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/SP3.IDR0.05.filt.narrowPeak.top600.summitPlusMinus100bp.MemeChipResultsDefaultMax/SP3.IDR0.05.filt.narrowPeak.top600.summitPlusMinus100bp.fa
Database contains 600 sequences, 120000 residues

MOTIFS /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/SP3.IDR0.05.filt.narrowPeak.top600.summitPlusMinus100bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml (DNA)

MOTIF WIDTH BEST POSSIBLE MATCH
GGGCGGRR 8 GGGCGGGG
GTAGTYY 7 GTAGTCC
GGCGKGKC 8 GGCGGGGC
CCAATSA 7 CCAATCA
CTTCCKS 7 CTTCCGC
GTCACGY 7 GTCACGC
TGGGAR 6 TGGGAG
ACCGCCY 7 ACCGCCC
ATTGGY 6 ATTGGC
AAGATGGC 8 AAGATGGC

Random model letter frequencies (/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/SP3.IDR0.05.filt.narrowPeak.top600.summitPlusMinus100bp.MemeChipResultsDefaultMax/background):
A 0.175 C 0.325 G 0.325 T 0.175


SECTION I: HIGH-SCORING MOTIF OCCURENCES

Motif ID Alt ID Sequence Name Strand Start End p-value q-value Matched Sequence
CCAATSA DREME-4 chr16 + 2429196 2429202 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr19 + 6737685 6737691 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr19 + 13747819 13747825 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr19 + 13952355 13952361 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr19 + 18204325 18204331 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr20 + 20712920 20712926 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr6 + 26596858 26596864 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr16 + 30370685 30370691 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr1 + 32817548 32817554 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr19 + 32972038 32972044 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr20 + 33720351 33720357 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr20 + 33720435 33720441 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr20 + 33720476 33720482 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr21 + 39312467 39312473 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr22 + 40636780 40636786 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr19 + 41264132 41264138 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr1 + 45491353 45491359 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr21 + 46323907 46323913 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr19 + 48364311 48364317 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr19 + 49766699 49766705 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr16 + 50741959 50741965 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr6 + 52284857 52284863 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr12 + 53379916 53379922 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr17 + 58517924 58517930 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr18 + 62187099 62187105 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr15 + 70099699 70099705 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr15 + 75454093 75454099 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr7 + 100586254 100586260 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr7 + 100586381 100586387 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr7 + 100586412 100586418 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr14 + 103715512 103715518 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr12 + 113221359 113221365 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr7 + 151028318 151028324 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr7 + 151028359 151028365 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr7 + 151028397 151028403 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr6 + 166627373 166627379 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr6 + 166627473 166627479 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr5 + 177497735 177497741 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr5 + 178153925 178153931 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr2 + 218270261 218270267 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr16 - 1343157 1343163 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr17 - 1716386 1716392 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr16 - 28950802 28950808 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr16 - 30610470 30610476 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr6 - 30617383 30617389 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr16 - 30634459 30634465 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr1 - 31644953 31644959 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr1 - 33037030 33037036 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr21 - 33491602 33491608 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr21 - 33642253 33642259 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr19 - 35628948 35628954 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr8 - 37762534 37762540 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr8 - 37762565 37762571 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr19 - 38850463 38850469 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr19 - 38899861 38899867 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr19 - 41264065 41264071 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr19 - 42076088 42076094 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr21 - 46324071 46324077 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr17 - 47896121 47896127 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr6 - 52284819 52284825 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr6 - 53545228 53545234 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr18 - 62522964 62522970 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr17 - 63621996 63622002 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr17 - 63622090 63622096 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr15 - 70099733 70099739 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr10 - 74826345 74826351 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr3 - 88059120 88059126 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr14 - 91060732 91060738 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr10 - 102918245 102918251 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr1 - 117060146 117060152 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr1 - 117060177 117060183 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr3 - 133573490 133573496 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr5 - 176389117 176389123 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr2 - 224585747 224585753 3.2e-05 0.1 CCAATCA
CCAATSA DREME-4 chr19 + 1205556 1205562 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 + 1490827 1490833 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 + 6425223 6425229 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr17 + 7214498 7214504 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 + 8592452 8592458 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr2 + 9631051 9631057 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr2 + 9631103 9631109 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 + 17309511 17309517 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr22 + 23839257 23839263 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr16 + 28950862 28950868 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr16 + 30370766 30370772 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr22 + 31662292 31662298 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 + 32675229 32675235 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 + 35744993 35744999 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 + 35870138 35870144 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 + 40570899 40570905 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 + 40576821 40576827 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr7 + 44848314 44848320 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 + 57633112 57633118 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr2 + 62705599 62705605 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr17 + 63550235 63550241 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr17 + 63550353 63550359 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr10 + 74151127 74151133 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr17 + 82023057 82023063 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr17 + 82023108 82023114 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr17 + 82023158 82023164 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr1 + 155002212 155002218 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr6 + 166627421 166627427 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr1 + 169893988 169893994 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 - 2151761 2151767 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr20 - 3889244 3889250 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr8 - 10840038 10840044 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr16 - 30610439 30610445 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr6 - 30617351 30617357 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 - 35628986 35628992 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 - 36141414 36141420 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr22 - 38705587 38705593 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 - 38850321 38850327 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 - 38899913 38899919 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 - 41264095 41264101 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 - 42268834 42268840 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 - 42268874 42268880 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 - 48714184 48714190 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 - 48714281 48714287 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 - 48993420 48993426 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr17 - 58518022 58518028 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr17 - 81223074 81223080 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr12 - 121399975 121399981 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr5 - 138543330 138543336 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr1 - 155244744 155244750 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr5 - 160119634 160119640 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr1 - 205750265 205750271 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr1 - 234724221 234724227 6.4e-05 0.117 CCAATGA
CCAATSA DREME-4 chr19 + 6425266 6425272 9.82e-05 0.147 CCAATTA
CCAATSA DREME-4 chr17 + 7214552 7214558 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr19 + 10717771 10717777 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr19 + 10717899 10717905 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr21 + 33641910 33641916 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr7 + 44848345 44848351 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr1 + 45491293 45491299 9.82e-05 0.147 CCAATTA
CCAATSA DREME-4 chr12 + 56360403 56360409 9.82e-05 0.147 CCAATTA
CCAATSA DREME-4 chr12 + 57694069 57694075 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr17 + 75456530 75456536 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr3 + 88059140 88059146 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr12 + 95217693 95217699 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr7 + 107168927 107168933 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr1 + 230979013 230979019 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr16 - 1343241 1343247 9.82e-05 0.147 CCAATTA
CCAATSA DREME-4 chr19 - 4472090 4472096 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr19 - 8525717 8525723 9.82e-05 0.147 CCAATTA
CCAATSA DREME-4 chr3 - 14948436 14948442 9.82e-05 0.147 CCAATTA
CCAATSA DREME-4 chr17 - 17972685 17972691 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr19 - 32972140 32972146 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr19 - 38374480 38374486 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr19 - 40610142 40610148 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr17 - 47896163 47896169 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr18 - 74292125 74292131 9.82e-05 0.147 CCAATTA
CCAATSA DREME-4 chr6 - 89080668 89080674 9.82e-05 0.147 CCAATTA
CCAATSA DREME-4 chr10 - 102245300 102245306 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr10 - 102743766 102743772 9.82e-05 0.147 CCAATAA
CCAATSA DREME-4 chr5 - 173057253 173057259 9.82e-05 0.147 CCAATTA

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/SP3.IDR0.05.filt.narrowPeak.top600.summitPlusMinus100bp.MemeChipResultsDefaultMax/fimo_out_3 --bgfile /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/SP3.IDR0.05.filt.narrowPeak.top600.summitPlusMinus100bp.MemeChipResultsDefaultMax/background --motif CCAATSA /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/SP3.IDR0.05.filt.narrowPeak.top600.summitPlusMinus100bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/SP3.IDR0.05.filt.narrowPeak.top600.summitPlusMinus100bp.MemeChipResultsDefaultMax/SP3.IDR0.05.filt.narrowPeak.top600.summitPlusMinus100bp.fa

Settings:

output_directory = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/SP3.IDR0.05.filt.narrowPeak.top600.summitPlusMinus100bp.MemeChipResultsDefaultMax/fimo_out_3 MEME file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/SP3.IDR0.05.filt.narrowPeak.top600.summitPlusMinus100bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml sequence file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/SP3.IDR0.05.filt.narrowPeak.top600.summitPlusMinus100bp.MemeChipResultsDefaultMax/SP3.IDR0.05.filt.narrowPeak.top600.summitPlusMinus100bp.fa
background file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/SP3.IDR0.05.filt.narrowPeak.top600.summitPlusMinus100bp.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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