<?xml version="1.0" encoding="UTF-8" standalone="no"?>
<!-- Begin document body -->
<fimo version="4.12.0" release="Tue Jun 27 16:22:50 2017 -0700">
  xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
  xsi:schemaLocation=  xmlns:fimo="http://noble.gs.washington.edu/schema/fimo"
>
<command-line>/woldlab/castor/home/georgi/programs/meme_4.12.0/bin/fimo --max-stored-scores 10000000000 --oc FIMO-sacCer3-YEAST-macisaac_yeast.v1 /woldlab/castor/home/georgi/programs/meme_4.11.2/motif_databases/YEAST/macisaac_yeast.v1.meme /woldlab/castor/home/georgi/genomes/sacCer3/sequence/sacCer3.fa</command-line>
<settings>
<setting name="output directory">FIMO-sacCer3-YEAST-macisaac_yeast.v1</setting>
<setting name="MEME file name">/woldlab/castor/home/georgi/programs/meme_4.11.2/motif_databases/YEAST/macisaac_yeast.v1.meme</setting>
<setting name="sequence file name">/woldlab/castor/home/georgi/genomes/sacCer3/sequence/sacCer3.fa</setting>
<setting name="background file name">--nrdb--</setting>
<setting name="allow clobber">true</setting>
<setting name="compute q-values">true</setting>
<setting name="parse genomic coord.">false</setting>
<setting name="text only">false</setting>
<setting name="scan both strands">true</setting>
<setting name="output threshold">0.0001</setting>
<setting name="threshold type">p-value</setting>
<setting name="max stored scores">-2147483648</setting>
<setting name="pseudocount">0.1</setting>
<setting name="verbosity">2</setting>
</settings>
<sequence-data num-sequences="17" num-residues="12157105" />
<alphabet name="DNA" like="dna">
<letter id="A" symbol="A" complement="T" name="Adenine" colour="CC0000"/>
<letter id="C" symbol="C" complement="G" name="Cytosine" colour="0000CC"/>
<letter id="G" symbol="G" complement="C" name="Guanine" colour="FFB300"/>
<letter id="T" symbol="T" aliases="U" complement="A" name="Thymine" colour="008000"/>
<letter id="N" symbol="N" aliases="X." equals="ACGT" name="Any base"/>
<letter id="V" symbol="V" equals="ACG" name="Not T"/>
<letter id="H" symbol="H" equals="ACT" name="Not G"/>
<letter id="D" symbol="D" equals="AGT" name="Not C"/>
<letter id="B" symbol="B" equals="CGT" name="Not A"/>
<letter id="M" symbol="M" equals="AC" name="Amino"/>
<letter id="R" symbol="R" equals="AG" name="Purine"/>
<letter id="W" symbol="W" equals="AT" name="Weak"/>
<letter id="S" symbol="S" equals="CG" name="Strong"/>
<letter id="Y" symbol="Y" equals="CT" name="Pyrimidine"/>
<letter id="K" symbol="K" equals="GT" name="Keto"/>
</alphabet>
<motif name="ABF1" alt="" width="15" best-possible-match="TATCACTATATACGA"/>
<motif name="ACE2" alt="" width="8" best-possible-match="AACCAGCA"/>
<motif name="ADR1" alt="" width="6" best-possible-match="AGGAGT"/>
<motif name="AFT2" alt="" width="7" best-possible-match="TGCACCC"/>
<motif name="ARG80" alt="" width="6" best-possible-match="AGACTC"/>
<motif name="ARG81" alt="" width="8" best-possible-match="ATGACTCT"/>
<motif name="ARO80" alt="" width="23" best-possible-match="CCGTGAATTACCGCGATTTGCCG"/>
<motif name="ARR1" alt="" width="8" best-possible-match="ATTTGAAT"/>
<motif name="ASH1" alt="" width="10" best-possible-match="CCGAATCAGG"/>
<motif name="AZF1" alt="" width="18" best-possible-match="TTTTTCTTTTTCTGTTTC"/>
<motif name="BAS1" alt="" width="10" best-possible-match="TGACTCTTTT"/>
<motif name="CAD1" alt="" width="10" best-possible-match="GCTTACTAAT"/>
<motif name="CBF1" alt="" width="8" best-possible-match="GTCACGTG"/>
<motif name="CHA4" alt="" width="9" best-possible-match="TGCGATGAG"/>
<motif name="CIN5" alt="" width="9" best-possible-match="CTTACATAA"/>
<motif name="CRZ1" alt="" width="7" best-possible-match="GAGGCTG"/>
<motif name="CST6" alt="" width="8" best-possible-match="TGCATTTA"/>
<motif name="DAL80" alt="" width="5" best-possible-match="GATAA"/>
<motif name="DAL81" alt="" width="19" best-possible-match="AAAAGCCGCGGGCGGGATT"/>
<motif name="DAL82" alt="" width="10" best-possible-match="AAAATTGCGC"/>
<motif name="DIG1" alt="" width="16" best-possible-match="AAACAATTATGAAACA"/>
<motif name="ECM22" alt="" width="11" best-possible-match="CTCGTATAAGC"/>
<motif name="FHL1" alt="" width="10" best-possible-match="ATGTACGGAT"/>
<motif name="FKH1" alt="" width="12" best-possible-match="AAATGTAAACAA"/>
<motif name="FKH2" alt="" width="15" best-possible-match="GAAAAATGTAAACAA"/>
<motif name="GAL4" alt="" width="18" best-possible-match="CGGACTACACTGCCCCGA"/>
<motif name="GAL80" alt="" width="17" best-possible-match="CGGAAAAAAAAAAACCG"/>
<motif name="GAT1" alt="" width="7" best-possible-match="AGATAAG"/>
<motif name="GAT3" alt="" width="8" best-possible-match="ATAACATG"/>
<motif name="GCN4" alt="" width="8" best-possible-match="ATGACTCA"/>
<motif name="GCR1" alt="" width="9" best-possible-match="GGGCTTCCA"/>
<motif name="GCR2" alt="" width="7" best-possible-match="GCTTCCT"/>
<motif name="GLN3" alt="" width="10" best-possible-match="AGATAAGATA"/>
<motif name="GTS1" alt="" width="6" best-possible-match="TACCAA"/>
<motif name="GZF3" alt="" width="6" best-possible-match="GATAAG"/>
<motif name="HAC1" alt="" width="10" best-possible-match="AGGACACGTA"/>
<motif name="HAP1" alt="" width="10" best-possible-match="CGATAATTCC"/>
<motif name="HAP2" alt="" width="8" best-possible-match="CCAATGAG"/>
<motif name="HAP3" alt="" width="5" best-possible-match="CCAAT"/>
<motif name="HAP4" alt="" width="15" best-possible-match="ACCAATCAAATTCGA"/>
<motif name="HAP5" alt="" width="5" best-possible-match="CCAAT"/>
<motif name="HSF1" alt="" width="14" best-possible-match="AGAATGTTCTAGAA"/>
<motif name="IME1" alt="" width="8" best-possible-match="CCGCCGAG"/>
<motif name="INO2" alt="" width="9" best-possible-match="GCATGTGAA"/>
<motif name="INO4" alt="" width="9" best-possible-match="GCATGTGAA"/>
<motif name="IXR1" alt="" width="15" best-possible-match="AAACCGGAAGCGGTG"/>
<motif name="LEU3" alt="" width="10" best-possible-match="CCGGTACCGG"/>
<motif name="MAC1" alt="" width="10" best-possible-match="TGAGCAAAAA"/>
<motif name="MATA1" alt="" width="7" best-possible-match="ACACAAT"/>
<motif name="MBP1" alt="" width="7" best-possible-match="ACGCGTC"/>
<motif name="MCM1" alt="" width="16" best-possible-match="TTTCCTAATTAGGAAA"/>
<motif name="MET28" alt="" width="6" best-possible-match="CTGTGG"/>
<motif name="MET31" alt="" width="8" best-possible-match="GGTGTGGT"/>
<motif name="MET32" alt="" width="10" best-possible-match="AAACTGTGGC"/>
<motif name="MET4" alt="" width="8" best-possible-match="AACTGTGG"/>
<motif name="MIG1" alt="" width="10" best-possible-match="AAAAGTGGGG"/>
<motif name="MOT3" alt="" width="6" best-possible-match="AAGGTA"/>
<motif name="MSN2" alt="" width="7" best-possible-match="AAGGGGC"/>
<motif name="MSN4" alt="" width="7" best-possible-match="AAGGGGA"/>
<motif name="NDD1" alt="" width="10" best-possible-match="AAAAGGGAAA"/>
<motif name="NRG1" alt="" width="7" best-possible-match="GGACCCT"/>
<motif name="OPI1" alt="" width="7" best-possible-match="CGAACCA"/>
<motif name="PDR1" alt="" width="11" best-possible-match="CCGCCGAATAA"/>
<motif name="PDR3" alt="" width="8" best-possible-match="TCCGCGGA"/>
<motif name="PHD1" alt="" width="6" best-possible-match="AGGCAC"/>
<motif name="PHO2" alt="" width="6" best-possible-match="ATTAAA"/>
<motif name="PHO4" alt="" width="7" best-possible-match="CACGTGG"/>
<motif name="PUT3" alt="" width="16" best-possible-match="CGGGAAGCCAACCCCG"/>
<motif name="RAP1" alt="" width="12" best-possible-match="ACACCCATACAC"/>
<motif name="RCS1" alt="" width="7" best-possible-match="TGCACCC"/>
<motif name="RDS1" alt="" width="6" best-possible-match="CGGCCG"/>
<motif name="REB1" alt="" width="8" best-possible-match="TTACCCGG"/>
<motif name="RFX1" alt="" width="14" best-possible-match="GTTGTCATGGCAAC"/>
<motif name="RGT1" alt="" width="10" best-possible-match="GTCGGAAAAA"/>
<motif name="RIM101" alt="" width="7" best-possible-match="TGCCAAG"/>
<motif name="RLM1" alt="" width="10" best-possible-match="TATTTATAGA"/>
<motif name="RLR1" alt="" width="15" best-possible-match="ACAGTTTTTTCAGTA"/>
<motif name="RME1" alt="" width="10" best-possible-match="TTTAAAGGAA"/>
<motif name="ROX1" alt="" width="10" best-possible-match="AAAAGCCCGC"/>
<motif name="RPH1" alt="" width="10" best-possible-match="CCCCTTAAGG"/>
<motif name="RPN4" alt="" width="11" best-possible-match="CGGTGGCAAAA"/>
<motif name="RTG3" alt="" width="8" best-possible-match="ATGACTCA"/>
<motif name="SFL1" alt="" width="8" best-possible-match="GAAGCTTC"/>
<motif name="SFP1" alt="" width="10" best-possible-match="ATGTATGGGT"/>
<motif name="SIP4" alt="" width="15" best-possible-match="CTCGGTTGAATGGAA"/>
<motif name="SKN7" alt="" width="8" best-possible-match="TCTGGGCC"/>
<motif name="SKO1" alt="" width="8" best-possible-match="TACGTCAT"/>
<motif name="SMP1" alt="" width="14" best-possible-match="ACTACTAAAAATAG"/>
<motif name="SNF1" alt="" width="17" best-possible-match="CCGAGAATCGAACTCGG"/>
<motif name="SNT2" alt="" width="15" best-possible-match="ATGATAGCGCCGTAC"/>
<motif name="SOK2" alt="" width="8" best-possible-match="GCAGGCAA"/>
<motif name="SPT2" alt="" width="10" best-possible-match="AATTAAATAA"/>
<motif name="SPT23" alt="" width="8" best-possible-match="AAAATCAA"/>
<motif name="STB1" alt="" width="8" best-possible-match="CGCGAAAA"/>
<motif name="STB2" alt="" width="8" best-possible-match="CGGGTAAA"/>
<motif name="STB4" alt="" width="9" best-possible-match="TCGGAACGA"/>
<motif name="STB5" alt="" width="10" best-possible-match="CGGTGTTATA"/>
<motif name="STE12" alt="" width="7" best-possible-match="TGAAACA"/>
<motif name="STP1" alt="" width="8" best-possible-match="TGCGGCTT"/>
<motif name="STP4" alt="" width="15" best-possible-match="CGCCGTGTCACGCGC"/>
<motif name="SUM1" alt="" width="14" best-possible-match="AAGTGTCAGTAAAT"/>
<motif name="SUT1" alt="" width="7" best-possible-match="CGCGGGG"/>
<motif name="SWI4" alt="" width="9" best-possible-match="ACGCGAAAA"/>
<motif name="SWI5" alt="" width="8" best-possible-match="TGCTGGTT"/>
<motif name="SWI6" alt="" width="6" best-possible-match="GACGCG"/>
<motif name="TEC1" alt="" width="8" best-possible-match="CACATTCT"/>
<motif name="THI2" alt="" width="16" best-possible-match="GGAAACTCTAAGAACT"/>
<motif name="TYE7" alt="" width="8" best-possible-match="ATCACGTG"/>
<motif name="UGA3" alt="" width="10" best-possible-match="CCGAAAACGG"/>
<motif name="UME6" alt="" width="10" best-possible-match="TAGCCGCCGA"/>
<motif name="XBP1" alt="" width="8" best-possible-match="CTCGAGGA"/>
<motif name="YAP1" alt="" width="11" best-possible-match="TGCTGACTAAT"/>
<motif name="YAP3" alt="" width="7" best-possible-match="TTACTAA"/>
<motif name="YAP5" alt="" width="6" best-possible-match="AAACAT"/>
<motif name="YAP6" alt="" width="8" best-possible-match="TTACATAA"/>
<motif name="YAP7" alt="" width="10" best-possible-match="GCTTACTAAT"/>
<motif name="YDR026C" alt="" width="6" best-possible-match="ACCCGG"/>
<motif name="YDR520C" alt="" width="11" best-possible-match="TCTCCGGCGGA"/>
<motif name="YER051W" alt="" width="6" best-possible-match="TTCGAA"/>
<motif name="YHP1" alt="" width="6" best-possible-match="TAATTG"/>
<motif name="YML081W" alt="" width="10" best-possible-match="CCAGTCTGAA"/>
<motif name="YOX1" alt="" width="20" best-possible-match="AATTACGTTTCCTAAAAGGG"/>
<motif name="YRR1" alt="" width="12" best-possible-match="TTTTGTTACCCG"/>
<motif name="ZAP1" alt="" width="15" best-possible-match="ACCTTAAAGGTTATG"/>
<background source="--nrdb--">
<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>
