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/ZNF10.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/ZNF10.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.fa
Database contains 600 sequences, 300000 residues

MOTIFS /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF10.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml (DNA)

MOTIF WIDTH BEST POSSIBLE MATCH
AKCAGKTG 8 ATCAGTTG
GGCCCACC 8 GGCCCACC
CTGADTA 7 CTGATTA
AAGGCCTK 8 AAGGCCTT
GRTGA 5 GATGA
GAACAAAR 8 GAACAAAA
CASATTA 7 CACATTA
TTTAARW 7 TTTAAGA
TTAMTCAA 8 TTACTCAA
AGACTGA 7 AGACTGA
CTGCTK 6 CTGCTG

Random model letter frequencies (/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF10.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/background):
A 0.250 C 0.250 G 0.250 T 0.250

SECTION I: HIGH-SCORING MOTIF OCCURENCES
Motif ID Alt ID Sequence Name Strand Start End p-value q-value Matched Sequence
AGACTGA DREME-10 chr11 - 1650204 1650210 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr19 - 2382975 2382981 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr19 + 3904438 3904444 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr19 - 3904547 3904553 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr20 - 4779330 4779336 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr3 + 5734230 5734236 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr3 + 5734335 5734341 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr12 - 5847233 5847239 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr10 + 6307075 6307081 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr10 + 6333984 6333990 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr10 - 6334049 6334055 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr19 - 6558127 6558133 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr10 + 7296854 7296860 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr12 - 8332381 8332387 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr6 + 8710766 8710772 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr6 + 11244094 11244100 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr1 - 11573445 11573451 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr17 - 13355370 13355376 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr1 + 14737744 14737750 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr1 - 17123809 17123815 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr1 + 17123941 17123947 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr3 - 23095276 23095282 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr16 - 30634394 30634400 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr1 - 31170955 31170961 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr11 + 32204802 32204808 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr19 + 34186447 34186453 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr10 + 35195968 35195974 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr22 + 35308041 35308047 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr19 + 36014589 36014595 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr21 + 36203463 36203469 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr20 + 36639239 36639245 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr21 - 37071804 37071810 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr21 - 38324016 38324022 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr17 + 41530239 41530245 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr13 + 43492975 43492981 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr19 + 47425443 47425449 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr22 - 48607456 48607462 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr22 - 48607639 48607645 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr12 - 50221607 50221613 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr12 - 50221639 50221645 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr18 + 51429635 51429641 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr18 + 51429840 51429846 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr16 + 51577599 51577605 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr1 - 54773127 54773133 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr19 + 55486962 55486968 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr2 - 56444435 56444441 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr18 - 59478251 59478257 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr18 - 59478257 59478263 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr5 + 61904973 61904979 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr17 - 64726266 64726272 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr1 + 64934357 64934363 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr17 + 68068638 68068644 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr10 + 69043022 69043028 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr1 - 70354650 70354656 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr2 + 72289726 72289732 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr5 + 73454469 73454475 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr7 - 73741570 73741576 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr1 + 74716025 74716031 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr15 + 74942663 74942669 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr10 - 78643668 78643674 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr16 - 80512051 80512057 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr17 + 80991533 80991539 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr4 - 81507759 81507765 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr17 - 82600438 82600444 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr15 + 83340297 83340303 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr15 - 83340375 83340381 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr11 + 86232789 86232795 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr16 - 87909660 87909666 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr2 + 88660690 88660696 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr16 + 88783086 88783092 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr10 + 99430546 99430552 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr7 - 101421292 101421298 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr8 - 103079933 103079939 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr8 - 103079948 103079954 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr11 + 103656610 103656616 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr14 + 104294631 104294637 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr11 + 110488670 110488676 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr2 + 112626546 112626552 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr7 + 112859070 112859076 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr1 + 113904448 113904454 6.1e-05 0.322 agACTGA
AGACTGA DREME-10 chr12 - 115847681 115847687 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr10 + 116027582 116027588 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr12 - 116405080 116405086 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr10 + 117466152 117466158 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr6 - 118305253 118305259 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr10 + 118868003 118868009 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr5 + 119269324 119269330 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr2 - 120683957 120683963 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chrX + 123939199 123939205 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr12 - 124027120 124027126 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr10 + 125460297 125460303 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr10 + 125460559 125460565 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr2 - 127000359 127000365 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr7 + 128194770 128194776 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr7 - 132514544 132514550 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr9 - 134271767 134271773 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chrX + 134592319 134592325 6.1e-05 0.322 agactga
AGACTGA DREME-10 chrX + 134592527 134592533 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr6 + 138106598 138106604 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chrX + 138875611 138875617 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr2 - 149538531 149538537 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr6 + 149746658 149746664 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr7 - 151016366 151016372 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr1 + 157074162 157074168 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr6 - 169895522 169895528 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr4 - 185004117 185004123 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr3 - 193805712 193805718 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr2 + 202379732 202379738 6.1e-05 0.322 AGACTGA
AGACTGA DREME-10 chr1 + 205764737 205764743 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr1 + 220834317 220834323 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr1 + 220834393 220834399 6.1e-05 0.322 agactga
AGACTGA DREME-10 chr1 + 224695185 224695191 6.1e-05 0.322 agactga
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/ZNF10.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/fimo_out_21 --bgfile /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF10.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/background --motif AGACTGA /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF10.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF10.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/ZNF10.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.fa

Settings: 


  

    output_directory = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF10.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/fimo_out_21
    MEME file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF10.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml
    sequence file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF10.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/ZNF10.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.fa
  
  

    background file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF10.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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