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/ZNF530.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/ZNF530.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.fa
Database contains 600 sequences, 300000 residues

MOTIFS /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF530.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml (DNA)

MOTIF WIDTH BEST POSSIBLE MATCH
TAAATAAA 8 TAAATAAA
CCTTDCC 7 CCTTTCC
RTCTCAAA 8 GTCTCAAA
ACAGWG 6 ACAGAG
GGAATRGA 8 GGAATGGA
AGGGGCWG 8 AGGGGCAG
ARCAAAGG 8 AACAAAGG
GTCTYR 6 GTCTTA

Random model letter frequencies (/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF530.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/background):
A 0.269 C 0.231 G 0.231 T 0.269


SECTION I: HIGH-SCORING MOTIF OCCURENCES

Motif ID Alt ID Sequence Name Strand Start End p-value q-value Matched Sequence
ARCAAAGG DREME-7 chr16 - 11580684 11580691 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr16 - 12680049 12680056 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr19 - 13742080 13742087 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr1 - 16905626 16905633 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr8 - 17831717 17831724 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr10 - 21290660 21290667 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr17 - 30717449 30717456 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr13 - 45771180 45771187 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr13 - 50532881 50532888 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr9 - 77111573 77111580 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr3 - 78982068 78982075 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr10 - 79067386 79067393 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr2 - 85555055 85555062 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr4 - 88582730 88582737 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr7 - 99820583 99820590 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr3 - 99843150 99843157 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr11 - 102555331 102555338 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr8 - 105275052 105275059 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr7 - 139124649 139124656 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr6 - 152418869 152418876 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr5 - 154181357 154181364 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr1 - 155080871 155080878 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr5 - 181235554 181235561 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr1 - 181385826 181385833 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr8 + 9077586 9077593 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr12 + 11154587 11154594 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr18 + 13482780 13482787 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chrX + 17968121 17968128 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr9 + 20115185 20115192 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr16 + 21184197 21184204 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr10 + 23089880 23089887 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr21 + 36123253 36123260 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr8 + 36916252 36916259 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr7 + 43621834 43621841 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr13 + 45771085 45771092 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr5 + 55463890 55463897 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr15 + 59596853 59596860 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr11 + 60909000 60909007 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr15 + 67064467 67064474 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr5 + 74309257 74309264 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr3 + 77479454 77479461 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr3 + 101629231 101629238 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr10 + 120034462 120034469 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr11 + 122823763 122823770 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr5 + 124286719 124286726 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr5 + 125032777 125032784 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr6 + 161526979 161526986 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr5 + 168287130 168287137 1.73e-05 0.205 AACAAAGG
ARCAAAGG DREME-7 chr1 + 232193588 232193595 1.73e-05 0.205 aacaaagg
ARCAAAGG DREME-7 chr16 - 5231547 5231554 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr17 + 7234385 7234392 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr1 + 8075725 8075732 3.23e-05 0.246 agcaaagg
ARCAAAGG DREME-7 chr1 + 8075984 8075991 3.23e-05 0.246 agcaaagg
ARCAAAGG DREME-7 chr8 + 18479325 18479332 3.23e-05 0.246 agcaaagg
ARCAAAGG DREME-7 chr22 + 19756356 19756363 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr22 - 27225007 27225014 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr2 - 27719975 27719982 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr16 - 29740954 29740961 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr15 + 40545619 40545626 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr19 - 43703068 43703075 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr19 - 43703088 43703095 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr17 - 50783186 50783193 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr5 - 72272637 72272644 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr3 + 77479206 77479213 3.23e-05 0.246 agcaaagg
ARCAAAGG DREME-7 chr12 + 90321568 90321575 3.23e-05 0.246 agcaaagg
ARCAAAGG DREME-7 chr11 + 93768845 93768852 3.23e-05 0.246 agcaaagg
ARCAAAGG DREME-7 chr14 + 104996646 104996653 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr2 - 108995782 108995789 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr2 - 119538011 119538018 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr5 + 127257105 127257112 3.23e-05 0.246 agcaaagg
ARCAAAGG DREME-7 chr4 - 128228431 128228438 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr3 + 150251203 150251210 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr3 - 150251511 150251518 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr3 - 167672244 167672251 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr6 - 169831867 169831874 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chr4 + 174453917 174453924 3.23e-05 0.246 AGCAAAGG
ARCAAAGG DREME-7 chrUn_KI270466v1 - 400 407 6.45e-05 0.398 ATCAAAGG
ARCAAAGG DREME-7 chrUn_KI270467v1 - 3220 3227 6.45e-05 0.398 ATCAAAGG
ARCAAAGG DREME-7 chrUn_KI270467v1 - 3220 3227 6.45e-05 0.398 ATCAAAGG
ARCAAAGG DREME-7 chr19 - 4444080 4444087 6.45e-05 0.398 ATCAAAGG
ARCAAAGG DREME-7 chr17 - 8094052 8094059 6.45e-05 0.398 ATCAAAGG
ARCAAAGG DREME-7 chr16 + 19084153 19084160 6.45e-05 0.398 accaaagg
ARCAAAGG DREME-7 chr9 + 21765502 21765509 6.45e-05 0.398 accaaagg
ARCAAAGG DREME-7 chr14 - 24818222 24818229 6.45e-05 0.398 ATCAAAGG
ARCAAAGG DREME-7 chr14 - 24818289 24818296 6.45e-05 0.398 ACCAAAGG
ARCAAAGG DREME-7 chr10 + 28347304 28347311 6.45e-05 0.398 atcaaagg
ARCAAAGG DREME-7 chr1 - 33497781 33497788 6.45e-05 0.398 ACCAAAGG
ARCAAAGG DREME-7 chr8 + 33607214 33607221 6.45e-05 0.398 atcaaagg
ARCAAAGG DREME-7 chr10 + 38527501 38527508 6.45e-05 0.398 ATCAAAGG
ARCAAAGG DREME-7 chr10 + 41899750 41899757 6.45e-05 0.398 atcaaagg
ARCAAAGG DREME-7 chr5 + 67520530 67520537 6.45e-05 0.398 ACCAAAGG
ARCAAAGG DREME-7 chr14 - 90369766 90369773 6.45e-05 0.398 ATCAAAGG
ARCAAAGG DREME-7 chr10 + 114649464 114649471 6.45e-05 0.398 atcaaagg
ARCAAAGG DREME-7 chr1 - 224623897 224623904 6.45e-05 0.398 ACCAAAGG

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/ZNF530.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/fimo_out_13 --bgfile /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF530.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/background --motif ARCAAAGG /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF530.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF530.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/ZNF530.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.fa

Settings:

output_directory = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF530.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/fimo_out_13 MEME file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF530.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml sequence file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF530.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResultsDefaultMax/ZNF530.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.fa
background file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF530.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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