312594" ref_strand="+" ref_description="SGN-U312594        Tomato 200607 #1 [17 ESTs aligned] arabidopsis/peptide: | Symbol: None | expressed protein | chr2:3830613-3830972 REVERSE | Aliases: F7B19.23, F7B19_23(evalue: 2e-31, score=133) genbank/nr: gi|14586969|gb|AAK70407.1| pol polyprotein [Citrus x paradisi](evalue: 2e-61, score=239)">
      <seq>ggacatgttccttgctgaaaatggctataaaaggaagtcaaattttgattttttaaacactgaaaatttttctttctctgcatttatttttctctcaaataaaatcaaagtgtcgatcgactgagtctgtgtgacttgttgttgttcttaagttcgttgaagttaaagaagtttgaggtaccgctatttctttaacaggtttaatccgttttatcttgagagaaattaatccataaccttgggtacagtgagggaattaaatttcttaaggacacatagtagtttctgtggactcggattaattcttgtattctatattattttctgcttcatcttatttctgtttctgtttattaactttataaataaaagttattataagagtaacaatcttaagaaaatttatacagtttctgtgtttgaggtttctggagattaaaacctttatggttttctactctacttgaatttttaaaatcattcgattaacgattaaaaaaacataaaaactttatcgttaaatcagaaacaggttgtgtaaagatttgctctttactgttagtattttaaatacttaatttatctgccaattgtgacagaaaaaaaagactaattcaagtcaaacaaatgctggaacagtaagtgctgcaacaacaatggttgcacataatcgttcacatgctgccttagcaccggctgagaaacctgcaaagttttctggagtcgactttaagagatggcagcaaaagatgttcttctatctcactacgttgagtctgcagaagttcatcaatgagaatgttcctgttatgtcagatgaaacttcggctgatgaacgattcttggtaacagaagcatggacacactcagattttttgtgtaaaaattatattttgagtggtctgcaagatgatctgtacaatgtgtacagcaatgcaaaaacctcaaaagaactctgggatgctttagaaaagaagtacaaaacagaagatgccggaatgaagaaattcattgtggcaaaatttctagactttaagatgatagacagtaagactgtcgtcacccaagttcaagaattgcaggttataatccatgatctccttgctgaaggattgattgtgaatgatgcttttcaagtggctgcaattattgaaaagttacctctattgtggaaggactttaaaaactacttgaaacacaaacgcaaggagatgattgttga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09HBa0099F14-VXIp7/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C09HBa0099F14.1" temp_strand="-" temp_description="C09HBa0099F14.1  EU139069.1 htgs_phase:2 submitted_to_sgn_as:C09HBa0099F14 upload_account_name:spain">
        <position start="65109" stop="63212"/>
      </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="64810" g_stop="63696" g_length="1115"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="1110" r_length="1110" r_score="0.955"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="63695" i_stop="63624" i_length="72">
            <donor d_prob="0.997" d_score="0.98"/>
            <acceptor a_prob="0.957" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="63623" g_stop="63512" g_length="112"/>
          <reference_exon_boundary r_type="cDNA" r_start="1111" r_stop="1222" r_length="112" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C09HBa0099F14.1" gen_strand="-" ref_id="SGN-U312594" ref_strand="+">
        <total_alignment_score>0.958</total_alignment_score>
        <cumulative_length_of_scored_exons>1227</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09HBa0099F14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U312594" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="64810" e_stop="63696"/>
          <exon e_start="63623" e_stop="63512"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGACATGTTCCTTGCTGAAAATGGCTAT-AAATGAAGTCAATTTATGATTTTTTTATCACTGAAAAATTTTTCTTTCTCTGCATTTATTTTTCTCTCAAATAAAATCAAAGTGTCGATCGACTGAGTCTGTGTGACTTGTTGTTGTTCTTAAGTTCGTTGAAGTTAAAGAAGTTTGAGGTACCGCTATTTCTTTAACAGGTTTAATCTGTTTTATCTTGGGAGAAATTAATCCATAACCTTGGGTACAGTGAGGGGATTAAATTTCTTAAGGACACACAGTAGTTTCTGTGGACTCGGATTATTTCTTATATTCTATATTATTTTCTGCTTCATCTTATTTCTTTTTCTGTTTCTGTTTATTAACTTTATAAATACAAGTTATTGTAAGAATAACAATCTTAAG-AAATTTA-GCAGTTTCTGTATTTGAGGTTTCTTGAGATTAAAACCTTTATGGTTTTCTACTCTGCTTGAATTTTTAAAATTCATTCGATTAACGATTAAAAGAACATAAAAACTTTATCGTTAAATCAGAAACAGTTTGTGTAAAGATTTGTTCTTTACTGTTAGTATTTTAAATACTTAATTTATCTGCCATTTGTGACAGAAAAAAATGACTAATTCAAGTCAAACAAATGATGGAACAGTAAGTGCTGCAACAACAACGGTTGCACATAATCGTTCAAATGCTGCCTTAGCACCGACTGAGAAACCTGCAAAGTTTTCTGGAGTCGACTTTAAGAGATGGCAGCAAAAGATGTTCTTCTATCTCACTATGTTGAGTCTGCAGAAGCTCATCAATGAGAATGTTCCTGTTATGTCAGATGAAACTCCGGCTGATGAACGATTCTTGGTAACAGAAGCATGGACACACTCAGATTTTTTGTGTAAAAATTATATTTTGAGTTGTCTGCAAGATGATCTGTACAATGTGTACAGCAATGCAAAAACCTCAAAAGAACTTTGGGATGCTTTAGAAAAGAAGTACAAAACAGAAGATGTCGGAATGAAGAAATTCATTGTGGCAAAATTTCTGGACTTTAAGATGATAGACAGTAAGACTGTCGTCACCCAAGTTCAAGAATTGCAGGTCATAATCCATGATCTCCTTGCTGAAGGTATAAATTTATTTAATGCCTATGTTAGAAATACTAAGTTTTCCCTTAATACTCACATAACCTTTAATGTAGGATTGATTGTGAATGATGCTTTTCAAGTGGCTGCAATTATTGAAAAGTTACCTCCATTGTGGAAGGACTTTAAAAACTACTTGAAACACAAACGCAAGGAGATGACTGTTGA</genome_strand>
        <mrna_strand>GGACATGTTCCTTGCTGAAAATGGCTATAAAAGGAAGTCAAATTTTGATTTTTTAAACACTG-AAAATTTTTCTTTCTCTGCATTTATTTTTCTCTCAAATAAAATCAAAGTGTCGATCGACTGAGTCTGTGTGACTTGTTGTTGTTCTTAAGTTCGTTGAAGTTAAAGAAGTTTGAGGTACCGCTATTTCTTTAACAGGTTTAATCCGTTTTATCTTGAGAGAAATTAATCCATAACCTTGGGTACAGTGAGGGAATTAAATTTCTTAAGGACACATAGTAGTTTCTGTGGACTCGGATTAATTCTTGTATTCTATATTATTTTCTGCTTCATCTTA------TTTCTGTTTCTGTTTATTAACTTTATAAATAAAAGTTATTATAAGAGTAACAATCTTAAGAAAATTTATACAGTTTCTGTGTTTGAGGTTTCTGGAGATTAAAACCTTTATGGTTTTCTACTCTACTTGAATTTTTAAAA-TCATTCGATTAACGATTAAAAAAACATAAAAACTTTATCGTTAAATCAGAAACAGGTTGTGTAAAGATTTGCTCTTTACTGTTAGTATTTTAAATACTTAATTTATCTGCCAATTGTGACAGAAAAAAAAGACTAATTCAAGTCAAACAAATGCTGGAACAGTAAGTGCTGCAACAACAATGGTTGCACATAATCGTTCACATGCTGCCTTAGCACCGGCTGAGAAACCTGCAAAGTTTTCTGGAGTCGACTTTAAGAGATGGCAGCAAAAGATGTTCTTCTATCTCACTACGTTGAGTCTGCAGAAGTTCATCAATGAGAATGTTCCTGTTATGTCAGATGAAACTTCGGCTGATGAACGATTCTTGGTAACAGAAGCATGGACACACTCAGATTTTTTGTGTAAAAATTATATTTTGAGTGGTCTGCAAGATGATCTGTACAATGTGTACAGCAATGCAAAAACCTCAAAAGAACTCTGGGATGCTTTAGAAAAGAAGTACAAAACAGAAGATGCCGGAATGAAGAAATTCATTGTGGCAAAATTTCTAGACTTTAAGATGATAGACAGTAAGACTGTCGTCACCCAAGTTCAAGAATTGCAGGTTATAATCCATGATCTCCTTGCTGAAG........................................................................GATTGATTGTGAATGATGCTTTTCAAGTGGCTGCAATTATTGAAAAGTTACCTCTATTGTGGAAGGACTTTAAAAACTACTTGAAACACAAACGCAAGGAGATGATTGTTGA</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-C09HBa0099F14-VXIp7/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U345812" ref_strand="+" ref_description="SGN-U345812        Tomato 200607 #1 [1 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: 2e-39, score=159) genbank/nr: gi|77548751|gb|ABA91548.1| retrotransposon protein, putative, Ty1-copia sub-class [Oryza sativa (japonica cultivar-group)] >gi|62701868|gb|AAX92941.1| retrotransposon protein, putative, Ty1-copia sub-class [Oryza sativa (japonica cultivar-group)] (evalue: 1e-101, score=372)">
      <seq>gtttccaagttccagggaaggaaaatcacgtctgcaagttgaagaagtccttatatggacttaagcagtctccaaggcagtggtataaaaggtttgacagctatatggtgaagttgggctatactcggagctcatatgattgttgtgtctactacaataggctcaatgatgattcattcatctatctggtgctttatgtagatgatatgttgatagctgcaaagaagaagtatgacattcagaagctgaagggtttacttagtgctgagtttgagatgaaggatctgggagccgctcggaagattttagggatggagatcattagagacagagagagaaggaaacttttcttgtcacagagaagctacattcagaaggtcttggcgaggtttggcatgtcttcatctaagcccattgatacccccagtgctgccaatatccatctcactgccatgttcgctccacagtcagaagaagagaaggagtatatgtcacgagtcccttatgccagtgccgtaagaagtttgatgtatgctatggtctgtacaaggccagatttagcacatgcagtcagtgtagtgagcagattcatgggacaaccagggagagaacattggcaggctgtgaagagaattttccggtaccttagaggtacatctgacgttggtctcatttatggaggtgatactcagtgcttggttactggctattctgattcagactatgctggagatgttgacacaagaagatcgatgactggctatgtgtttaccctgggaggatctgtcgtcagttggaaggcaacttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C09HBa0099F14-VXIp7/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C09HBa0099F14.1" temp_strand="-" temp_description="C09HBa0099F14.1  EU139069.1 htgs_phase:2 submitted_to_sgn_as:C09HBa0099F14 upload_account_name:spain">
        <position start="88091" stop="86684"/>
      </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="87791" g_stop="86984" g_length="808"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="808" r_length="808" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C09HBa0099F14.1" gen_strand="-" ref_id="SGN-U345812" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>808</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C09HBa0099F14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U345812" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="87791" e_stop="86984"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTTCCAAGTTCTAGGGAAGGAAAATCACGTCTTCAAGTTGAAGAAGTCCTTATATGGACTTAAGCAGTCTCCAAGGCAGTGGTACAAAAGGTTTGACAGCTATATGGTGAAGTTGGGCTATACTCAGAGCTCATATGATTGTTGTGTCTACTACAATAGGCTCAAGGATGATTCATTCATCTATCTGGTGCTTTATGTAGATGATATGTTGATAGCTGCAAAGAAGAAGTATGACATTCAGAAGCTGAAGGGTTTACTTAGTGCTGAGTTTGAGATGAAGGATCTGGGAGCCGCTCGAAAGATTCTAGGGATGGAGATCATTAGAGACAGAGAGAGAAGGAAACTTTTCTTGTCACAGAGAAGCTACATTCAGAAGGTCTTGGCGAGGTTTGGCATGTCTTCATCTAAGCCTATTGATACCCCCAGTGCTGCCAATATCCATCTCACTGCCATGTTCGCTCCACAGTCAGAAGAAGAGAAGGAGTATATGTCACGAGTCCCTTATGCCAGTGCCGTAGGAAGTTTGATGTATGTTATGGTCTGTACAAGGCCAGATTTAGCACATGCAGTCAGTGTAGTAAGCAGATTCATGGGACAACCTGGGAAAGAACATTGGCAGGCTGTGAAGAGAATTTTCCGGTACCTTAGAGGTACATCTGACGTTGGTCTCATTTATGGAGGTGATACTCAGTGCTTGGTTACTGGCTATTCTGATTCTTACTATGCTGGAGATGTTGACACAAGAAGATCGATGACTGGCTATGTGTTTACCCTTGGAGGATCTGTCGTCAGTTGGAAGGCAACTTT</genome_strand>
        <mrna_strand>GTTTCCAAGTTCCAGGGAAGGAAAATCACGTCTGCAAGTTGAAGAAGTCCTTATATGGACTTAAGCAGTCTCCAAGGCAGTGGTATAAAAGGTTTGACAGCTATATGGTGAAGTTGGGCTATACTCGGAGCTCATATGATTGTTGTGTCTACTACAATAGGCTCAATGATGATTCATTCATCTATCTGGTGCTTTATGTAGATGATATGTTGATAGCTGCAAAGAAGAAGTATGACATTCAGAAGCTGAAGGGTTTACTTAGTGCTGAGTTTGAGATGAAGGATCTGGGAGCCGCTCGGAAGATTTTAGGGATGGAGATCATTAGAGACAGAGAGAGAAGGAAACTTTTCTTGTCACAGAGAAGCTACATTCAGAAGGTCTTGGCGAGGTTTGGCATGTCTTCATCTAAGCCCATTGATACCCCCAGTGCTGCCAATATCCATCTCACTGCCATGTTCGCTCCACAGTCAGAAGAAGAGAAGGAGTATATGTCACGAGTCCCTTATGCCAGTGCCGTAAGAAGTTTGATGTATGCTATGGTCTGTACAAGGCCAGATTTAGCACATGCAGTCAGTGTAGTGAGCAGATTCATGGGACAACCAGGGAGAGAACATTGGCAGGCTGTGAAGAGAATTTTCCGGTACCTTAGAGGTACATCTGACGTTGGTCTCATTTATGGAGGTGATACTCAGTGCTTGGTTACTGGCTATTCTGATTCAGACTATGCTGGAGATGTTGACACAAGAAGATCGATGACTGGCTATGTGTTTACCCTGGGAGGATCTGTCGTCAGTTGGAAGGCAACTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>7</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="8018" PGL_stop="7140"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="8018" e_stop="7140"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <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="0.999">
            <gDNA_exon_boundary e_start="8018" e_stop="7140" e_length="879"/>
          </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="8018" stop="7140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U346957" 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>ATTTGGTCAGTCATGTTATATGAAAAGCAATCCACTATTCTTTAGTTTCGTTAGCGTGATAGTGAAAAATTTATTTTCAGGTGCTTTTATGGATGCCATTAGTGGAATGGAATTTGACTTTGTTGCTTCGGGACATTATGCAAAGATTGTCCATGCATCTACTGAGCAGCTGGACGAACCTTCTGTCTTGGAATTGTCAAAAGATATGGTGTGTTTTTATATTCGTACATGTTTCTTAGAGCCTCTTACCCTATTTTCTTTTGTAAAAGTTTGATATGTTCACTTGAGAAGGGGATATCTTGAAGATGAGAGTGGTGTGGAAGAGTCTTGCTTCACTGTAGGTAAAATGAAGAACATATGGGAAATGACTTACAGATATACATGGTTGGGAATTAAACATTATAGTCCCATCAAAAGAAGTTCTTTTGTAAGAGACAGACATTTAGCAGTTGAGGATACAAAGTTTGATTTAACACCTTCCCAACCCACCTAGCCCCCGTTGCTTTTAACCAAGATATCTTCTTTGAACTTATGATCAACGTCTTTCACGACTGTCTGTATAATTCTTTCAGGTAAATTTGGTATATGTTTCTTGAGATATATTACATTTGGTTCTTATCTTGAAAAATATAGTAAATGTGATGAAGCGTCTTAAGATATATCTCATAATGAAATTGTAATGTAGATCTCGAAATTATGATTAAAAACAGATAAATAAAACAACCAAAGCAAATATATTATTCTGTTGAAGGTTCATATGTAGTATCAATACTGCTCCAAGAATGATGGTTAACTAGGAGTTCATCATCTTTTGATACAGAAGAAATAGTTTAATTTGCCACACTTCAATTCCTGATTTACTGAGAGTTTTACATCTTA</gDNA_template>
            <first_frame> I  W  S  V  M  L  Y  E  K  Q  S  T  I  L  *  F  R  *  R  D  S  E  K  F  I  F  R  C  F  Y  G  C  H  *  W  N  G  I  *  L  C  C  F  G  T  L  C  K  D  C  P  C  I  Y  *  A  A  G  R  T  F  C  L  G  I  V  K  R  Y  G  V  F  L  Y  S  Y  M  F  L  R  A  S  Y  P  I  F  F  C  K  S  L  I  C  S  L  E  K  G  I  S  *  R  *  E  W  C  G  R  V  L  L  H  C  R  *  N  E  E  H  M  G  N  D  L  Q  I  Y  M  V  G  N  *  T  L  *  S  H  Q  K  K  F  F  C  K  R  Q  T  F  S  S  *  G  Y  K  V  *  F  N  T  F  P  T  H  L  A  P  V  A  F  N  Q  D  I  F  F  E  L  M  I  N  V  F  H  D  C  L  Y  N  S  F  R  *  I  W  Y  M  F  L  E  I  Y  Y  I  W  F  L  S  *  K  I  *  *  M  *  *  S  V  L  R  Y  I  S  *  *  N  C  N  V  D  L  E  I  M  I  K  N  R  *  I  K  Q  P  K  Q  I  Y  Y  S  V  E  G  S  Y  V  V  S  I  L  L  Q  E  *  W  L  T  R  S  S  S  S  F  D  T  E  E  I  V  *  F  A  T  L  Q  F  L  I  Y  *  E  F  Y  I  L </first_frame>
            <second_frame>  F  G  Q  S  C  Y  M  K  S  N  P  L  F  F  S  F  V  S  V  I  V  K  N  L  F  S  G  A  F  M  D  A  I  S  G  M  E  F  D  F  V  A  S  G  H  Y  A  K  I  V  H  A  S  T  E  Q  L  D  E  P  S  V  L  E  L  S  K  D  M  V  C  F  Y  I  R  T  C  F  L  E  P  L  T  L  F  S  F  V  K  V  *  Y  V  H  L  R  R  G  Y  L  E  D  E  S  G  V  E  E  S  C  F  T  V  G  K  M  K  N  I  W  E  M  T  Y  R  Y  T  W  L  G  I  K  H  Y  S  P  I  K  R  S  S  F  V  R  D  R  H  L  A  V  E  D  T  K  F  D  L  T  P  S  Q  P  T  *  P  P  L  L  L  T  K  I  S  S  L  N  L  *  S  T  S  F  T  T  V  C  I  I  L  S  G  K  F  G  I  C  F  L  R  Y  I  T  F  G  S  Y  L  E  K  Y  S  K  C  D  E  A  S  *  D  I  S  H  N  E  I  V  M  *  I  S  K  L  *  L  K  T  D  K  *  N  N  Q  S  K  Y  I  I  L  L  K  V  H  M  *  Y  Q  Y  C  S  K  N  D  G  *  L  G  V  H  H  L  L  I  Q  K  K  *  F  N  L  P  H  F  N  S  *  F  T  E  S  F  T  S   </second_frame>
            <third_frame>   L  V  S  H  V  I  *  K  A  I  H  Y  S  L  V  S  L  A  *  *  *  K  I  Y  F  Q  V  L  L  W  M  P  L  V  E  W  N  L  T  L  L  L  R  D  I  M  Q  R  L  S  M  H  L  L  S  S  W  T  N  L  L  S  W  N  C  Q  K  I  W  C  V  F  I  F  V  H  V  S  *  S  L  L  P  Y  F  L  L  *  K  F  D  M  F  T  *  E  G  D  I  L  K  M  R  V  V  W  K  S  L  A  S  L  *  V  K  *  R  T  Y  G  K  *  L  T  D  I  H  G  W  E  L  N  I  I  V  P  S  K  E  V  L  L  *  E  T  D  I  *  Q  L  R  I  Q  S  L  I  *  H  L  P  N  P  P  S  P  R  C  F  *  P  R  Y  L  L  *  T  Y  D  Q  R  L  S  R  L  S  V  *  F  F  Q  V  N  L  V  Y  V  S  *  D  I  L  H  L  V  L  I  L  K  N  I  V  N  V  M  K  R  L  K  I  Y  L  I  M  K  L  *  C  R  S  R  N  Y  D  *  K  Q  I  N  K  T  T  K  A  N  I  L  F  C  *  R  F  I  C  S  I  N  T  A  P  R  M  M  V  N  *  E  F  I  I  F  *  Y  R  R  N  S  L  I  C  H  T  S  I  P  D  L  L  R  V  L  H  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="C09HBa0099F14.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="8017" stop="7745"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>270</number_coding_nucleotides>
                  <number_encoded_amino_acids>90</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FGQSCYMKSNPLFFSFVSVIVKNLFSGAFMDAISGMEFDFVASGHYAKIVHASTEQLDEPSVLELSKDMVCFYIRTCFLEPLTLFSFVKV*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C09HBa0099F14.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="7744" stop="7526"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>216</number_coding_nucleotides>
                  <number_encoded_amino_acids>72</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>YVHLRRGYLEDESGVEESCFTVGKMKNIWEMTYRYTWLGIKHYSPIKRSSFVRDRHLAVEDTKFDLTPSQPT*</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="44172" PGL_stop="44870"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="44172" e_stop="44870"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.977"/>
        </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="0.977">
            <gDNA_exon_boundary e_start="44172" e_stop="44870" e_length="699"/>
          </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="44172" stop="44870"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U340239" 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>GTGATGGTGTTTCTCAAGTACAATCCATTGGGAATCAAGCTGTAAACAATATTGTGAGCTTTCTAAACATTCCACCAGATGACTCTGATTCTAATGAGACTTCAACTGCTGGAGATGGAATATCTTATGAGAGAGAGGGTGAGAATACTCTGTACACTCATCTGGACCGTTCTACTTCTTTGCAATCTGATAGGAGTAGAACGTCTGAAGCAGCAAGTTTGCAAATTGGGAGAATATTCTACCACATCTGGTTCCAGATGCGTTCAAATAATGATGTTGTGTGCTATTGTGGCTTTCTTCTCGTCTTTCTTTGGAACTTTAGTTTGCTTTCTATGCTGTACCTGGCAGCTCTCTTTCTGTATGCGCTTTGTGTGAACACTGGGCCAAGTTACATTTTCTGGGTTATTATGCTAATCTACACAGAAATATACATTTTGATCCAGTATATTTATCAAATAATTATTCAGCACTGTGGTTTTAGCATTCAGTCCACTACTCTTCAAGAGCTGGGTTTTCCTACCAAAAGGATAACATCATCTTTTGTCATTAGTTCACTGCCACTATTTCTGGTGTACTTGTTTACCCTCATACAGAGCACTATAACGGCAAAAGATGGTGAATGGTTTTCTCTAGGATACAGTACTTGGAAAAGTAGACTTTTGGACCCAAAGGAGGACATAGTGGCATCTGGGTGGATTG</gDNA_template>
            <first_frame> V  M  V  F  L  K  Y  N  P  L  G  I  K  L  *  T  I  L  *  A  F  *  T  F  H  Q  M  T  L  I  L  M  R  L  Q  L  L  E  M  E  Y  L  M  R  E  R  V  R  I  L  C  T  L  I  W  T  V  L  L  L  C  N  L  I  G  V  E  R  L  K  Q  Q  V  C  K  L  G  E  Y  S  T  T  S  G  S  R  C  V  Q  I  M  M  L  C  A  I  V  A  F  F  S  S  F  F  G  T  L  V  C  F  L  C  C  T  W  Q  L  S  F  C  M  R  F  V  *  T  L  G  Q  V  T  F  S  G  L  L  C  *  S  T  Q  K  Y  T  F  *  S  S  I  F  I  K  *  L  F  S  T  V  V  L  A  F  S  P  L  L  F  K  S  W  V  F  L  P  K  G  *  H  H  L  L  S  L  V  H  C  H  Y  F  W  C  T  C  L  P  S  Y  R  A  L  *  R  Q  K  M  V  N  G  F  L  *  D  T  V  L  G  K  V  D  F  W  T  Q  R  R  T  *  W  H  L  G  G  L </first_frame>
            <second_frame>  *  W  C  F  S  S  T  I  H  W  E  S  S  C  K  Q  Y  C  E  L  S  K  H  S  T  R  *  L  *  F  *  *  D  F  N  C  W  R  W  N  I  L  *  E  R  G  *  E  Y  S  V  H  S  S  G  P  F  Y  F  F  A  I  *  *  E  *  N  V  *  S  S  K  F  A  N  W  E  N  I  L  P  H  L  V  P  D  A  F  K  *  *  C  C  V  L  L  W  L  S  S  R  L  S  L  E  L  *  F  A  F  Y  A  V  P  G  S  S  L  S  V  C  A  L  C  E  H  W  A  K  L  H  F  L  G  Y  Y  A  N  L  H  R  N  I  H  F  D  P  V  Y  L  S  N  N  Y  S  A  L  W  F  *  H  S  V  H  Y  S  S  R  A  G  F  S  Y  Q  K  D  N  I  I  F  C  H  *  F  T  A  T  I  S  G  V  L  V  Y  P  H  T  E  H  Y  N  G  K  R  W  *  M  V  F  S  R  I  Q  Y  L  E  K  *  T  F  G  P  K  G  G  H  S  G  I  W  V  D   </second_frame>
            <third_frame>   D  G  V  S  Q  V  Q  S  I  G  N  Q  A  V  N  N  I  V  S  F  L  N  I  P  P  D  D  S  D  S  N  E  T  S  T  A  G  D  G  I  S  Y  E  R  E  G  E  N  T  L  Y  T  H  L  D  R  S  T  S  L  Q  S  D  R  S  R  T  S  E  A  A  S  L  Q  I  G  R  I  F  Y  H  I  W  F  Q  M  R  S  N  N  D  V  V  C  Y  C  G  F  L  L  V  F  L  W  N  F  S  L  L  S  M  L  Y  L  A  A  L  F  L  Y  A  L  C  V  N  T  G  P  S  Y  I  F  W  V  I  M  L  I  Y  T  E  I  Y  I  L  I  Q  Y  I  Y  Q  I  I  I  Q  H  C  G  F  S  I  Q  S  T  T  L  Q  E  L  G  F  P  T  K  R  I  T  S  S  F  V  I  S  S  L  P  L  F  L  V  Y  L  F  T  L  I  Q  S  T  I  T  A  K  D  G  E  W  F  S  L  G  Y  S  T  W  K  S  R  L  L  D  P  K  E  D  I  V  A  S  G  W  I  </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="C09HBa0099F14.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="44174" stop="44869"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>696</number_coding_nucleotides>
                  <number_encoded_amino_acids>232</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>DGVSQVQSIGNQAVNNIVSFLNIPPDDSDSNETSTAGDGISYEREGENTLYTHLDRSTSLQSDRSRTSEAASLQIGRIFYHIWFQMRSNNDVVCYCGFLLVFLWNFSLLSMLYLAALFLYALCVNTGPSYIFWVIMLIYTEIYILIQYIYQIIIQHCGFSIQSTTLQELGFPTKRITSSFVISSLPLFLVYLFTLIQSTITAKDGEWFSLGYSTWKSRLLDPKEDIVASGWI</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="49016" PGL_stop="49708"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="49016" e_stop="49029"/>
            <exon e_start="49111" e_stop="49255"/>
            <exon e_start="49342" e_stop="49708"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.998" acc_prob="0.871" e_score="0.929"/>
          <exon-intron don_prob="0.982" acc_prob="0.956" e_score="0.986"/>
          <exon-only e_score="0.986"/>
        </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="0.929">
            <gDNA_exon_boundary e_start="49016" e_stop="49029" e_length="14"/>
          </exon>
          <intron i_serial="1" don_prob="0.998" acc_prob="0.871">
            <gDNA_intron_boundary i_start="49030" i_stop="49110" i_length="81"/>
          </intron>
          <exon e_serial="2" e_score="0.986">
            <gDNA_exon_boundary e_start="49111" e_stop="49255" e_length="145"/>
          </exon>
          <intron i_serial="2" don_prob="0.982" acc_prob="0.956">
            <gDNA_intron_boundary i_start="49256" i_stop="49341" i_length="86"/>
          </intron>
          <exon e_serial="3" e_score="0.986">
            <gDNA_exon_boundary e_start="49342" e_stop="49708" e_length="367"/>
          </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="49016" stop="49029"/>
              <exon start="49111" stop="49255"/>
              <exon start="49342" stop="49708"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U330144" 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>AGAGGAAACACCGC : AGGGCTTGCTAGGTGATACTCTCAGCAAATTCAGTATATGGGGTCTCTACATCACATTTGTTTTAGCAGTCGGTCGCTTCATCAGACTGCAGTGCTCTGACCTACGGATGAGAATCCCATATGAAAATCTTCCTTCATGTGATAG : ATTGATTGCCATCTGTGAGGATATATATGCTGCAAGAGCTGAGGGTGAGCTCGTGGTGGAGGAAATCCTATACTGGACATTAGTGAAGATATACAGGTCCCCGCACATGTTGCTCGAGTATACTAAGTCTGATTAGCCTAGTAAGAAAAGTTTACTCTCAACTGCGACTGATGTTTGTCCTAACGCATATGTAGAAGAGTGACTAACCAATACCCCATAGAATTCATCTTTATCCTTGCAGTGAACATGCCAAAACTTCCAAACGATCTTTTTTGTTTTAGCTTGAAGTGGAGCAGATGACAGAAACATATGTAAATATAGGCAGAGCGCAAAATATAGCAACAGTTCTGTGTAAAACACACCTTAT</gDNA_template>
            <first_frame> R  G  N  T  A :   G  L  A  R  *  Y  S  Q  Q  I  Q  Y  M  G  S  L  H  H  I  C  F  S  S  R  S  L  H  Q  T  A  V  L  *  P  T  D  E  N  P  I  *  K  S  S  F  M  *  *  :  I  D  C  H  L  *  G  Y  I  C  C  K  S  *  G  *  A  R  G  G  G  N  P  I  L  D  I  S  E  D  I  Q  V  P  A  H  V  A  R  V  Y  *  V  *  L  A  *  *  E  K  F  T  L  N  C  D  *  C  L  S  *  R  I  C  R  R  V  T  N  Q  Y  P  I  E  F  I  F  I  L  A  V  N  M  P  K  L  P  N  D  L  F  C  F  S  L  K  W  S  R  *  Q  K  H  M  *  I  *  A  E  R  K  I  *  Q  Q  F  C  V  K  H  T  L  </first_frame>
            <second_frame>  E  E  T  P   : Q  G  L  L  G  D  T  L  S  K  F  S  I  W  G  L  Y  I  T  F  V  L  A  V  G  R  F  I  R  L  Q  C  S  D  L  R  M  R  I  P  Y  E  N  L  P  S  C  D  R :   L  I  A  I  C  E  D  I  Y  A  A  R  A  E  G  E  L  V  V  E  E  I  L  Y  W  T  L  V  K  I  Y  R  S  P  H  M  L  L  E  Y  T  K  S  D  *  P  S  K  K  S  L  L  S  T  A  T  D  V  C  P  N  A  Y  V  E  E  *  L  T  N  T  P  *  N  S  S  L  S  L  Q  *  T  C  Q  N  F  Q  T  I  F  F  V  L  A  *  S  G  A  D  D  R  N  I  C  K  Y  R  Q  S  A  K  Y  S  N  S  S  V  *  N  T  P  Y </second_frame>
            <third_frame>   R  K  H  R  :  R  A  C  *  V  I  L  S  A  N  S  V  Y  G  V  S  T  S  H  L  F  *  Q  S  V  A  S  S  D  C  S  A  L  T  Y  G  *  E  S  H  M  K  I  F  L  H  V  I   : D  *  L  P  S  V  R  I  Y  M  L  Q  E  L  R  V  S  S  W  W  R  K  S  Y  T  G  H  *  *  R  Y  T  G  P  R  T  C  C  S  S  I  L  S  L  I  S  L  V  R  K  V  Y  S  Q  L  R  L  M  F  V  L  T  H  M  *  K  S  D  *  P  I  P  H  R  I  H  L  Y  P  C  S  E  H  A  K  T  S  K  R  S  F  L  F  *  L  E  V  E  Q  M  T  E  T  Y  V  N  I  G  R  A  Q  N  I  A  T  V  L  C  K  T  H  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="C09HBa0099F14.1" strand="+"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="49017" stop="49029"/>
                    <exon start="49111" stop="49255"/>
                    <exon start="49342" stop="49477"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>291</number_coding_nucleotides>
                  <number_encoded_amino_acids>97</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EETPQGLLGDTLSKFSIWGLYITFVLAVGRFIRLQCSDLRMRIPYENLPSCDRLIAICEDIYAARAEGELVVEEILYWTLVKIYRSPHMLLEYTKSD*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="+" PGL_start="53630" PGL_stop="54312"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="53630" e_stop="54312"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.969"/>
        </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="0.969">
            <gDNA_exon_boundary e_start="53630" e_stop="54312" e_length="683"/>
          </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="53630" stop="54312"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U331343" 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="4" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>ATTCTAAGGCATTTGTGTTCTAGTATTTCACTTGTGTTCTTTGTAGAGTGAAATAAATATTGGTGTAGTTGTTCTTTGGTGCATGTAGGATCATTTTCACCCTAACCACGTTAAATATTTTTTTCTTCCTTATTCTTTGATTTCACGTTTCCGCTAACAATTGGTATCAGAGCCAAAGTTCCACATCAAATTTTATTTACTTTCATTTTCTGTAGTTCCGAATACATTGAAGTAAAAAAGGAAGAACAAGTAAGAAATGAGTTCCATGAAGTTTAAGGTTGATAGATTTAGTGGGCAAAACAACTTCAATATCTGAAAAATCCAGATGATGGAGTTATTGCGGAGGGAAGGTTCAATCCATGCTATTGACGAAAAATACCTCGATAAGATATCGAATTTCGATAAGGAGAAGATTGAAGGAGATGCATTGCGTGTAATCCAACTGTCCCTTGCACCTAACGTACTTTGTGAAGTGAGAACAAATACCGAAGAGACGACCAAGGAGTTATGGGAAAAGCTAGAGTACAATAATGTTGTTACAATGACATCTTCATACATTTAAGATGGATTCAGGTACTTTGTTGCAAGACCATCTAGGTGCATTCAATAAACTTGTGATGGACTTAGAAACTGCAGGAATTCAGGAGGATAAATCTTGCATGTTCTTTGCTATTTTCATTGAC</gDNA_template>
            <first_frame> I  L  R  H  L  C  S  S  I  S  L  V  F  F  V  E  *  N  K  Y  W  C  S  C  S  L  V  H  V  G  S  F  S  P  *  P  R  *  I  F  F  S  S  L  F  F  D  F  T  F  P  L  T  I  G  I  R  A  K  V  P  H  Q  I  L  F  T  F  I  F  C  S  S  E  Y  I  E  V  K  K  E  E  Q  V  R  N  E  F  H  E  V  *  G  *  *  I  *  W  A  K  Q  L  Q  Y  L  K  N  P  D  D  G  V  I  A  E  G  R  F  N  P  C  Y  *  R  K  I  P  R  *  D  I  E  F  R  *  G  E  D  *  R  R  C  I  A  C  N  P  T  V  P  C  T  *  R  T  L  *  S  E  N  K  Y  R  R  D  D  Q  G  V  M  G  K  A  R  V  Q  *  C  C  Y  N  D  I  F  I  H  L  R  W  I  Q  V  L  C  C  K  T  I  *  V  H  S  I  N  L  *  W  T  *  K  L  Q  E  F  R  R  I  N  L  A  C  S  L  L  F  S  L   </first_frame>
            <second_frame>  F  *  G  I  C  V  L  V  F  H  L  C  S  L  *  S  E  I  N  I  G  V  V  V  L  W  C  M  *  D  H  F  H  P  N  H  V  K  Y  F  F  L  P  Y  S  L  I  S  R  F  R  *  Q  L  V  S  E  P  K  F  H  I  K  F  Y  L  L  S  F  S  V  V  P  N  T  L  K  *  K  R  K  N  K  *  E  M  S  S  M  K  F  K  V  D  R  F  S  G  Q  N  N  F  N  I  *  K  I  Q  M  M  E  L  L  R  R  E  G  S  I  H  A  I  D  E  K  Y  L  D  K  I  S  N  F  D  K  E  K  I  E  G  D  A  L  R  V  I  Q  L  S  L  A  P  N  V  L  C  E  V  R  T  N  T  E  E  T  T  K  E  L  W  E  K  L  E  Y  N  N  V  V  T  M  T  S  S  Y  I  *  D  G  F  R  Y  F  V  A  R  P  S  R  C  I  Q  *  T  C  D  G  L  R  N  C  R  N  S  G  G  *  I  L  H  V  L  C  Y  F  H  *  </second_frame>
            <third_frame>   S  K  A  F  V  F  *  Y  F  T  C  V  L  C  R  V  K  *  I  L  V  *  L  F  F  G  A  C  R  I  I  F  T  L  T  T  L  N  I  F  F  F  L  I  L  *  F  H  V  S  A  N  N  W  Y  Q  S  Q  S  S  T  S  N  F  I  Y  F  H  F  L  *  F  R  I  H  *  S  K  K  G  R  T  S  K  K  *  V  P  *  S  L  R  L  I  D  L  V  G  K  T  T  S  I  S  E  K  S  R  *  W  S  Y  C  G  G  K  V  Q  S  M  L  L  T  K  N  T  S  I  R  Y  R  I  S  I  R  R  R  L  K  E  M  H  C  V  *  S  N  C  P  L  H  L  T  Y  F  V  K  *  E  Q  I  P  K  R  R  P  R  S  Y  G  K  S  *  S  T  I  M  L  L  Q  *  H  L  H  T  F  K  M  D  S  G  T  L  L  Q  D  H  L  G  A  F  N  K  L  V  M  D  L  E  T  A  G  I  Q  E  D  K  S  C  M  F  F  A  I  F  I  D </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="C09HBa0099F14.1" strand="+"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="53946" stop="54191"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>243</number_coding_nucleotides>
                  <number_encoded_amino_acids>81</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KIQMMELLRREGSIHAIDEKYLDKISNFDKEKIEGDALRVIQLSLAPNVLCEVRTNTEETTKELWEKLEYNNVVTMTSSYI*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="5" PGL_strand="-" PGL_start="63500" PGL_stop="62793"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="63500" e_stop="62793"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.968"/>
        </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="0.968">
            <gDNA_exon_boundary e_start="63500" e_stop="62793" e_length="708"/>
          </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="63500" stop="62793"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U324842" 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="5" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TAAGGTTGAGAATCAAAAAGGATAATAAGGCTGCAGAAAAGAGGTCACGTGATAATTCAGCAATATCGGAGTAAATTTTGTTGAAGAAGATTCCACAAAATTAAAGAAAAGAAAGAAAGCATCTGGTCCAAAAAGTAATCCTCCTAAGAAGAAATTCAATGGAAACTGCTTTAATTGTGGTAAACATGGTCATAGGGCTAATGAATGCCGGGGTCCTAAGAAGGACAAGAAAAAGAAGGATCAAGCAAACTTGGCTGAATCCAAAGGAGAAATGGACGTTCTATGTGCAATGCTTTCAGAATGTAACTTGGTTGGAAATCCAAGAGAATGGTGGATAGATTCTGGTGCCTCATGCCATGTTTATGCCAACAAAGAATTATTTTCATCATATACTCCAGCACTTACAGATGAAAAATTGTTTATGGCAAACTCCGTTGTTGCAAAGGTGGAAGGAACTGGCAAAGTCCTATTAAAGATGACATCAGGCAAGGTGGTGACTTTGAATAGGGTCTCATATGTTCCAGAATTGAGAAAGAATTTAGTTTCAATTCCAGTTCTGACCAAGAATGAATTTAAATGTGTATTTGTTTCTGATAAAGTAGTAGTAAGCAAAAATGATATGTATGTAGGAAAAGGCTACCTTAGTGATGGCCTTTTCAAACTCAATGTAATTGCAGTTTATATGAATAAAGATTTTGCTTCTTCTTA</gDNA_template>
            <first_frame> *  G  *  E  S  K  R  I  I  R  L  Q  K  R  G  H  V  I  I  Q  Q  Y  R  S  K  F  C  *  R  R  F  H  K  I  K  E  K  K  E  S  I  W  S  K  K  *  S  S  *  E  E  I  Q  W  K  L  L  *  L  W  *  T  W  S  *  G  *  *  M  P  G  S  *  E  G  Q  E  K  E  G  S  S  K  L  G  *  I  Q  R  R  N  G  R  S  M  C  N  A  F  R  M  *  L  G  W  K  S  K  R  M  V  D  R  F  W  C  L  M  P  C  L  C  Q  Q  R  I  I  F  I  I  Y  S  S  T  Y  R  *  K  I  V  Y  G  K  L  R  C  C  K  G  G  R  N  W  Q  S  P  I  K  D  D  I  R  Q  G  G  D  F  E  *  G  L  I  C  S  R  I  E  K  E  F  S  F  N  S  S  S  D  Q  E  *  I  *  M  C  I  C  F  *  *  S  S  S  K  Q  K  *  Y  V  C  R  K  R  L  P  *  *  W  P  F  Q  T  Q  C  N  C  S  L  Y  E  *  R  F  C  F  F  L </first_frame>
            <second_frame>  K  V  E  N  Q  K  G  *  *  G  C  R  K  E  V  T  *  *  F  S  N  I  G  V  N  F  V  E  E  D  S  T  K  L  K  K  R  K  K  A  S  G  P  K  S  N  P  P  K  K  K  F  N  G  N  C  F  N  C  G  K  H  G  H  R  A  N  E  C  R  G  P  K  K  D  K  K  K  K  D  Q  A  N  L  A  E  S  K  G  E  M  D  V  L  C  A  M  L  S  E  C  N  L  V  G  N  P  R  E  W  W  I  D  S  G  A  S  C  H  V  Y  A  N  K  E  L  F  S  S  Y  T  P  A  L  T  D  E  K  L  F  M  A  N  S  V  V  A  K  V  E  G  T  G  K  V  L  L  K  M  T  S  G  K  V  V  T  L  N  R  V  S  Y  V  P  E  L  R  K  N  L  V  S  I  P  V  L  T  K  N  E  F  K  C  V  F  V  S  D  K  V  V  V  S  K  N  D  M  Y  V  G  K  G  Y  L  S  D  G  L  F  K  L  N  V  I  A  V  Y  M  N  K  D  F  A  S  S   </second_frame>
            <third_frame>   R  L  R  I  K  K  D  N  K  A  A  E  K  R  S  R  D  N  S  A  I  S  E  *  I  L  L  K  K  I  P  Q  N  *  R  K  E  R  K  H  L  V  Q  K  V  I  L  L  R  R  N  S  M  E  T  A  L  I  V  V  N  M  V  I  G  L  M  N  A  G  V  L  R  R  T  R  K  R  R  I  K  Q  T  W  L  N  P  K  E  K  W  T  F  Y  V  Q  C  F  Q  N  V  T  W  L  E  I  Q  E  N  G  G  *  I  L  V  P  H  A  M  F  M  P  T  K  N  Y  F  H  H  I  L  Q  H  L  Q  M  K  N  C  L  W  Q  T  P  L  L  Q  R  W  K  E  L  A  K  S  Y  *  R  *  H  Q  A  R  W  *  L  *  I  G  S  H  M  F  Q  N  *  E  R  I  *  F  Q  F  Q  F  *  P  R  M  N  L  N  V  Y  L  F  L  I  K  *  *  *  A  K  M  I  C  M  *  E  K  A  T  L  V  M  A  F  S  N  S  M  *  L  Q  F  I  *  I  K  I  L  L  L  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="C09HBa0099F14.1" strand="-"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="63445" stop="62795"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>651</number_coding_nucleotides>
                  <number_encoded_amino_acids>217</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FSNIGVNFVEEDSTKLKKRKKASGPKSNPPKKKFNGNCFNCGKHGHRANECRGPKKDKKKKDQANLAESKGEMDVLCAMLSECNLVGNPREWWIDSGASCHVYANKELFSSYTPALTDEKLFMANSVVAKVEGTGKVLLKMTSGKVVTLNRVSYVPELRKNLVSIPVLTKNEFKCVFVSDKVVVSKNDMYVGKGYLSDGLFKLNVIAVYMNKDFASS</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="6" PGL_strand="-" PGL_start="64810" PGL_stop="63512"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="64810" e_stop="63696"/>
            <exon e_start="63623" e_stop="63512"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.997" acc_prob="0.957" e_score="0.955"/>
          <exon-only e_score="0.982"/>
        </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="0.955">
            <gDNA_exon_boundary e_start="64810" e_stop="63696" e_length="1115"/>
          </exon>
          <intron i_serial="1" don_prob="0.997" acc_prob="0.957">
            <gDNA_intron_boundary i_start="63695" i_stop="63624" i_length="72"/>
          </intron>
          <exon e_serial="2" e_score="0.982">
            <gDNA_exon_boundary e_start="63623" e_stop="63512" e_length="112"/>
          </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="64810" stop="63696"/>
              <exon start="63623" stop="63512"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U312594" 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="6" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AGACATGTTCCTTGCTGAAAATGGCTATAAATGAAGTCAATTTATGATTTTTTTATCACTGAAAAATTTTTCTTTCTCTGCATTTATTTTTCTCTCAAATAAAATCAAAGTGTCGATCGACTGAGTCTGTGTGACTTGTTGTTGTTCTTAAGTTCGTTGAAGTTAAAGAAGTTTGAGGTACCGCTATTTCTTTAACAGGTTTAATCTGTTTTATCTTGGGAGAAATTAATCCATAACCTTGGGTACAGTGAGGGGATTAAATTTCTTAAGGACACACAGTAGTTTCTGTGGACTCGGATTATTTCTTATATTCTATATTATTTTCTGCTTCATCTTATTTCTTTTTCTGTTTCTGTTTATTAACTTTATAAATACAAGTTATTGTAAGAATAACAATCTTAAGAAATTTAGCAGTTTCTGTATTTGAGGTTTCTTGAGATTAAAACCTTTATGGTTTTCTACTCTGCTTGAATTTTTAAAATTCATTCGATTAACGATTAAAAGAACATAAAAACTTTATCGTTAAATCAGAAACAGTTTGTGTAAAGATTTGTTCTTTACTGTTAGTATTTTAAATACTTAATTTATCTGCCATTTGTGACAGAAAAAAATGACTAATTCAAGTCAAACAAATGATGGAACAGTAAGTGCTGCAACAACAACGGTTGCACATAATCGTTCAAATGCTGCCTTAGCACCGACTGAGAAACCTGCAAAGTTTTCTGGAGTCGACTTTAAGAGATGGCAGCAAAAGATGTTCTTCTATCTCACTATGTTGAGTCTGCAGAAGCTCATCAATGAGAATGTTCCTGTTATGTCAGATGAAACTCCGGCTGATGAACGATTCTTGGTAACAGAAGCATGGACACACTCAGATTTTTTGTGTAAAAATTATATTTTGAGTTGTCTGCAAGATGATCTGTACAATGTGTACAGCAATGCAAAAACCTCAAAAGAACTTTGGGATGCTTTAGAAAAGAAGTACAAAACAGAAGATGTCGGAATGAAGAAATTCATTGTGGCAAAATTTCTGGACTTTAAGATGATAGACAGTAAGACTGTCGTCACCCAAGTTCAAGAATTGCAGGTCATAATCCATGATCTCCTTGCTGAAG : GATTGATTGTGAATGATGCTTTTCAAGTGGCTGCAATTATTGAAAAGTTACCTCCATTGTGGAAGGACTTTAAAAACTACTTGAAACACAAACGCAAGGAGATGACTGTTGA</gDNA_template>
            <first_frame> R  H  V  P  C  *  K  W  L  *  M  K  S  I  Y  D  F  F  I  T  E  K  F  F  F  L  C  I  Y  F  S  L  K  *  N  Q  S  V  D  R  L  S  L  C  D  L  L  L  F  L  S  S  L  K  L  K  K  F  E  V  P  L  F  L  *  Q  V  *  S  V  L  S  W  E  K  L  I  H  N  L  G  Y  S  E  G  I  K  F  L  K  D  T  Q  *  F  L  W  T  R  I  I  S  Y  I  L  Y  Y  F  L  L  H  L  I  S  F  S  V  S  V  Y  *  L  Y  K  Y  K  L  L  *  E  *  Q  S  *  E  I  *  Q  F  L  Y  L  R  F  L  E  I  K  T  F  M  V  F  Y  S  A  *  I  F  K  I  H  S  I  N  D  *  K  N  I  K  T  L  S  L  N  Q  K  Q  F  V  *  R  F  V  L  Y  C  *  Y  F  K  Y  L  I  Y  L  P  F  V  T  E  K  N  D  *  F  K  S  N  K  *  W  N  S  K  C  C  N  N  N  G  C  T  *  S  F  K  C  C  L  S  T  D  *  E  T  C  K  V  F  W  S  R  L  *  E  M  A  A  K  D  V  L  L  S  H  Y  V  E  S  A  E  A  H  Q  *  E  C  S  C  Y  V  R  *  N  S  G  *  *  T  I  L  G  N  R  S  M  D  T  L  R  F  F  V  *  K  L  Y  F  E  L  S  A  R  *  S  V  Q  C  V  Q  Q  C  K  N  L  K  R  T  L  G  C  F  R  K  E  V  Q  N  R  R  C  R  N  E  E  I  H  C  G  K  I  S  G  L  *  D  D  R  Q  *  D  C  R  H  P  S  S  R  I  A  G  H  N  P  *  S  P  C  *  R :   I  D  C  E  *  C  F  S  S  G  C  N  Y  *  K  V  T  S  I  V  E  G  L  *  K  L  L  E  T  Q  T  Q  G  D  D  C  * </first_frame>
            <second_frame>  D  M  F  L  A  E  N  G  Y  K  *  S  Q  F  M  I  F  L  S  L  K  N  F  S  F  S  A  F  I  F  L  S  N  K  I  K  V  S  I  D  *  V  C  V  T  C  C  C  S  *  V  R  *  S  *  R  S  L  R  Y  R  Y  F  F  N  R  F  N  L  F  Y  L  G  R  N  *  S  I  T  L  G  T  V  R  G  L  N  F  L  R  T  H  S  S  F  C  G  L  G  L  F  L  I  F  Y  I  I  F  C  F  I  L  F  L  F  L  F  L  F  I  N  F  I  N  T  S  Y  C  K  N  N  N  L  K  K  F  S  S  F  C  I  *  G  F  L  R  L  K  P  L  W  F  S  T  L  L  E  F  L  K  F  I  R  L  T  I  K  R  T  *  K  L  Y  R  *  I  R  N  S  L  C  K  D  L  F  F  T  V  S  I  L  N  T  *  F  I  C  H  L  *  Q  K  K  M  T  N  S  S  Q  T  N  D  G  T  V  S  A  A  T  T  T  V  A  H  N  R  S  N  A  A  L  A  P  T  E  K  P  A  K  F  S  G  V  D  F  K  R  W  Q  Q  K  M  F  F  Y  L  T  M  L  S  L  Q  K  L  I  N  E  N  V  P  V  M  S  D  E  T  P  A  D  E  R  F  L  V  T  E  A  W  T  H  S  D  F  L  C  K  N  Y  I  L  S  C  L  Q  D  D  L  Y  N  V  Y  S  N  A  K  T  S  K  E  L  W  D  A  L  E  K  K  Y  K  T  E  D  V  G  M  K  K  F  I  V  A  K  F  L  D  F  K  M  I  D  S  K  T  V  V  T  Q  V  Q  E  L  Q  V  I  I  H  D  L  L  A  E   : G  L  I  V  N  D  A  F  Q  V  A  A  I  I  E  K  L  P  P  L  W  K  D  F  K  N  Y  L  K  H  K  R  K  E  M  T  V   </second_frame>
            <third_frame>   T  C  S  L  L  K  M  A  I  N  E  V  N  L  *  F  F  Y  H  *  K  I  F  L  S  L  H  L  F  F  S  Q  I  K  S  K  C  R  S  T  E  S  V  *  L  V  V  V  L  K  F  V  E  V  K  E  V  *  G  T  A  I  S  L  T  G  L  I  C  F  I  L  G  E  I  N  P  *  P  W  V  Q  *  G  D  *  I  S  *  G  H  T  V  V  S  V  D  S  D  Y  F  L  Y  S  I  L  F  S  A  S  S  Y  F  F  F  C  F  C  L  L  T  L  *  I  Q  V  I  V  R  I  T  I  L  R  N  L  A  V  S  V  F  E  V  S  *  D  *  N  L  Y  G  F  L  L  C  L  N  F  *  N  S  F  D  *  R  L  K  E  H  K  N  F  I  V  K  S  E  T  V  C  V  K  I  C  S  L  L  L  V  F  *  I  L  N  L  S  A  I  C  D  R  K  K  *  L  I  Q  V  K  Q  M  M  E  Q  *  V  L  Q  Q  Q  R  L  H  I  I  V  Q  M  L  P  *  H  R  L  R  N  L  Q  S  F  L  E  S  T  L  R  D  G  S  K  R  C  S  S  I  S  L  C  *  V  C  R  S  S  S  M  R  M  F  L  L  C  Q  M  K  L  R  L  M  N  D  S  W  *  Q  K  H  G  H  T  Q  I  F  C  V  K  I  I  F  *  V  V  C  K  M  I  C  T  M  C  T  A  M  Q  K  P  Q  K  N  F  G  M  L  *  K  R  S  T  K  Q  K  M  S  E  *  R  N  S  L  W  Q  N  F  W  T  L  R  *  *  T  V  R  L  S  S  P  K  F  K  N  C  R  S  *  S  M  I  S  L  L  K  :  D  *  L  *  M  M  L  F  K  W  L  Q  L  L  K  S  Y  L  H  C  G  R  T  L  K  T  T  *  N  T  N  A  R  R  *  L  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="C09HBa0099F14.1" strand="-"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="64209" stop="63696"/>
                    <exon start="63623" stop="63514"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>624</number_coding_nucleotides>
                  <number_encoded_amino_acids>208</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>QKKMTNSSQTNDGTVSAATTTVAHNRSNAALAPTEKPAKFSGVDFKRWQQKMFFYLTMLSLQKLINENVPVMSDETPADERFLVTEAWTHSDFLCKNYILSCLQDDLYNVYSNAKTSKELWDALEKKYKTEDVGMKKFIVAKFLDFKMIDSKTVVTQVQELQVIIHDLLAEGLIVNDAFQVAAIIEKLPPLWKDFKNYLKHKRKEMTV</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C09HBa0099F14.1" strand="-"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="64581" stop="64384"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>195</number_coding_nucleotides>
                  <number_encoded_amino_acids>65</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SITLGTVRGLNFLRTHSSFCGLGLFLIFYIIFCFILFLFLFLFINFINTSYCKNNNLKKFSSFCI*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="7" PGL_strand="-" PGL_start="87791" PGL_stop="86984"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="87791" e_stop="86984"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.980"/>
        </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="0.980">
            <gDNA_exon_boundary e_start="87791" e_stop="86984" e_length="808"/>
          </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="87791" stop="86984"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U345812" 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="7" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GTTTCCAAGTTCTAGGGAAGGAAAATCACGTCTTCAAGTTGAAGAAGTCCTTATATGGACTTAAGCAGTCTCCAAGGCAGTGGTACAAAAGGTTTGACAGCTATATGGTGAAGTTGGGCTATACTCAGAGCTCATATGATTGTTGTGTCTACTACAATAGGCTCAAGGATGATTCATTCATCTATCTGGTGCTTTATGTAGATGATATGTTGATAGCTGCAAAGAAGAAGTATGACATTCAGAAGCTGAAGGGTTTACTTAGTGCTGAGTTTGAGATGAAGGATCTGGGAGCCGCTCGAAAGATTCTAGGGATGGAGATCATTAGAGACAGAGAGAGAAGGAAACTTTTCTTGTCACAGAGAAGCTACATTCAGAAGGTCTTGGCGAGGTTTGGCATGTCTTCATCTAAGCCTATTGATACCCCCAGTGCTGCCAATATCCATCTCACTGCCATGTTCGCTCCACAGTCAGAAGAAGAGAAGGAGTATATGTCACGAGTCCCTTATGCCAGTGCCGTAGGAAGTTTGATGTATGTTATGGTCTGTACAAGGCCAGATTTAGCACATGCAGTCAGTGTAGTAAGCAGATTCATGGGACAACCTGGGAAAGAACATTGGCAGGCTGTGAAGAGAATTTTCCGGTACCTTAGAGGTACATCTGACGTTGGTCTCATTTATGGAGGTGATACTCAGTGCTTGGTTACTGGCTATTCTGATTCTTACTATGCTGGAGATGTTGACACAAGAAGATCGATGACTGGCTATGTGTTTACCCTTGGAGGATCTGTCGTCAGTTGGAAGGCAACTTT</gDNA_template>
            <first_frame> V  S  K  F  *  G  R  K  I  T  S  S  S  *  R  S  P  Y  M  D  L  S  S  L  Q  G  S  G  T  K  G  L  T  A  I  W  *  S  W  A  I  L  R  A  H  M  I  V  V  S  T  T  I  G  S  R  M  I  H  S  S  I  W  C  F  M  *  M  I  C  *  *  L  Q  R  R  S  M  T  F  R  S  *  R  V  Y  L  V  L  S  L  R  *  R  I  W  E  P  L  E  R  F  *  G  W  R  S  L  E  T  E  R  E  G  N  F  S  C  H  R  E  A  T  F  R  R  S  W  R  G  L  A  C  L  H  L  S  L  L  I  P  P  V  L  P  I  S  I  S  L  P  C  S  L  H  S  Q  K  K  R  R  S  I  C  H  E  S  L  M  P  V  P  *  E  V  *  C  M  L  W  S  V  Q  G  Q  I  *  H  M  Q  S  V  *  *  A  D  S  W  D  N  L  G  K  N  I  G  R  L  *  R  E  F  S  G  T  L  E  V  H  L  T  L  V  S  F  M  E  V  I  L  S  A  W  L  L  A  I  L  I  L  T  M  L  E  M  L  T  Q  E  D  R  *  L  A  M  C  L  P  L  E  D  L  S  S  V  G  R  Q  L  </first_frame>
            <second_frame>  F  P  S  S  R  E  G  K  S  R  L  Q  V  E  E  V  L  I  W  T  *  A  V  S  K  A  V  V  Q  K  V  *  Q  L  Y  G  E  V  G  L  Y  S  E  L  I  *  L  L  C  L  L  Q  *  A  Q  G  *  F  I  H  L  S  G  A  L  C  R  *  Y  V  D  S  C  K  E  E  V  *  H  S  E  A  E  G  F  T  *  C  *  V  *  D  E  G  S  G  S  R  S  K  D  S  R  D  G  D  H  *  R  Q  R  E  K  E  T  F  L  V  T  E  K  L  H  S  E  G  L  G  E  V  W  H  V  F  I  *  A  Y  *  Y  P  Q  C  C  Q  Y  P  S  H  C  H  V  R  S  T  V  R  R  R  E  G  V  Y  V  T  S  P  L  C  Q  C  R  R  K  F  D  V  C  Y  G  L  Y  K  A  R  F  S  T  C  S  Q  C  S  K  Q  I  H  G  T  T  W  E  R  T  L  A  G  C  E  E  N  F  P  V  P  *  R  Y  I  *  R  W  S  H  L  W  R  *  Y  S  V  L  G  Y  W  L  F  *  F  L  L  C  W  R  C  *  H  K  K  I  D  D  W  L  C  V  Y  P  W  R  I  C  R  Q  L  E  G  N  F </second_frame>
            <third_frame>   F  Q  V  L  G  K  E  N  H  V  F  K  L  K  K  S  L  Y  G  L  K  Q  S  P  R  Q  W  Y  K  R  F  D  S  Y  M  V  K  L  G  Y  T  Q  S  S  Y  D  C  C  V  Y  Y  N  R  L  K  D  D  S  F  I  Y  L  V  L  Y  V  D  D  M  L  I  A  A  K  K  K  Y  D  I  Q  K  L  K  G  L  L  S  A  E  F  E  M  K  D  L  G  A  A  R  K  I  L  G  M  E  I  I  R  D  R  E  R  R  K  L  F  L  S  Q  R  S  Y  I  Q  K  V  L  A  R  F  G  M  S  S  S  K  P  I  D  T  P  S  A  A  N  I  H  L  T  A  M  F  A  P  Q  S  E  E  E  K  E  Y  M  S  R  V  P  Y  A  S  A  V  G  S  L  M  Y  V  M  V  C  T  R  P  D  L  A  H  A  V  S  V  V  S  R  F  M  G  Q  P  G  K  E  H  W  Q  A  V  K  R  I  F  R  Y  L  R  G  T  S  D  V  G  L  I  Y  G  G  D  T  Q  C  L  V  T  G  Y  S  D  S  Y  Y  A  G  D  V  D  T  R  R  S  M  T  G  Y  V  F  T  L  G  G  S  V  V  S  W  K  A  T   </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="C09HBa0099F14.1" strand="-"/>
                <serials PGL_serial="7" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="87789" stop="86986"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>804</number_coding_nucleotides>
                  <number_encoded_amino_acids>268</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FQVLGKENHVFKLKKSLYGLKQSPRQWYKRFDSYMVKLGYTQSSYDCCVYYNRLKDDSFIYLVLYVDDMLIAAKKKYDIQKLKGLLSAEFEMKDLGAARKILGMEIIRDRERRKLFLSQRSYIQKVLARFGMSSSKPIDTPSAANIHLTAMFAPQSEEEKEYMSRVPYASAVGSLMYVMVCTRPDLAHAVSVVSRFMGQPGKEHWQAVKRIFRYLRGTSDVGLIYGGDTQCLVTGYSDSYYAGDVDTRRSMTGYVFTLGGSVVSWKAT</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 30 chains have been computed
$ 
$ memory statistics:
$ 13992 bytes spliced alignments in total
$ 7 spliced alignments have been stored
$ 1998 bytes was the average size of a spliced alignment
$ 12680 bytes predicted gene locations in total
$ 7 predicted gene locations have been stored
$ 1811 bytes was the average size of a predicted gene location
$ 5 megabytes was the average size of the backtrace matrix
$ 42 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-15 13:20:09
-->
