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/ZSCAN23.IDR0.05.filt.narrowPeak.outsidePolsteinDNase.summitPlusMinus250bp.MemeChipResults/ZSCAN23.IDR0.05.filt.narrowPeak.outsidePolsteinDNase.summitPlusMinus250bp.fa
Database contains 600 sequences, 300000 residues

MOTIFS /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZSCAN23.IDR0.05.filt.narrowPeak.outsidePolsteinDNase.summitPlusMinus250bp.MemeChipResults/dreme_out/dreme.xml (DNA)

MOTIF WIDTH BEST POSSIBLE MATCH
GGGATTA 7 GGGATTA
AGSCWGG 7 AGGCTGG
TCYCAAA 7 TCTCAAA
GACTCAK 7 GACTCAT
AAAAATAC 8 AAAAATAC
ACCTC 5 ACCTC
CRGGAGGC 8 CGGGAGGC
AGTAGAG 7 AGTAGAG
CTTGAACC 8 CTTGAACC
TGCAGTGR 8 TGCAGTGA
GGTGRC 6 GGTGGC
AAATAAAT 8 AAATAAAT
GTTTGTK 7 GTTTGTG

Random model letter frequencies (/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZSCAN23.IDR0.05.filt.narrowPeak.outsidePolsteinDNase.summitPlusMinus250bp.MemeChipResults/background):
A 0.268 C 0.232 G 0.232 T 0.268


SECTION I: HIGH-SCORING MOTIF OCCURENCES

Motif ID Alt ID Sequence Name Strand Start End p-value q-value Matched Sequence
GACTCAK DREME-4 chr19 - 434323 434329 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr19 - 434379 434385 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr19 - 434439 434445 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr16 - 2664865 2664871 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr19 - 4183939 4183945 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr10 - 4781010 4781016 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr16 - 10739005 10739011 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr17 - 13421066 13421072 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr16 - 15590993 15590999 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chrX - 17413442 17413448 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr16 - 22202006 22202012 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr1 - 28373705 28373711 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr19 - 28401351 28401357 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr6 - 29628419 29628425 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr6 - 31863179 31863185 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr17 - 33983016 33983022 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr21 - 35593159 35593165 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr8 - 37793389 37793395 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr13 - 39148639 39148645 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr17 - 39486545 39486551 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr6 - 43322124 43322130 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr21 - 45208848 45208854 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr17 - 45321083 45321089 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr17 - 45832226 45832232 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr20 - 46085306 46085312 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr17 - 46279920 46279926 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr18 - 50836807 50836813 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr18 - 50870392 50870398 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr16 - 54927453 54927459 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr8 - 72675831 72675837 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr10 - 100044655 100044661 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr7 - 101169221 101169227 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr9 - 109118048 109118054 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr10 - 120969542 120969548 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr3 - 127890554 127890560 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr10 - 129440525 129440531 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr2 - 138072412 138072418 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr7 - 149719235 149719241 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr7 - 158109730 158109736 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr1 - 241131179 241131185 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chrX + 1212693 1212699 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr12 + 12398563 12398569 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr5 + 17315833 17315839 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr4 + 20272573 20272579 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr4 + 20272799 20272805 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr6 + 27633376 27633382 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr8 + 28625183 28625189 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr21 + 29217876 29217882 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr6 + 29845471 29845477 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr6 + 29845499 29845505 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr6 + 29845527 29845533 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr6 + 29845555 29845561 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr6 + 29845611 29845617 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr6 + 29845639 29845645 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr8 + 30254865 30254871 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr12 + 31763256 31763262 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr6 + 32969992 32969998 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr19 + 35905543 35905549 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr17 + 37567433 37567439 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr19 + 39033203 39033209 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr6 + 42674494 42674500 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr21 + 43857627 43857633 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr20 + 46368510 46368516 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr12 + 49125139 49125145 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr1 + 52945432 52945438 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr2 + 62201615 62201621 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr13 + 62643017 62643023 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr13 + 62643051 62643057 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr13 + 62643079 62643085 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr13 + 62643096 62643102 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr13 + 62643124 62643130 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr13 + 62643141 62643147 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr13 + 62643169 62643175 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr13 + 62643186 62643192 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr13 + 62643214 62643220 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr12 + 63419251 63419257 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr12 + 63419279 63419285 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr12 + 63419307 63419313 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr12 + 63419335 63419341 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr12 + 63419369 63419375 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr10 + 70378373 70378379 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr5 + 71601857 71601863 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr3 + 71982844 71982850 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr17 + 76854109 76854115 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr11 + 93986845 93986851 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr13 + 98583818 98583824 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr10 + 101275516 101275522 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr9 + 108477599 108477605 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr13 + 110965384 110965390 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr13 + 110965401 110965407 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr13 + 110965429 110965435 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr13 + 110965446 110965452 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr13 + 110965474 110965480 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr13 + 110965491 110965497 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr13 + 110965519 110965525 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr13 + 110965536 110965542 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr10 + 112959388 112959394 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr7 + 116543955 116543961 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr3 + 127890699 127890705 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr3 + 127890727 127890733 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr3 + 127890755 127890761 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr3 + 127890783 127890789 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr6 + 129183888 129183894 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr10 + 129440520 129440526 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr6 + 133248944 133248950 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr7 + 133492276 133492282 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr6 + 141326671 141326677 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr7 + 150360269 150360275 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr3 + 156626298 156626304 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr2 + 158232703 158232709 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr3 + 169009244 169009250 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr1 + 205266321 205266327 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr1 + 229224635 229224641 6.44e-05 0.332 GACTCAT
GACTCAK DREME-4 chr1 + 233244440 233244446 6.44e-05 0.332 gactcat
GACTCAK DREME-4 chr1 + 236468354 236468360 6.44e-05 0.332 gactcat

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/ZSCAN23.IDR0.05.filt.narrowPeak.outsidePolsteinDNase.summitPlusMinus250bp.MemeChipResults/fimo_out_10 --bgfile /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZSCAN23.IDR0.05.filt.narrowPeak.outsidePolsteinDNase.summitPlusMinus250bp.MemeChipResults/background --motif GACTCAK /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZSCAN23.IDR0.05.filt.narrowPeak.outsidePolsteinDNase.summitPlusMinus250bp.MemeChipResults/dreme_out/dreme.xml /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZSCAN23.IDR0.05.filt.narrowPeak.outsidePolsteinDNase.summitPlusMinus250bp.MemeChipResults/ZSCAN23.IDR0.05.filt.narrowPeak.outsidePolsteinDNase.summitPlusMinus250bp.fa

Settings:

output_directory = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZSCAN23.IDR0.05.filt.narrowPeak.outsidePolsteinDNase.summitPlusMinus250bp.MemeChipResults/fimo_out_10 MEME file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZSCAN23.IDR0.05.filt.narrowPeak.outsidePolsteinDNase.summitPlusMinus250bp.MemeChipResults/dreme_out/dreme.xml sequence file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZSCAN23.IDR0.05.filt.narrowPeak.outsidePolsteinDNase.summitPlusMinus250bp.MemeChipResults/ZSCAN23.IDR0.05.filt.narrowPeak.outsidePolsteinDNase.summitPlusMinus250bp.fa
background file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZSCAN23.IDR0.05.filt.narrowPeak.outsidePolsteinDNase.summitPlusMinus250bp.MemeChipResults/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.


Go to top