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/ZNF24.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/ZNF24.IDR0.05.filt.narrowPeaksummitPlusMinus250bp.fa
Database contains 14436 sequences, 7218000 residues
MOTIFS /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/ZNF24.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml (DNA)
MOTIF | WIDTH | BEST POSSIBLE MATCH |
---|---|---|
AATGARTK | 8 | AATGAATG |
AGATAAV | 7 | AGATAAG |
AASDAATG | 8 | AAGAAATG |
AGGCHGR | 7 | AGGCTGG |
CCATYTTR | 8 | CCATCTTG |
ARTRAAT | 7 | AGTGAAT |
CTGTAAYC | 8 | CTGTAATC |
RTGACTCA | 8 | ATGACTCA |
CYTCCY | 6 | CTTCCT |
GCCACYGC | 8 | GCCACTGC |
CCASSC | 6 | CCAGCC |
RCCTACTR | 8 | ACCTACTG |
AGTRAST | 7 | AGTGAGT |
AAAGTGCT | 8 | AAAGTGCT |
GAGACRGR | 8 | GAGACAGA |
CAGAGCRA | 8 | CAGAGCAA |
GTAAAATR | 8 | GTAAAATG |
CTTATCAS | 8 | CTTATCAG |
AMAAATAC | 8 | AAAAATAC |
CCASCTAC | 8 | CCAGCTAC |
CGGMTCAC | 8 | CGGCTCAC |
CACGTR | 6 | CACGTG |
CWGWGGC | 7 | CAGAGGC |
AGGTCAGG | 8 | AGGTCAGG |
AAYGAACG | 8 | AATGAACG |
ATCRCTTG | 8 | ATCACTTG |
AMACAS | 6 | ACACAC |
TCACTGYA | 8 | TCACTGCA |
AAAATTAG | 8 | AAAATTAG |
ATKCAGCC | 8 | ATGCAGCC |
GCGTGMGC | 8 | GCGTGAGC |
AGCHCCTA | 8 | AGCACCTA |
CCATGTKG | 8 | CCATGTTG |
CCYGGS | 6 | CCTGGC |
ARTAAACR | 8 | AATAAACA |
AGWTCGAG | 8 | AGTTCGAG |
AACAAAYA | 8 | AACAAACA |
AGKCATTC | 8 | AGTCATTC |
ATCTCTAM | 8 | ATCTCTAC |
ATTAWYTC | 8 | ATTATTTC |
ASTGAGAC | 8 | AGTGAGAC |
ATCCATCC | 8 | ATCCATCC |
GTTCAAAY | 8 | GTTCAAAT |
TACAGGCR | 8 | TACAGGCA |
GCCACCAY | 8 | GCCACCAT |
MAGGAA | 6 | AAGGAA |
ACAAAACA | 8 | ACAAAACA |
Random model letter frequencies (/srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/ZNF24.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/background):
A 0.262 C 0.238 G 0.238 T 0.262
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/ZNF24.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/fimo_out_47 --bgfile /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/ZNF24.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/background --motif MAGGAA /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/ZNF24.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/ZNF24.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/ZNF24.IDR0.05.filt.narrowPeaksummitPlusMinus250bp.fa
Settings:
output_directory = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/ZNF24.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/fimo_out_47 | MEME file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/ZNF24.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out/dreme.xml | sequence file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/ZNF24.IDR0.05.filt.narrowPeak.summitPlusMinus250bp.MemeChipResultsDefaultMax/ZNF24.IDR0.05.filt.narrowPeaksummitPlusMinus250bp.fa |
background file name = /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeK562eGFPComparisons/ZNF24.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.