Database and Motifs High-scoring Motif Occurences Debugging Information



FIMO - Motif search tool

FIMO version 4.12.0, (Release date: Tue Jun 27 16:22:50 2017 -0700)

For further information on how to interpret these results or to get a copy of the FIMO software please access http://meme.nbcr.net

If you use FIMO in your research, please cite the following paper:
Charles E. Grant, Timothy L. Bailey, and William Stafford Noble, "FIMO: Scanning for occurrences of a given motif", Bioinformatics, 27(7):1017-1018, 2011. [full text]


DATABASE AND MOTIFS

DATABASE /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF680.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/ZNF680.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.fa
Database contains 600 sequences, 300000 residues

MOTIFS /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF680.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml (DNA)

MOTIF WIDTH BEST POSSIBLE MATCH
CARGAARA 8 CAAGAAGA
RGACAAGA 8 GGACAAGA
ATKAGG 6 ATGAGG
AGRGTGAG 8 AGGGTGAG
THAATAAA 8 TCAATAAA
CAVTTGTC 8 CAGTTGTC
ATYCTTC 7 ATTCTTC
CNTGGGAC 8 CTTGGGAC
RGGCAGA 7 AGGCAGA
ACTCRGGA 8 ACTCAGGA
ARGGTGRA 8 AGGGTGGA
CACDGACA 8 CACAGACA
ATGCWGAC 8 ATGCTGAC
GAACAGC 7 GAACAGC
CTCAGTAA 8 CTCAGTAA
GCTCCTY 7 GCTCCTC
CCACCRAA 8 CCACCAAA
TCAGCTAR 8 TCAGCTAG
GACRC 5 GACAC
ATGYG 5 ATGTG
CATGTM 6 CATGTC
GGTACM 6 GGTACA
CRTGAGAC 8 CATGAGAC

Random model letter frequencies (/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF680.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/background):
A 0.252 C 0.248 G 0.248 T 0.252


SECTION I: HIGH-SCORING MOTIF OCCURENCES

Motif ID Alt ID Sequence Name Strand Start End p-value q-value Matched Sequence
CACDGACA DREME-12 chr16 - 4243805 4243812 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr1 - 8939420 8939427 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr1 - 10974610 10974617 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr10 - 11730465 11730472 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr21 - 29295633 29295640 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr21 - 29461273 29461280 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr15 - 34187387 34187394 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr8 - 37559808 37559815 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr12 - 38879370 38879377 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr12 - 41856649 41856656 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr10 - 42772414 42772421 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr22 - 42775372 42775379 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr14 - 45039024 45039031 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr19 - 46822470 46822477 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr13 - 48551548 48551555 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr8 - 52599304 52599311 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr2 - 55438880 55438887 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr12 - 58655806 58655813 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr2 - 72428138 72428145 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr15 - 73892161 73892168 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr18 - 75483852 75483859 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr3 - 105759220 105759227 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr7 - 106051453 106051460 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr6 - 110138717 110138724 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr12 - 112161968 112161975 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr8 - 123754905 123754912 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr6 - 125453753 125453760 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr7 - 127608801 127608808 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr2 - 165075193 165075200 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr1 - 201156972 201156979 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr1 - 217969178 217969185 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr1 - 222894062 222894069 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr2 - 241639745 241639752 1.53e-05 0.131 CACAGACA
CACDGACA DREME-12 chr4 + 2981345 2981352 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr8 + 17748600 17748607 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr12 + 24803095 24803102 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr11 + 27305398 27305405 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr13 + 31270871 31270878 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr12 + 31832688 31832695 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr10 + 32122230 32122237 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr3 + 32917450 32917457 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr19 + 32937063 32937070 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr5 + 33041054 33041061 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr3 + 33467439 33467446 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr20 + 41006735 41006742 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr21 + 46108900 46108907 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr6 + 54393322 54393329 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr12 + 64032100 64032107 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr11 + 76250983 76250990 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr10 + 89020326 89020333 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr6 + 89073227 89073234 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr14 + 94818729 94818736 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr10 + 95706335 95706342 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr13 + 100403674 100403681 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chrX + 105050690 105050697 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr7 + 107360174 107360181 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr11 + 115329654 115329661 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr11 + 115329735 115329742 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr10 + 121855042 121855049 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr7 + 151958792 151958799 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr4 + 152540119 152540126 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr7 + 159310654 159310661 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr5 + 159344380 159344387 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr1 + 167583695 167583702 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr1 + 169439627 169439634 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr5 + 180934930 180934937 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr2 + 186738316 186738323 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr1 + 204279870 204279877 1.53e-05 0.131 cacagaca
CACDGACA DREME-12 chr12 - 8956105 8956112 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr16 - 11600949 11600956 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr12 - 12108003 12108010 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr8 - 20343532 20343539 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr11 - 32704942 32704949 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr7 - 32948494 32948501 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr13 - 33136787 33136794 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr8 - 33659478 33659485 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr15 - 36222174 36222181 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr1 - 41762288 41762295 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chrX - 47698392 47698399 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr8 - 48081136 48081143 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr4 - 52886409 52886416 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr6 - 54667854 54667861 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr8 - 98670863 98670870 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr8 - 100670737 100670744 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr10 - 118608937 118608944 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr3 - 141657453 141657460 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr2 - 238416132 238416139 3.05e-05 0.164 CACTGACA
CACDGACA DREME-12 chr4 + 1286446 1286453 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr18 + 8837221 8837228 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr6 + 9553200 9553207 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr12 + 12107948 12107955 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr2 + 17629778 17629785 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr6 + 20790688 20790695 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr1 + 29861121 29861128 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr10 + 44666981 44666988 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr15 + 45029459 45029466 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr12 + 45770552 45770559 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr18 + 57889236 57889243 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr1 + 67817053 67817060 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr15 + 67869830 67869837 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr11 + 87042032 87042039 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr16 + 89149597 89149604 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr7 + 97139195 97139202 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr5 + 108967226 108967233 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr7 + 131854675 131854682 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr4 + 142336135 142336142 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr2 + 238416018 238416025 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr2 + 241639574 241639581 3.05e-05 0.164 cactgaca
CACDGACA DREME-12 chr6 - 20723162 20723169 4.55e-05 0.219 CACGGACA
CACDGACA DREME-12 chr22 - 33619119 33619126 4.55e-05 0.219 CACGGACA
CACDGACA DREME-12 chr18 - 51014694 51014701 4.55e-05 0.219 CACGGACA
CACDGACA DREME-12 chr1 - 61874006 61874013 4.55e-05 0.219 CACGGACA
CACDGACA DREME-12 chr6 - 136571265 136571272 4.55e-05 0.219 CACGGACA
CACDGACA DREME-12 chr7 + 17101460 17101467 4.55e-05 0.219 cacggaca
CACDGACA DREME-12 chr18 + 21863236 21863243 4.55e-05 0.219 cacggaca
CACDGACA DREME-12 chr16 + 68187455 68187462 4.55e-05 0.219 cacggaca
CACDGACA DREME-12 chr5 + 81291923 81291930 4.55e-05 0.219 cacggaca
CACDGACA DREME-12 chr9 + 85744511 85744518 4.55e-05 0.219 cacggaca
CACDGACA DREME-12 chr14 + 95676782 95676789 4.55e-05 0.219 cacggaca
CACDGACA DREME-12 chr1 + 98650507 98650514 4.55e-05 0.219 cacggaca
CACDGACA DREME-12 chr3 + 196506862 196506869 4.55e-05 0.219 cacggaca
CACDGACA DREME-12 chr5 - 141681756 141681763 6.05e-05 0.289 CACCGACA

DEBUGGING INFORMATION

Command line:

/software/meme/4.12.0/bin/fimo --parse-genomic-coord --verbosity 1 --oc /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF680.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/fimo_out_16 --bgfile /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF680.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/background --motif CACDGACA /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF680.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF680.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/ZNF680.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.fa

Settings:

output_directory = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF680.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/fimo_out_16 MEME file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF680.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml sequence file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF680.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/ZNF680.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.fa
background file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF680.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/background alphabet = DNA max stored scores = 100000
allow clobber = true compute q-values = true parse genomic coord. = true
text only = false scan both strands = true max strand = false
threshold type = p-value output theshold = 0.0001 pseudocount = 0.1
alpha = 1 verbosity = 1

This information can be useful in the event you wish to report a problem with the FIMO software.


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