Database and Motifs | High-scoring Motif Occurences | Debugging Information | Results in TSV Format | Results in GFF3 Format |
FIMO version 5.2.0, (Release date: Wed Oct 14 12:02:54 2020 -0700)
For further information on how to interpret these results please access http://meme-suite.org//doc/fimo-output-format.html.
To get a copy of the FIMO software please access http://meme-suite.org
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 ./bZIP_intersect_summits.fasta
Database contains 5670 sequences, 2835000 residues
MOTIFS dreme_out/dreme.xml (DNA)
MOTIF | WIDTH | BEST POSSIBLE MATCH |
---|---|---|
MCAGCY | 6 | ACAGCT |
CTGKCR | 6 | CTGTCA |
ASGTGKC | 7 | ACGTGGC |
GMCAACY | 7 | GACAACT |
ATATMY | 6 | ATATCT |
ARAGAVA | 7 | AAAGAAA |
GSTGGM | 6 | GGTGGA |
RGAAGAA | 7 | AGAAGAA |
CAGMCTGK | 8 | CAGACTGT |
AAAHAAAA | 8 | AAAAAAAA |
CAGCTCAC | 8 | CAGCTCAC |
ACCTGTM | 7 | ACCTGTA |
CATCWTC | 7 | CATCATC |
MRACGA | 6 | AAACGA |
CHAAACC | 7 | CAAAACC |
GGWAA | 5 | GGAAA |
CTTAGCTA | 8 | CTTAGCTA |
TGGAGRA | 7 | TGGAGAA |
CAACTGTM | 8 | CAACTGTA |
Random model letter frequencies (./background):
A 0.306 C 0.194 G 0.194 T 0.306
Motif ID | Alt ID | Sequence Name | Strand | Start | End | p-value | q-value | Matched Sequence |
---|
Command line:
fimo --parse-genomic-coord --verbosity 1 --oc fimo_out_20 --bgfile ./background --motif RGAAGAA dreme_out/dreme.xml ./bZIP_intersect_summits.fasta
Settings:
output_directory = fimo_out_20 | MEME file name = dreme_out/dreme.xml | sequence file name = ./bZIP_intersect_summits.fasta |
background file name = ./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.