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/ZNF101.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/ZNF101.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.fa
Database contains 600 sequences, 300000 residues

MOTIFS /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF101.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml (DNA)

MOTIF WIDTH BEST POSSIBLE MATCH
AATAAATA 8 AATAAATA
GAGDC 5 GAGAC
ACASAG 6 ACAGAG
CATCTC 6 CATCTC
ASCCAGG 7 ACCCAGG
AGAGYGA 7 AGAGTGA
CACCACB 7 CACCACC
GCMAC 5 GCCAC

Random model letter frequencies (/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF101.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/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
AGAGYGA DREME-6 chr20 + 4613230 4613236 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr19 - 5689492 5689498 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr1 + 6404689 6404695 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr17 + 8093845 8093851 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr3 + 9939119 9939125 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr19 - 11533288 11533294 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr16 - 14096105 14096111 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr17 + 16406773 16406779 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr19 - 18106599 18106605 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr16 + 21515157 21515163 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr8 - 22450864 22450870 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr18 + 23654246 23654252 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chrX + 23771933 23771939 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr1 + 24593850 24593856 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr10 + 25877024 25877030 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr16 + 30052678 30052684 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr16 - 30052953 30052959 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr16 - 30446044 30446050 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr18 - 31125511 31125517 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr21 - 31990564 31990570 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr21 - 32695875 32695881 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr6 + 32699890 32699896 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr21 + 32771944 32771950 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr21 + 32771968 32771974 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr21 - 32772025 32772031 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr6 + 33378121 33378127 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr20 - 34026431 34026437 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr19 - 34234925 34234931 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr21 - 35002456 35002462 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr10 - 35197481 35197487 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr1 - 35380356 35380362 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr17 + 35567495 35567501 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr19 + 37918852 37918858 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr19 + 38374639 38374645 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr19 - 39794459 39794465 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr19 + 40301133 40301139 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr19 - 40301369 40301375 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr19 + 40346424 40346430 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr19 + 40795150 40795156 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr3 + 41158342 41158348 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr21 - 42149384 42149390 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr12 + 42215906 42215912 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr17 + 44819639 44819645 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr11 - 46245107 46245113 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr19 + 46797290 46797296 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr2 - 47176491 47176497 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr11 + 47519461 47519467 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr12 - 48866641 48866647 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr18 - 48873793 48873799 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr1 - 52123917 52123923 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr1 - 52847699 52847705 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr1 - 52847898 52847904 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr1 - 52879790 52879796 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr6 - 53687454 53687460 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr15 + 55817771 55817777 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr3 + 61732690 61732696 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr17 + 61838525 61838531 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr15 + 65610915 65610921 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr10 - 69304336 69304342 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr12 - 69477769 69477775 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr16 - 70350906 70350912 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr15 - 70866176 70866182 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr16 + 71809068 71809074 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chrX + 72181839 72181845 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chrX - 72720039 72720045 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr6 + 73461515 73461521 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr10 - 73883218 73883224 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr15 - 75217989 75217995 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr5 - 76779284 76779290 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr17 - 77233887 77233893 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr17 + 80810029 80810035 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr6 + 89778867 89778873 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr12 - 89964677 89964683 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr5 - 95920339 95920345 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr5 - 96818954 96818960 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr13 - 98581046 98581052 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr10 + 102387789 102387795 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr14 - 102639562 102639568 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr5 - 109425769 109425775 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr11 - 123279459 123279465 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr5 + 143105358 143105364 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr5 - 149556415 149556421 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chrX - 153937465 153937471 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr5 - 154188654 154188660 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr1 - 155065761 155065767 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr1 - 155225340 155225346 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr1 + 155244796 155244802 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr1 + 155244802 155244808 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr1 + 155244810 155244816 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr1 + 155244824 155244830 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr1 + 155244832 155244838 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr1 + 155244840 155244846 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr1 - 155575851 155575857 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr5 + 160124590 160124596 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr1 - 173824402 173824408 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr5 - 175559339 175559345 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr5 - 177057849 177057855 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr5 - 177345796 177345802 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr3 + 180989689 180989695 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr1 + 183081529 183081535 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr4 + 190112087 190112093 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr2 - 190850862 190850868 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr3 + 193970417 193970423 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr1 + 225654906 225654912 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr1 + 226199517 226199523 5.57e-05 0.297 agagcga
AGAGYGA DREME-6 chr1 - 226221772 226221778 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr1 - 229919737 229919743 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr1 - 235364414 235364420 5.57e-05 0.297 AGAGCGA
AGAGYGA DREME-6 chr1 - 241040529 241040535 5.57e-05 0.297 AGAGCGA

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/ZNF101.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/fimo_out_20 --bgfile /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF101.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/background --motif AGAGYGA /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF101.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF101.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/ZNF101.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.fa

Settings:

output_directory = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF101.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/fimo_out_20 MEME file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF101.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml sequence file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF101.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/ZNF101.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.fa
background file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF101.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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