<?xml version="1.0" encoding="UTF-8" standalone="no"?>
<?xml-stylesheet type="text/xsl" href="fimo-to-html.xsl"?>
<!-- Begin document body -->
<fimo version="4.6.1" release="8 EST 20">
  xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
  xsi:schemaLocation=  xmlns:fimo="http://noble.gs.washington.edu/schema/fimo"
>
<command-line>/woldlab/castor/data00/proj/genome/programs/meme-4.6.1/bin/fimo -o fimo-K562-CSDA[MSY3]-1G2-A1-Rep5-SL3734.5x.4RPM.shuffled K562-CSDA[MSY3]-1G2-A1-Rep5-SL3734.topmotf K562-CSDA[MSY3]-1G2-A1-Rep5-SL3734.5x-4RPM.learnshift.shufled.fasta</command-line>
<settings>
<setting name="output directory">fimo-K562-CSDA[MSY3]-1G2-A1-Rep5-SL3734.5x.4RPM.shuffled</setting>
<setting name="MEME file name">K562-CSDA[MSY3]-1G2-A1-Rep5-SL3734.topmotf</setting>
<setting name="sequence file name">K562-CSDA[MSY3]-1G2-A1-Rep5-SL3734.5x-4RPM.learnshift.shufled.fasta</setting>
<setting name="background file name">(null)</setting>
<setting name="motif name">motif</setting>
<setting name="allow clobber">false</setting>
<setting name="compute q-values">true</setting>
<setting name="output p-threshold set">false</setting>
<setting name="output q-threshold set">false</setting>
<setting name="text only">false</setting>
<setting name="scan both strands">true</setting>
<setting name="max sequence length">250000000</setting>
<setting name="output q-value threshold">  1</setting>
<setting name="output p-value threshold">0.0001</setting>
<setting name="pseudocount">0.1</setting>
<setting name="verbosity">2</setting>
</settings>
<sequence-data num-sequences="7744" num-residues="782144" />
<alphabet>nucleotide</alphabet>
<motif name="CSDA" width="11" best-possible-match="ACAGATAAGGA"/>
<motif name="CSDA" width="11" best-possible-match="TCCTTATCTGT"/>
<background source="non-redundant database">
<value letter="A">0.275</value>
<value letter="C">0.225</value>
<value letter="G">0.225</value>
<value letter="T">0.275</value>
</background>
<cisml-file>cisml.xml</cisml-file>
</fimo>
