Database and Motifs | High-scoring Motif Occurences | Debugging Information |
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 /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/DDX20-Antibody.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/DDX20-Antibody.IDR0.05.filt.narrowPeaksummitPlusMinus250bp.fa
Database contains 10393 sequences, 5196500 residues
MOTIFS /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/DDX20-Antibody.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml (DNA)
MOTIF | WIDTH | BEST POSSIBLE MATCH |
---|---|---|
BTTATCW | 7 | CTTATCT |
CCAATSR | 7 | CCAATCA |
CCRCCBC | 7 | CCGCCCC |
TCCMRGAA | 8 | TCCAGGAA |
CMGGAAGY | 8 | CCGGAAGT |
ATRAATAA | 8 | ATGAATAA |
GGGHGGR | 7 | GGGAGGG |
ASCATATA | 8 | ACCATATA |
RAAATR | 6 | AAAATG |
KATTGGCY | 8 | TATTGGCT |
BACAG | 5 | CACAG |
TCYKAGAA | 8 | TCTGAGAA |
TGACTCAB | 8 | TGACTCAG |
ACCCTCAG | 8 | ACCCTCAG |
MGGAAR | 6 | AGGAAG |
AGGCKGG | 7 | AGGCTGG |
ACGTS | 5 | ACGTG |
CGTCTCWA | 8 | CGTCTCTA |
GCTGGGAY | 8 | GCTGGGAT |
CACACMCA | 8 | CACACACA |
GSTAAACA | 8 | GCTAAACA |
AAAAVAAA | 8 | AAAAAAAA |
GCYTCCCA | 8 | GCCTCCCA |
MGATAA | 6 | AGATAA |
CAGTGAGY | 8 | CAGTGAGC |
GCCACCAB | 8 | GCCACCAG |
ASGCAG | 6 | AGGCAG |
AGAKGGCG | 8 | AGAGGGCG |
TGATGCAA | 8 | TGATGCAA |
AACTCMTG | 8 | AACTCCTG |
AAAWATTA | 8 | AAAAATTA |
ACTGCACT | 8 | ACTGCACT |
GTCTAAAA | 8 | GTCTAAAA |
CTGGAAAH | 8 | CTGGAAAA |
CAGCWGC | 7 | CAGCAGC |
Random model letter frequencies (/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/DDX20-Antibody.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/background):
A 0.243 C 0.257 G 0.257 T 0.243
Motif ID | Alt ID | Sequence Name | Strand | Start | End | p-value | q-value | Matched Sequence |
---|
Command line:
/software/meme/4.12.0/bin/fimo --parse-genomic-coord --verbosity 1 --oc /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/DDX20-Antibody.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/fimo_out_22 --bgfile /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/DDX20-Antibody.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/background --motif ACGTS /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/DDX20-Antibody.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/DDX20-Antibody.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/DDX20-Antibody.IDR0.05.filt.narrowPeaksummitPlusMinus250bp.fa
Settings:
output_directory = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/DDX20-Antibody.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/fimo_out_22 | MEME file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/DDX20-Antibody.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml | sequence file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/DDX20-Antibody.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/DDX20-Antibody.IDR0.05.filt.narrowPeaksummitPlusMinus250bp.fa |
background file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/DDX20-Antibody.IDR0.05.filt.narrowPeak.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.