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t/data/mus.bls.xml  view on Meta::CPAN

<?xml version="1.0"?>
<!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "NCBI_BlastOutput.dtd">
<BlastOutput>
  <BlastOutput_program>blastn</BlastOutput_program>
  <BlastOutput_version>blastn 2.2.6 [Apr-09-2003]</BlastOutput_version>
  <BlastOutput_reference>~Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, ~Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), ~&quot;Gapped BLAST and PSI-BLAST: a new generation of protein database search~p...
  <BlastOutput_db>Hs15_up1000</BlastOutput_db>
  <BlastOutput_query-ID>lcl|QUERY</BlastOutput_query-ID>
  <BlastOutput_query-def>NM_011441_up_1000_chr1_4505586_r chr1:4505586-4506585</BlastOutput_query-def>
  <BlastOutput_query-len>1000</BlastOutput_query-len>
  <BlastOutput_param>
    <Parameters>
      <Parameters_expect>10</Parameters_expect>
      <Parameters_sc-match>1</Parameters_sc-match>
      <Parameters_sc-mismatch>-3</Parameters_sc-mismatch>
      <Parameters_gap-open>5</Parameters_gap-open>
      <Parameters_gap-extend>2</Parameters_gap-extend>
      <Parameters_filter>D</Parameters_filter>
    </Parameters>
  </BlastOutput_param>
  <BlastOutput_iterations>
    <Iteration>
      <Iteration_iter-num>1</Iteration_iter-num>
      <Iteration_hits>
        <Hit>
          <Hit_num>1</Hit_num>
          <Hit_id>gnl|BL_ORD_ID|3153</Hit_id>
          <Hit_def>NM_001938_up_1000_chr1_93161154_f chr1:93161154-93162153</Hit_def>
          <Hit_accession>3153</Hit_accession>
          <Hit_len>1000</Hit_len>
          <Hit_hsps>
            <Hsp>
              <Hsp_num>1</Hsp_num>
              <Hsp_bit-score>36.1753</Hsp_bit-score>
              <Hsp_score>18</Hsp_score>
              <Hsp_evalue>0.218116</Hsp_evalue>
              <Hsp_query-from>881</Hsp_query-from>
              <Hsp_query-to>860</Hsp_query-to>
              <Hsp_hit-from>881</Hsp_hit-from>
              <Hsp_hit-to>902</Hsp_hit-to>
              <Hsp_query-frame>1</Hsp_query-frame>
              <Hsp_hit-frame>-1</Hsp_hit-frame>
              <Hsp_identity>21</Hsp_identity>
              <Hsp_positive>21</Hsp_positive>
              <Hsp_align-len>22</Hsp_align-len>
              <Hsp_qseq>GGAGCGGCTTCCTGCAAGCCTT</Hsp_qseq>
              <Hsp_hseq>GGAGCGGCTTCCTGCAAACCTT</Hsp_hseq>
              <Hsp_midline>||||||||||||||||| ||||</Hsp_midline>
            </Hsp>
          </Hit_hsps>
        </Hit>
        <Hit>
          <Hit_num>2</Hit_num>
          <Hit_id>gnl|BL_ORD_ID|17120</Hit_id>
          <Hit_def>NM_152652_up_1000_chr16_30403002_f chr16:30403002-30404001</Hit_def>
          <Hit_accession>17120</Hit_accession>
          <Hit_len>1000</Hit_len>
          <Hit_hsps>
            <Hsp>
              <Hsp_num>1</Hsp_num>
              <Hsp_bit-score>34.193</Hsp_bit-score>
              <Hsp_score>17</Hsp_score>
              <Hsp_evalue>0.861861</Hsp_evalue>
              <Hsp_query-from>817</Hsp_query-from>
              <Hsp_query-to>833</Hsp_query-to>
              <Hsp_hit-from>219</Hsp_hit-from>
              <Hsp_hit-to>235</Hsp_hit-to>
              <Hsp_query-frame>1</Hsp_query-frame>
              <Hsp_hit-frame>1</Hsp_hit-frame>
              <Hsp_identity>17</Hsp_identity>
              <Hsp_positive>17</Hsp_positive>
              <Hsp_align-len>17</Hsp_align-len>
              <Hsp_qseq>ATACCCACCCCCACCCC</Hsp_qseq>
              <Hsp_hseq>ATACCCACCCCCACCCC</Hsp_hseq>
              <Hsp_midline>|||||||||||||||||</Hsp_midline>
            </Hsp>
          </Hit_hsps>
        </Hit>
        <Hit>
          <Hit_num>3</Hit_num>
          <Hit_id>gnl|BL_ORD_ID|17093</Hit_id>

t/data/mus.bls.xml  view on Meta::CPAN

            <Hsp>
              <Hsp_num>1</Hsp_num>
              <Hsp_bit-score>32.2106</Hsp_bit-score>
              <Hsp_score>16</Hsp_score>
              <Hsp_evalue>3.40554</Hsp_evalue>
              <Hsp_query-from>374</Hsp_query-from>
              <Hsp_query-to>389</Hsp_query-to>
              <Hsp_hit-from>934</Hsp_hit-from>
              <Hsp_hit-to>949</Hsp_hit-to>
              <Hsp_query-frame>1</Hsp_query-frame>
              <Hsp_hit-frame>1</Hsp_hit-frame>
              <Hsp_identity>16</Hsp_identity>
              <Hsp_positive>16</Hsp_positive>
              <Hsp_align-len>16</Hsp_align-len>
              <Hsp_qseq>CCGGGGGCTGTCTCCG</Hsp_qseq>
              <Hsp_hseq>CCGGGGGCTGTCTCCG</Hsp_hseq>
              <Hsp_midline>||||||||||||||||</Hsp_midline>
            </Hsp>
          </Hit_hsps>
        </Hit>
        <Hit>
          <Hit_num>23</Hit_num>
          <Hit_id>gnl|BL_ORD_ID|3532</Hit_id>
          <Hit_def>NM_021948_up_1000_chr1_153388826_f chr1:153388826-153389825</Hit_def>
          <Hit_accession>3532</Hit_accession>
          <Hit_len>1000</Hit_len>
          <Hit_hsps>
            <Hsp>
              <Hsp_num>1</Hsp_num>
              <Hsp_bit-score>32.2106</Hsp_bit-score>
              <Hsp_score>16</Hsp_score>
              <Hsp_evalue>3.40554</Hsp_evalue>
              <Hsp_query-from>820</Hsp_query-from>
              <Hsp_query-to>835</Hsp_query-to>
              <Hsp_hit-from>305</Hsp_hit-from>
              <Hsp_hit-to>320</Hsp_hit-to>
              <Hsp_query-frame>1</Hsp_query-frame>
              <Hsp_hit-frame>1</Hsp_hit-frame>
              <Hsp_identity>16</Hsp_identity>
              <Hsp_positive>16</Hsp_positive>
              <Hsp_align-len>16</Hsp_align-len>
              <Hsp_qseq>CCCACCCCCACCCCAG</Hsp_qseq>
              <Hsp_hseq>CCCACCCCCACCCCAG</Hsp_hseq>
              <Hsp_midline>||||||||||||||||</Hsp_midline>
            </Hsp>
          </Hit_hsps>
        </Hit>
      </Iteration_hits>
      <Iteration_stat>
        <Statistics>
          <Statistics_db-num>17516</Statistics_db-num>
          <Statistics_db-len>17516000</Statistics_db-len>
          <Statistics_hsp-len>0</Statistics_hsp-len>
          <Statistics_eff-space>1.69255e+10</Statistics_eff-space>
          <Statistics_kappa>0.710605</Statistics_kappa>
          <Statistics_lambda>1.37407</Statistics_lambda>
          <Statistics_entropy>1.30725</Statistics_entropy>
        </Statistics>
      </Iteration_stat>
    </Iteration>
  </BlastOutput_iterations>
</BlastOutput>