Mercurial > repos > xuebing > sharplabtool
comparison tools/mytools/fimo_out/fimo.xml @ 0:9071e359b9a3
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| author | xuebing |
|---|---|
| date | Fri, 09 Mar 2012 19:37:19 -0500 |
| parents | |
| children |
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| -1:000000000000 | 0:9071e359b9a3 |
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| 1 <?xml version="1.0" encoding="UTF-8" standalone="no"?> | |
| 2 <?xml-stylesheet type="text/xsl" href="fimo-to-html.xsl"?> | |
| 3 <!-- Begin document body --> | |
| 4 <fimo version="4.7.0" release="0 EST 20"> | |
| 5 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" | |
| 6 xsi:schemaLocation= xmlns:fimo="http://noble.gs.washington.edu/schema/fimo" | |
| 7 > | |
| 8 <command-line>fimo --verbosity 1 AATAAA.motif /Users/xuebing/Downloads/hotair-target.fa.fasta</command-line> | |
| 9 <settings> | |
| 10 <setting name="output directory">fimo_out</setting> | |
| 11 <setting name="MEME file name">AATAAA.motif</setting> | |
| 12 <setting name="sequence file name">/Users/xuebing/Downloads/hotair-target.fa.fasta</setting> | |
| 13 <setting name="background file name">(null)</setting> | |
| 14 <setting name="motif name">motif</setting> | |
| 15 <setting name="allow clobber">true</setting> | |
| 16 <setting name="compute q-values">true</setting> | |
| 17 <setting name="output p-threshold set">false</setting> | |
| 18 <setting name="output q-threshold set">false</setting> | |
| 19 <setting name="text only">false</setting> | |
| 20 <setting name="scan both strands">true</setting> | |
| 21 <setting name="max sequence length">250000000</setting> | |
| 22 <setting name="output q-value threshold"> 1</setting> | |
| 23 <setting name="output p-value threshold">0.0001</setting> | |
| 24 <setting name="pseudocount">0.1</setting> | |
| 25 <setting name="verbosity">1</setting> | |
| 26 </settings> | |
| 27 <sequence-data num-sequences="832" num-residues="573269" /> | |
| 28 <alphabet>nucleotide</alphabet> | |
| 29 <motif name="AATAAA" width="6" best-possible-match="AATAAA"/> | |
| 30 <motif name="AATAAA" width="6" best-possible-match="TTTATT"/> | |
| 31 <background source="non-redundant database"> | |
| 32 <value letter="A">0.275</value> | |
| 33 <value letter="C">0.225</value> | |
| 34 <value letter="G">0.225</value> | |
| 35 <value letter="T">0.275</value> | |
| 36 </background> | |
| 37 <cisml-file>cisml.xml</cisml-file> | |
| 38 </fimo> |