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 full_genome.fasta
Database contains 1 sequences, 26041 residues
MOTIFS motifs.meme (DNA)
MOTIF | WIDTH | BEST POSSIBLE MATCH |
---|---|---|
1 | 8 | GCAATAAA |
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 | GCARKAMA | full_genome | + | 22651 | 22658 | 2.87e-05 | 0.536 | GCAGTACA |
1 | GCARKAMA | full_genome | + | 23852 | 23859 | 4.49e-05 | 0.536 | GCAAGACA |
1 | GCARKAMA | full_genome | + | 24831 | 24838 | 6.17e-05 | 0.536 | GCAGGAAA |
1 | GCARKAMA | full_genome | + | 3510 | 3517 | 0.000121 | 0.787 | GCAAGAAA |
1 | GCARKAMA | full_genome | + | 19728 | 19735 | 0.000202 | 0.97 | GCATGACA |
1 | GCARKAMA | full_genome | + | 19188 | 19195 | 0.000265 | 0.97 | GCACTACA |
1 | GCARKAMA | full_genome | + | 19987 | 19994 | 0.0003 | 0.97 | GCAGTATA |
1 | GCARKAMA | full_genome | + | 21274 | 21281 | 0.0003 | 0.97 | GCAGTATA |
1 | GCARKAMA | full_genome | + | 10839 | 10846 | 0.000335 | 0.97 | GCAAAACA |
1 | GCARKAMA | full_genome | + | 3703 | 3710 | 0.000529 | 1 | GCACTAAA |
1 | GCARKAMA | full_genome | + | 15780 | 15787 | 0.000529 | 1 | GCATTAAA |
1 | GCARKAMA | full_genome | + | 26026 | 26033 | 0.000574 | 1 | GCAAAAAA |
1 | GCARKAMA | full_genome | + | 1312 | 1319 | 0.000676 | 1 | GCAGGACT |
1 | GCARKAMA | full_genome | + | 25408 | 25415 | 0.000676 | 1 | GCAGGACC |
1 | GCARKAMA | full_genome | + | 6148 | 6155 | 0.000794 | 1 | GCAGTTCA |
1 | GCARKAMA | full_genome | + | 13034 | 13041 | 0.000794 | 1 | GCAGTACC |
1 | GCARKAMA | full_genome | + | 15940 | 15947 | 0.000794 | 1 | GCAGTACT |
1 | GCARKAMA | full_genome | + | 20219 | 20226 | 0.000794 | 1 | GCAGTGCA |
1 | GCARKAMA | full_genome | + | 21704 | 21711 | 0.000794 | 1 | GCTGTACA |
1 | GCARKAMA | full_genome | + | 20605 | 20612 | 0.000918 | 1 | GCAAGCCA |
Command line:
fimo --oc . --verbosity 1 --thresh 0.001 --norc motifs.meme full_genome.fasta
Settings:
output_directory = . | MEME file name = motifs.meme | sequence file name = full_genome.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 = 0.001 | 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.