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/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF768.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/ZNF768.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.fa
Database contains 599 sequences, 299500 residues

MOTIFS /srv/scratch/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF768.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/dreme_out/dreme.xml (DNA)

MOTIF WIDTH BEST POSSIBLE MATCH
CAGAGAVG 8 CAGAGAGG
CACACAGY 8 CACACAGC
ACCTTRG 7 ACCTTGG
AAGTHACT 8 AAGTCACT
AAAMTGR 7 AAAATGA
ACAGATGM 8 ACAGATGA
GCTYTGCC 8 GCTCTGCC
GCCTCR 6 GCCTCA
GGGCAAGK 8 GGGCAAGT

Random model letter frequencies (/srv/scratch/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF768.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/background):
A 0.239 C 0.261 G 0.261 T 0.239


SECTION I: HIGH-SCORING MOTIF OCCURENCES

Motif ID Alt ID Sequence Name Strand Start End p-value q-value Matched Sequence
ACAGATGM DREME-6 chr6 - 3162360 3162367 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr19 - 3357545 3357552 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr19 + 10908545 10908552 1.39e-05 0.166 acagatga
ACAGATGM DREME-6 chr19 - 11352298 11352305 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr1 - 12540875 12540882 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr1 + 16147723 16147730 1.39e-05 0.166 acagatga
ACAGATGM DREME-6 chr1 + 16931666 16931673 1.39e-05 0.166 acagatga
ACAGATGM DREME-6 chr1 + 17669459 17669466 1.39e-05 0.166 acagatga
ACAGATGM DREME-6 chr19 - 18030290 18030297 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr19 - 18278774 18278781 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr1 + 19326096 19326103 1.39e-05 0.166 acagatga
ACAGATGM DREME-6 chr17 + 21296704 21296711 1.39e-05 0.166 acagatga
ACAGATGM DREME-6 chr16 - 21553905 21553912 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr22 + 27194530 27194537 1.39e-05 0.166 acagatga
ACAGATGM DREME-6 chr17 + 28551574 28551581 1.39e-05 0.166 acagatga
ACAGATGM DREME-6 chr16 - 30951316 30951323 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr16 + 30951361 30951368 1.39e-05 0.166 acagatga
ACAGATGM DREME-6 chr22 + 31123304 31123311 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr20 - 33792132 33792139 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr21 - 34865041 34865048 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr8 - 37613122 37613129 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr19 - 39316132 39316139 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr19 + 39845224 39845231 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr19 - 40465193 40465200 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr22 - 41567352 41567359 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr22 - 46038324 46038331 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr19 + 46394720 46394727 1.39e-05 0.166 acagatga
ACAGATGM DREME-6 chr19 + 48489716 48489723 1.39e-05 0.166 acagatga
ACAGATGM DREME-6 chr17 - 49875143 49875150 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr19 - 55391644 55391651 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr16 - 56610789 56610796 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr7 - 73645870 73645877 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr15 + 89335762 89335769 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr9 - 89598466 89598473 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr15 + 90184504 90184511 1.39e-05 0.166 acagatga
ACAGATGM DREME-6 chr2 + 96534059 96534066 1.39e-05 0.166 acagatga
ACAGATGM DREME-6 chr12 - 109093845 109093852 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr12 - 109718051 109718058 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr12 + 110744726 110744733 1.39e-05 0.166 acagatga
ACAGATGM DREME-6 chr12 + 113100929 113100936 1.39e-05 0.166 acagatga
ACAGATGM DREME-6 chr3 + 120596118 120596125 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr12 - 122960425 122960432 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr3 + 129602881 129602888 1.39e-05 0.166 acagatga
ACAGATGM DREME-6 chr9 - 132266245 132266252 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr10 + 132336653 132336660 1.39e-05 0.166 acagatga
ACAGATGM DREME-6 chr5 - 171693154 171693161 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr1 - 223032389 223032396 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr1 - 226950537 226950544 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr1 - 234983759 234983766 1.39e-05 0.166 ACAGATGA
ACAGATGM DREME-6 chr17 + 7712654 7712661 2.91e-05 0.266 ACAGATGC
ACAGATGM DREME-6 chr19 + 16141136 16141143 2.91e-05 0.266 acagatgc
ACAGATGM DREME-6 chr20 + 25237708 25237715 2.91e-05 0.266 ACAGATGC
ACAGATGM DREME-6 chr17 + 26603909 26603916 2.91e-05 0.266 acagatgc
ACAGATGM DREME-6 chr22 - 36239514 36239521 2.91e-05 0.266 ACAGATGC
ACAGATGM DREME-6 chr19 + 39159358 39159365 2.91e-05 0.266 acagatgc
ACAGATGM DREME-6 chr19 + 40335925 40335932 2.91e-05 0.266 acagatgc
ACAGATGM DREME-6 chr15 - 66787485 66787492 2.91e-05 0.266 ACAGATGC
ACAGATGM DREME-6 chr1 + 66925655 66925662 2.91e-05 0.266 ACAGATGC
ACAGATGM DREME-6 chr10 + 71975264 71975271 2.91e-05 0.266 acagatgc
ACAGATGM DREME-6 chr16 - 85586127 85586134 2.91e-05 0.266 ACAGATGC
ACAGATGM DREME-6 chr14 - 102537886 102537893 2.91e-05 0.266 ACAGATGC
ACAGATGM DREME-6 chr5 - 107672928 107672935 2.91e-05 0.266 ACAGATGC
ACAGATGM DREME-6 chr12 + 111396826 111396833 2.91e-05 0.266 acagatgc
ACAGATGM DREME-6 chr1 + 235917317 235917324 2.91e-05 0.266 acagatgc
ACAGATGM DREME-6 chr3 - 14423698 14423705 5.81e-05 0.337 ACAGATGG
ACAGATGM DREME-6 chr16 - 21509383 21509390 5.81e-05 0.337 ACAGATGT
ACAGATGM DREME-6 chr16 - 29602568 29602575 5.81e-05 0.337 ACAGATGT
ACAGATGM DREME-6 chr22 - 39146667 39146674 5.81e-05 0.337 ACAGATGG
ACAGATGM DREME-6 chr17 - 39664423 39664430 5.81e-05 0.337 ACAGATGG
ACAGATGM DREME-6 chr13 - 50082662 50082669 5.81e-05 0.337 ACAGATGT
ACAGATGM DREME-6 chr11 - 64847501 64847508 5.81e-05 0.337 ACAGATGG
ACAGATGM DREME-6 chr11 - 64847648 64847655 5.81e-05 0.337 ACAGATGT
ACAGATGM DREME-6 chr15 - 66786320 66786327 5.81e-05 0.337 ACAGATGG
ACAGATGM DREME-6 chr7 - 73646054 73646061 5.81e-05 0.337 ACAGATGT
ACAGATGM DREME-6 chr16 - 85445937 85445944 5.81e-05 0.337 ACAGATGG
ACAGATGM DREME-6 chr16 - 87858404 87858411 5.81e-05 0.337 ACAGATGT
ACAGATGM DREME-6 chr1 - 113389878 113389885 5.81e-05 0.337 ACAGATGT
ACAGATGM DREME-6 chr10 - 132336771 132336778 5.81e-05 0.337 ACAGATGT
ACAGATGM DREME-6 chr1 - 226950702 226950709 5.81e-05 0.337 ACAGATGT
ACAGATGM DREME-6 chr19 + 3720106 3720113 5.81e-05 0.337 acagatgt
ACAGATGM DREME-6 chr8 + 17802374 17802381 5.81e-05 0.337 acagatgt
ACAGATGM DREME-6 chr16 + 23317008 23317015 5.81e-05 0.337 ACAGATGG
ACAGATGM DREME-6 chr1 + 23514340 23514347 5.81e-05 0.337 ACAGATGG
ACAGATGM DREME-6 chr19 + 30605071 30605078 5.81e-05 0.337 acagatgg
ACAGATGM DREME-6 chr1 + 30886872 30886879 5.81e-05 0.337 acagatgg
ACAGATGM DREME-6 chr22 + 37106139 37106146 5.81e-05 0.337 acagatgg
ACAGATGM DREME-6 chr5 + 38193221 38193228 5.81e-05 0.337 ACAGATGG
ACAGATGM DREME-6 chr1 + 38724875 38724882 5.81e-05 0.337 ACAGATGT
ACAGATGM DREME-6 chr22 + 39247136 39247143 5.81e-05 0.337 acagatgg
ACAGATGM DREME-6 chr19 + 41234934 41234941 5.81e-05 0.337 ACAGATGT
ACAGATGM DREME-6 chr22 + 42297008 42297015 5.81e-05 0.337 acagatgt
ACAGATGM DREME-6 chr19 + 43480738 43480745 5.81e-05 0.337 acagatgt
ACAGATGM DREME-6 chr19 + 48290816 48290823 5.81e-05 0.337 ACAGATGT
ACAGATGM DREME-6 chr19 + 53881597 53881604 5.81e-05 0.337 ACAGATGG
ACAGATGM DREME-6 chr19 + 55391796 55391803 5.81e-05 0.337 ACAGATGT
ACAGATGM DREME-6 chr14 + 74218097 74218104 5.81e-05 0.337 acagatgt
ACAGATGM DREME-6 chr17 + 77468572 77468579 5.81e-05 0.337 acagatgt
ACAGATGM DREME-6 chr11 + 82901003 82901010 5.81e-05 0.337 acagatgt
ACAGATGM DREME-6 chr10 + 88992036 88992043 5.81e-05 0.337 acagatgg
ACAGATGM DREME-6 chr14 + 100695234 100695241 5.81e-05 0.337 ACAGATGG
ACAGATGM DREME-6 chr9 + 130936168 130936175 5.81e-05 0.337 acagatgg

DEBUGGING INFORMATION

Command line:

/software/meme/4.12.0/bin/fimo --parse-genomic-coord --verbosity 1 --oc /srv/scratch/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF768.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/fimo_out_19 --bgfile /srv/scratch/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF768.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/background --motif ACAGATGM /srv/scratch/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF768.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/dreme_out/dreme.xml /srv/scratch/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF768.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/ZNF768.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.fa

Settings:

output_directory = /srv/scratch/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF768.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/fimo_out_19 MEME file name = /srv/scratch/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF768.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/dreme_out/dreme.xml sequence file name = /srv/scratch/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF768.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/ZNF768.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.fa
background file name = /srv/scratch/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF768.IDR0.05.filt.narrowPeak.top600.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.


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