File: xml_2226_blastn_003.xml

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<?xml version="1.0"?>
<!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "http://www.ncbi.nlm.nih.gov/dtd/NCBI_BlastOutput.dtd">
<BlastOutput>
  <BlastOutput_program>blastn</BlastOutput_program>
  <BlastOutput_version>BLASTN 2.2.26+</BlastOutput_version>
  <BlastOutput_reference>Zheng Zhang, Scott Schwartz, Lukas Wagner, and Webb Miller (2000), &quot;A greedy algorithm for aligning DNA sequences&quot;, J Comput Biol 2000; 7(1-2):203-14.</BlastOutput_reference>
  <BlastOutput_db>db/minirefseq_mrna</BlastOutput_db>
  <BlastOutput_query-ID>Query_1</BlastOutput_query-ID>
  <BlastOutput_query-def>gi|356995852:1-490 Mus musculus POU domain, class 5, transcription factor 1 (Pou5f1), transcript variant 1, mRNA</BlastOutput_query-def>
  <BlastOutput_query-len>490</BlastOutput_query-len>
  <BlastOutput_param>
    <Parameters>
      <Parameters_expect>10</Parameters_expect>
      <Parameters_sc-match>1</Parameters_sc-match>
      <Parameters_sc-mismatch>-2</Parameters_sc-mismatch>
      <Parameters_gap-open>0</Parameters_gap-open>
      <Parameters_gap-extend>0</Parameters_gap-extend>
      <Parameters_filter>L;m;</Parameters_filter>
    </Parameters>
  </BlastOutput_param>
  <BlastOutput_iterations>
    <Iteration>
      <Iteration_iter-num>1</Iteration_iter-num>
      <Iteration_query-ID>Query_1</Iteration_query-ID>
      <Iteration_query-def>gi|356995852:1-490 Mus musculus POU domain, class 5, transcription factor 1 (Pou5f1), transcript variant 1, mRNA</Iteration_query-def>
      <Iteration_query-len>490</Iteration_query-len>
      <Iteration_hits>
        <Hit>
          <Hit_num>1</Hit_num>
          <Hit_id>gnl|BL_ORD_ID|0</Hit_id>
          <Hit_def>gi|356995852|ref|NM_013633.3| Mus musculus POU domain, class 5, transcription factor 1 (Pou5f1), transcript variant 1, mRNA</Hit_def>
          <Hit_accession>0</Hit_accession>
          <Hit_len>1353</Hit_len>
          <Hit_hsps>
            <Hsp>
              <Hsp_num>1</Hsp_num>
              <Hsp_bit-score>905.979</Hsp_bit-score>
              <Hsp_score>490</Hsp_score>
              <Hsp_evalue>0</Hsp_evalue>
              <Hsp_query-from>1</Hsp_query-from>
              <Hsp_query-to>490</Hsp_query-to>
              <Hsp_hit-from>1</Hsp_hit-from>
              <Hsp_hit-to>490</Hsp_hit-to>
              <Hsp_query-frame>1</Hsp_query-frame>
              <Hsp_hit-frame>1</Hsp_hit-frame>
              <Hsp_identity>490</Hsp_identity>
              <Hsp_positive>490</Hsp_positive>
              <Hsp_gaps>0</Hsp_gaps>
              <Hsp_align-len>490</Hsp_align-len>
              <Hsp_qseq>GAGGTGAAACCGTCCCTAGGTGAGCCGTCTTTCCACCAGGCCCCCGGCTCGGGGTGCCCACCTTCCCCATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCCCACCAGGTGGGGGTGATGGGTCAGCAGGGCTGGAGCCGGGCTGGGTGGATCCTCGAACCTGGCTAAGCTTCCAAGGGCCTCCAGGTGGGCCTGGAATCGGACCAGGCTCAGAGGTATTGGGGATCTCCCCATGTCCGCCCGCATACGAGTTCTGCGGAGGGATGGCATACTGTGGACCTCAGGTTGGACTGGGCCTAGTCCCCCAAGTTGGCGTGGAGACTTTGCAGCCTGAGGGCCAGGCAGGAGCACGAGTGGAAAGCAACTCAGAGGGAACCTCCTCTGAGCCCTGTGCCGACCGCCCCAATGCCGTGAAGTTGGAGAAGGTGGAACCAACTCCCGAGGAGTCCCAGGACATGAAAGCCCTGCAGAAGGAGCTAGAACA</Hsp_qseq>
              <Hsp_hseq>GAGGTGAAACCGTCCCTAGGTGAGCCGTCTTTCCACCAGGCCCCCGGCTCGGGGTGCCCACCTTCCCCATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCCCACCAGGTGGGGGTGATGGGTCAGCAGGGCTGGAGCCGGGCTGGGTGGATCCTCGAACCTGGCTAAGCTTCCAAGGGCCTCCAGGTGGGCCTGGAATCGGACCAGGCTCAGAGGTATTGGGGATCTCCCCATGTCCGCCCGCATACGAGTTCTGCGGAGGGATGGCATACTGTGGACCTCAGGTTGGACTGGGCCTAGTCCCCCAAGTTGGCGTGGAGACTTTGCAGCCTGAGGGCCAGGCAGGAGCACGAGTGGAAAGCAACTCAGAGGGAACCTCCTCTGAGCCCTGTGCCGACCGCCCCAATGCCGTGAAGTTGGAGAAGGTGGAACCAACTCCCGAGGAGTCCCAGGACATGAAAGCCCTGCAGAAGGAGCTAGAACA</Hsp_hseq>
              <Hsp_midline>||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||</Hsp_midline>
            </Hsp>
          </Hit_hsps>
        </Hit>
        <Hit>
          <Hit_num>2</Hit_num>
          <Hit_id>gnl|BL_ORD_ID|1</Hit_id>
          <Hit_def>gi|377833530|ref|XR_141831.1| PREDICTED: Mus musculus predicted gene, 19553 (Gm19553), miscRNA</Hit_def>
          <Hit_accession>1</Hit_accession>
          <Hit_len>570</Hit_len>
          <Hit_hsps>
            <Hsp>
              <Hsp_num>1</Hsp_num>
              <Hsp_bit-score>900.439</Hsp_bit-score>
              <Hsp_score>487</Hsp_score>
              <Hsp_evalue>0</Hsp_evalue>
              <Hsp_query-from>1</Hsp_query-from>
              <Hsp_query-to>490</Hsp_query-to>
              <Hsp_hit-from>570</Hsp_hit-from>
              <Hsp_hit-to>81</Hsp_hit-to>
              <Hsp_query-frame>1</Hsp_query-frame>
              <Hsp_hit-frame>-1</Hsp_hit-frame>
              <Hsp_identity>489</Hsp_identity>
              <Hsp_positive>489</Hsp_positive>
              <Hsp_gaps>0</Hsp_gaps>
              <Hsp_align-len>490</Hsp_align-len>
              <Hsp_qseq>GAGGTGAAACCGTCCCTAGGTGAGCCGTCTTTCCACCAGGCCCCCGGCTCGGGGTGCCCACCTTCCCCATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCCCACCAGGTGGGGGTGATGGGTCAGCAGGGCTGGAGCCGGGCTGGGTGGATCCTCGAACCTGGCTAAGCTTCCAAGGGCCTCCAGGTGGGCCTGGAATCGGACCAGGCTCAGAGGTATTGGGGATCTCCCCATGTCCGCCCGCATACGAGTTCTGCGGAGGGATGGCATACTGTGGACCTCAGGTTGGACTGGGCCTAGTCCCCCAAGTTGGCGTGGAGACTTTGCAGCCTGAGGGCCAGGCAGGAGCACGAGTGGAAAGCAACTCAGAGGGAACCTCCTCTGAGCCCTGTGCCGACCGCCCCAATGCCGTGAAGTTGGAGAAGGTGGAACCAACTCCCGAGGAGTCCCAGGACATGAAAGCCCTGCAGAAGGAGCTAGAACA</Hsp_qseq>
              <Hsp_hseq>GAGGTGAAACCGTCCCTAGGTGAGCCGTCTTTCCACCAGGCCCCCGGCTCGGGGTGCCCACCTTCCCCATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCCCACCAGGTGGGGGTGATGGGTCAGCAGGGCTGGAGCCGGGCTGGGTGGATCCTCGAACCTGGCTAAGCTTCCAAGGGCCTCCAGGTGGGCCTGGAATCGGACCAGGCTCAGAGGTATTGGGGATCTCCCCATGTCCGCCCGCATACGAGTTCTGCGGAGGGATGGCATACTGTGGACCTCAGGTTGGACTGGGCCTAGTCCCCCAAGTTGGCGTGGAGACTTTGCAGCCTGAGGGCCAGGCAGGAGCACGAGTGGAAAGCAACTCAGAGGGAACCTCCTCTGAGCCCTGTGCCGACCGCCCCAATGCCGTGAAGTTGGAGAAGGTGGAACCAACTCCAGAGGAGTCCCAGGACATGAAAGCCCTGCAGAAGGAGCTAGAACA</Hsp_hseq>
              <Hsp_midline>||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||</Hsp_midline>
            </Hsp>
          </Hit_hsps>
        </Hit>
        <Hit>
          <Hit_num>3</Hit_num>
          <Hit_id>gnl|BL_ORD_ID|2</Hit_id>
          <Hit_def>gi|260269517|ref|NM_001009178.2| Rattus norvegicus POU class 5 homeobox 1 (Pou5f1), mRNA</Hit_def>
          <Hit_accession>2</Hit_accession>
          <Hit_len>1388</Hit_len>
          <Hit_hsps>
            <Hsp>
              <Hsp_num>1</Hsp_num>
              <Hsp_bit-score>734.24</Hsp_bit-score>
              <Hsp_score>397</Hsp_score>
              <Hsp_evalue>0</Hsp_evalue>
              <Hsp_query-from>1</Hsp_query-from>
              <Hsp_query-to>487</Hsp_query-to>
              <Hsp_hit-from>12</Hsp_hit-from>
              <Hsp_hit-to>499</Hsp_hit-to>
              <Hsp_query-frame>1</Hsp_query-frame>
              <Hsp_hit-frame>1</Hsp_hit-frame>
              <Hsp_identity>459</Hsp_identity>
              <Hsp_positive>459</Hsp_positive>
              <Hsp_gaps>3</Hsp_gaps>
              <Hsp_align-len>489</Hsp_align-len>
              <Hsp_qseq>GAGGTG-AAACCGTCCCTAGGTGAGCCGTCTTTCCACCAGGCCCCCGGCTCGGGGTGCCCACCTTCCCCATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCCCACCAGGTGGGGGTGATGGGTCAGCAGGGCTGGAGCCGGGCTGGGTGGATCCTCGAACCTGGCTAAGCTTCCAAGGGCCTCCAGGTGGGCCTGGAATCGGACCAGGCTCAGAGGTATTGGGGATCTCCCCATGTCCGCCC-GCATACGAGTTCTGCGGAGGGATGGCATACTGTGGACCTCAGGTTGGACTGGGCCTAGTCCCCCAAGTTGGCGTGGAGACTTTGCAGCCTGAGGGCCAGGCAGGAGCACGAGTGGAAAGCAACTCAGAGGGAACCTCCTCTGAGCCCTGTGCCGACCGCCCCAATGCCGTGAAGTTGGAGAAGGTGGAACCAACTCCCGAGGAGTCCCAGGACATGAAAGCCCTGCAGAAGGAGCTAGA</Hsp_qseq>
              <Hsp_hseq>GAGGTGCAAACAGTCCCTAGGTGAGTCGTCCTTCCACCAGGCCCCCGGCTCGGGGAGCCCACCTTCCCCATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCCCACCTGGTGGGGGTGATGGGTCAGCAGGGCTGGAGCCGGGCTGGGTGGACCCTCGAACCTGGCTAAGCTTCCAGGGGCCTCCAAGTGGGCCTGGAATCGGACCAGGTTCAGAGGTGCTGGGGATCTCCCCGTGTCC-CCCAGCATACGAGTTCTGTGGAGGGATGGCATACTGTGGACCTCAGGTTGGACTGGGCCTAGTCCCCCAAGTTGGCGTGGAGACTCTGCAGCCCGAGGGCCAGGCAGGAGCACGAGTGGAGAGCAACTCGGAGGGAGCCTCCTCTGGGCCCTGTACTGCCCGCCCCAGCGCCGTGAAGTTGGAGAAGGTGGAACCTAGTCCCGAGGAGTCCCAGGATATGAAAGCCCTGCAGAAGGAGCTAGA</Hsp_hseq>
              <Hsp_midline>|||||| |||| ||||||||||||| |||| |||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||| ||||||||| |||||||||||||||||||||| ||||||||  ||||||||||||| ||||| ||| |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||| |||||||||||||||||||||||||| |||||||| |||||| ||||||||| ||||||| | | ||||||||  |||||||||||||||||||||||||| | |||||||||||||||||| ||||||||||||||||||||||||||</Hsp_midline>
            </Hsp>
          </Hit_hsps>
        </Hit>
        <Hit>
          <Hit_num>4</Hit_num>
          <Hit_id>gnl|BL_ORD_ID|3</Hit_id>
          <Hit_def>gi|295390144|ref|NR_033594.1| Mus musculus predicted gene 5712 (Gm5712), non-coding RNA</Hit_def>
          <Hit_accession>3</Hit_accession>
          <Hit_len>1040</Hit_len>
          <Hit_hsps>
            <Hsp>
              <Hsp_num>1</Hsp_num>
              <Hsp_bit-score>446.163</Hsp_bit-score>
              <Hsp_score>241</Hsp_score>
              <Hsp_evalue>1.56622e-127</Hsp_evalue>
              <Hsp_query-from>69</Hsp_query-from>
              <Hsp_query-to>487</Hsp_query-to>
              <Hsp_hit-from>1</Hsp_hit-from>
              <Hsp_hit-to>393</Hsp_hit-to>
              <Hsp_query-frame>1</Hsp_query-frame>
              <Hsp_hit-frame>1</Hsp_hit-frame>
              <Hsp_identity>367</Hsp_identity>
              <Hsp_positive>367</Hsp_positive>
              <Hsp_gaps>32</Hsp_gaps>
              <Hsp_align-len>422</Hsp_align-len>
              <Hsp_qseq>ATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCCCACCAGGTGGGGGTGATGGGTCAGCAGGGCTGGAGCCGGGCTGGGTGGATCCTCGAACCTGGCTAAGCTTCCAAGGGCCTCCAGGTGGGCCTGGAATCGGACCAGGCTCAGAGGTATTGGGGATCTCCCCATGTCCGCCCGCATACGAGTTCTGCGGAGGGATGGCATACTGTGGACCTCAGGTTGGACTGGGCCTAGTCCCCCAAGTTGGCGTGGAGACTTTGCAGCCTGAGGGCCAGGCAGGAGCACGAGTGGAAAGCAACTCAGAGGGAA-CCTCCTCTGAGCCCTGTGCCGACCGCCCCAATGCCGTGAAGTTGGAGAAG-GTGGAACCAAC-TCCCGAGGAGTCCCAGGACATGAAAGCCCTGCAGAAGGAGCTAGA</Hsp_qseq>
              <Hsp_hseq>ATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCC-ACCAGGTGGGGGCGATGGGTCAGCAGGGCTGGAGCCGGGCTGGGTGGACCCTCGAACCTGGCTAAGCTTCCAAGGGCCTCTGGGTGGGCCTGGAATAGGACCAGGCTTAGAGGTATTGGG-ATCTCCCCATGTCCACCGGTATATGAGTTCTGCGGAGGGATGGCATACTGTGGACCTCAGG-----CTGG-C---GT-------G--G------AGACTTTGCAGCCTGAGAGCCAGGCAAGAGCAGGTGTGGAGAGCAACTCAGAGG-AAGCCTTCTCTGGGCCTTGTGCCGACCACCCCAGTGCCGTGAAGTTGGAGATGAG-GGAACCA-CGTCCCGAGGGGTCCCAGGACATGAAAGTCCTGCAGAAGGAGCTAGA</Hsp_hseq>
              <Hsp_midline>|||||||||||||||||||||||||||||||||||||||| |||||||||||| ||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||  |||||||||||||| |||||||||| |||||||||||| |||||||||||||| || | ||| |||||||||||||||||||||||||||||||||||||     |||| |   ||       |  |      ||||||||||||||||| |||||||| ||||| | ||||| ||||||||||||| || ||| ||||| ||| |||||||||| ||||| ||||||||||||||||| | | ||||||| | |||||||| ||||||||||||||||| ||||||||||||||||||</Hsp_midline>
            </Hsp>
          </Hit_hsps>
        </Hit>
        <Hit>
          <Hit_num>5</Hit_num>
          <Hit_id>gnl|BL_ORD_ID|4</Hit_id>
          <Hit_def>gi|354487499|ref|XM_003505863.1| PREDICTED: Cricetulus griseus POU domain, class 5, transcription factor 1-like (LOC100754998), mRNA</Hit_def>
          <Hit_accession>4</Hit_accession>
          <Hit_len>1077</Hit_len>
          <Hit_hsps>
            <Hsp>
              <Hsp_num>1</Hsp_num>
              <Hsp_bit-score>433.236</Hsp_bit-score>
              <Hsp_score>234</Hsp_score>
              <Hsp_evalue>1.21936e-123</Hsp_evalue>
              <Hsp_query-from>69</Hsp_query-from>
              <Hsp_query-to>490</Hsp_query-to>
              <Hsp_hit-from>1</Hsp_hit-from>
              <Hsp_hit-to>437</Hsp_hit-to>
              <Hsp_query-frame>1</Hsp_query-frame>
              <Hsp_hit-frame>1</Hsp_hit-frame>
              <Hsp_identity>377</Hsp_identity>
              <Hsp_positive>377</Hsp_positive>
              <Hsp_gaps>25</Hsp_gaps>
              <Hsp_align-len>442</Hsp_align-len>
              <Hsp_qseq>ATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCCCACCAGGTGGGGGTGATGGGTCAGCAGGGCTGGAGCCGGGCTGGGTGGATCCTCGAACCTGGCTAAGCTTCCAAGGGCCTCCAGGTGGGCCTGGAAT-----C-------GGACCAGGCTCAGAGGTATTGGGGATCTCCCCATGTCCGCCC-GCATACGAGTTCTGCGGAGGGATGGCATACTGTGGACCTCAGGTTGGACTGGGCCTAGTCCC-CCAAGTTGGCGTGGAGACTTTGCAGCCTGAGGGCCAGGCAGGAGCACGAGTGGA-AAGCAACTCAGAGG-GAACCTCCTCTGAGCCCTGTGCCGACC-GCCCCAATG-CC--GTGAAGTTGGAGAAGGTGGAACCAACTCCCGAGGAGTCCCAGGACATGAAAGCCCTGCAGAAGGAGCTAGAACA</Hsp_qseq>
              <Hsp_hseq>ATGGCTGGACACCTGGCTTCAGACTTTGCCTTCTCACCTCCACCTGGTGGGGGTGATGGGTCAGGAGGGCTGGAGCCTGGCTGGGTGGACCCTCGGACCTGGCTAAGCTTCCAAGGGCCACCAGGTGGGCCTGGAATCGGGCCAGGGGTTGGACCAGGCTCAGAAGTGCTGGGGATTTCCCCTTGTCC-CCCACCATACGAGTTCTGTGGAGGGGTGGCATACTGTGGACCTCAGGTTGGACTGGGTCTAGTGCCGCCA-GTTGGCCTGGAGACTTCACAGCCTGAGGGCCAGTCAGGAGCAGGAGTGGAGAA-CGACTCGGAGGAGT-CCTCCCCTGGGCCCTGTACTG-CCAGGCCCATTGTCCCCGTGAAGTTGGAGAAGGTGGAACCGAGTCCCGAGGAGTCCCAGGATGTGAAGGCCTTGCAGAAGGAACTGGAACA</Hsp_hseq>
              <Hsp_midline>|||||||||||||||||||||||||| ||||||||||| ||||| ||||||||||||||||||| |||||||||||| ||||||||||| ||||| ||||||||||||||||||||||| |||||||||||||||||     |       |||||||||||||| ||  ||||||| ||||| ||||| |||  ||||||||||||| |||||| ||||||||||||||||||||||||||||||| ||||| || ||| |||||| |||||||||  ||||||||||||||| |||||||| ||||||| || | |||| |||| |  ||||| ||| ||||||| | | || | |||| || ||  ||||||||||||||||||||||| | ||||||||||||||||||  |||| ||| |||||||||| || |||||</Hsp_midline>
            </Hsp>
          </Hit_hsps>
        </Hit>
      </Iteration_hits>
      <Iteration_stat>
        <Statistics>
          <Statistics_db-num>23</Statistics_db-num>
          <Statistics_db-len>67750</Statistics_db-len>
          <Statistics_hsp-len>17</Statistics_hsp-len>
          <Statistics_eff-space>31860807</Statistics_eff-space>
          <Statistics_kappa>0.46</Statistics_kappa>
          <Statistics_lambda>1.28</Statistics_lambda>
          <Statistics_entropy>0.85</Statistics_entropy>
        </Statistics>
      </Iteration_stat>
    </Iteration>
  </BlastOutput_iterations>
</BlastOutput>