Mercurial > repos > iuc > meme_meme

comparison test-data/fimo_output_test1.xml @ 19:7ce0fe11b411 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 93fe7345e2b6a97000975d978bf06513b3a442d9
author iuc
date Thu, 29 Aug 2024 10:20:10 +0000
parents 19237efe98d1
children
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18:19237efe98d1 19:7ce0fe11b411
1 <setting name="background file name">--nrdb--</setting>
2 <setting name="allow clobber">false</setting>
3 <setting name="compute q-values">true</setting>
4 <setting name="parse genomic coord.">false</setting>
5 <setting name="text only">false</setting>
6 <setting name="scan both strands">true</setting>
7 <setting name="output threshold">0.0001</setting>
8 <setting name="threshold type">p-value</setting>
9 <setting name="max stored scores">100000</setting>
10 <setting name="pseudocount">0.1</setting>
11 <setting name="verbosity">2</setting>
12 </settings>
13 <sequence-data num-sequences="1" num-residues="16569" />
14 <alphabet name="DNA" like="dna">
15 <letter id="A" symbol="A" complement="T" name="Adenine" colour="CC0000"/>
16 <letter id="C" symbol="C" complement="G" name="Cytosine" colour="0000CC"/>
17 <letter id="G" symbol="G" complement="C" name="Guanine" colour="FFB300"/>
18 <letter id="T" symbol="T" aliases="U" complement="A" name="Thymine" colour="008000"/>
19 <letter id="N" symbol="N" aliases="X." equals="ACGT" name="Any base"/>
20 <letter id="V" symbol="V" equals="ACG" name="Not T"/>
21 <letter id="H" symbol="H" equals="ACT" name="Not G"/>
22 <letter id="D" symbol="D" equals="AGT" name="Not C"/>
23 <letter id="B" symbol="B" equals="CGT" name="Not A"/>
24 <letter id="M" symbol="M" equals="AC" name="Amino"/>
25 <letter id="R" symbol="R" equals="AG" name="Purine"/>
26 <letter id="W" symbol="W" equals="AT" name="Weak"/>
27 <letter id="S" symbol="S" equals="CG" name="Strong"/>
28 <letter id="Y" symbol="Y" equals="CT" name="Pyrimidine"/>
29 <letter id="K" symbol="K" equals="GT" name="Keto"/>
30 </alphabet>
31 <motif name="TACTAAYM" alt="MEME-1" width="8" best-possible-match="TACTAACA"/>
32 <background source="--nrdb--">
33 <value letter="A">0.275</value>
34 <value letter="C">0.225</value>
35 <value letter="G">0.225</value>
36 <value letter="T">0.275</value>
37 </background>
38 <cisml-file>cisml.xml</cisml-file>
39 </fimo>