Database and Motifs | High-scoring Motif Occurences | Debugging Information | Results in TSV Format | Results in GFF3 Format |
FIMO version 5.1.1, (Release date: Wed Jan 29 15:00:42 2020 -0800)
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 sequence_3.fasta
Database contains 1 sequences, 28035 residues
MOTIFS motifs.meme (DNA)
MOTIF | WIDTH | BEST POSSIBLE MATCH |
---|---|---|
1 | 11 | CTCAACTAAAC |
Random model letter frequencies (--nrdb--):
A 0.275 C 0.225 G 0.225 T 0.275
Motif ID | Alt ID | Sequence Name | Strand | Start | End | p-value | q-value | Matched Sequence |
---|---|---|---|---|---|---|---|---|
1 | NC_022103.1 | + | 27525 | 27535 | 7.98e-06 | 0.293 | ATCAACTAAAC | |
1 | NC_022103.1 | - | 16039 | 16049 | 1.33e-05 | 0.293 | CTCAACTTAAC | |
1 | NC_022103.1 | + | 26216 | 26226 | 1.66e-05 | 0.293 | ATAAACTAAAC | |
1 | NC_022103.1 | - | 7208 | 7218 | 3.38e-05 | 0.372 | CTAAAATAAAC | |
1 | NC_022103.1 | + | 7714 | 7724 | 4.23e-05 | 0.372 | CACAACTATAC | |
1 | NC_022103.1 | + | 25021 | 25031 | 4.23e-05 | 0.372 | CACAACTACAC | |
1 | NC_022103.1 | + | 23180 | 23190 | 5.87e-05 | 0.397 | CTCAACCAAAT | |
1 | NC_022103.1 | - | 22050 | 22060 | 6.02e-05 | 0.397 | TTAAAATAAAC | |
1 | NC_022103.1 | - | 2311 | 2321 | 7.68e-05 | 0.45 | CAAAACTAACC | |
1 | NC_022103.1 | + | 26221 | 26231 | 9.68e-05 | 0.511 | CTAAACAAAAT |
Command line:
fimo --oc . --verbosity 1 --thresh 1.0E-4 motifs.meme sequence_3.fasta
Settings:
output_directory = . | MEME file name = motifs.meme | sequence file name = sequence_3.fasta |
background file name = --nrdb-- | alphabet = DNA | max stored scores = 100000 |
allow clobber = true | compute q-values = true | parse genomic coord. = false |
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.