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://alternate.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 species.fasta
Database contains 1 sequences, 29934 residues
MOTIFS motifs.meme (DNA)
MOTIF | WIDTH | BEST POSSIBLE MATCH |
---|---|---|
1 | 23 | CTATTATTCTCAACTAAACGAAA |
Random model letter frequencies (--nrdb--):
A 0.282 C 0.222 G 0.229 T 0.267
Motif ID | Alt ID | Sequence Name | Strand | Start | End | p-value | q-value | Matched Sequence |
---|---|---|---|---|---|---|---|---|
1 | KF430201.1 | + | 21793 | 21815 | 4.77e-06 | 0.111 | CATTAAATCTAAACTATGTTAAT | |
1 | KF430201.1 | + | 48 | 70 | 9.78e-06 | 0.113 | CATTAAATCTAAACTTTTTAAAC | |
1 | KF430201.1 | + | 2862 | 2884 | 3.96e-05 | 0.225 | ATTTTTAAATAAACTTAATGATA | |
1 | KF430201.1 | + | 27062 | 27084 | 4.23e-05 | 0.225 | CATTAAATCTAAACTTTATTTAT | |
1 | KF430201.1 | + | 23255 | 23277 | 4.86e-05 | 0.225 | CTTTTTATCTGATTTTAATAATG | |
1 | KF430201.1 | + | 22298 | 22320 | 7.89e-05 | 0.305 | CTATTTTTATTAATTATTCTAAG |
Command line:
fimo --oc . --verbosity 1 --thresh 1.0E-4 --norc motifs.meme species.fasta
Settings:
output_directory = . | MEME file name = motifs.meme | sequence file name = species.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 = false | 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.