Database and Motifs | High-scoring Motif Occurences | Debugging Information | Results in TSV Format | Results in GFF3 Format |
FIMO version 5.5.0, (Release date: Wed Sep 7 14:18:26 2022 -0700)
For further information on how to interpret these results please access https://meme-suite.org/meme/doc/fimo-output-format.html.
To get a copy of the FIMO software please access https://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 Clq2pp.fasta
Database contains 228 sequences, 3416 residues
MOTIFS meme_out/meme.xml (Protein)
MOTIF | WIDTH | BEST POSSIBLE MATCH |
---|---|---|
SKDLGYDYS | 9 | SKDLGYDYS |
METSGCAPA | 9 | METSGCAPA |
LCKGGRCWG | 9 | LCAGSRCWG |
YTKHQIRQMEMK | 12 | YTKHQIRQMEMK |
YTKVVHYRKWI | 11 | YTKVVHYRKWI |
DNGDPLNNT | 9 | DNGDPLNNT |
GNMRAILIDWLV | 12 | GNMRAILIDWLV |
FSKEEWEKMKA | 11 | FSKEEWEKMKA |
YWKFDPVKV | 9 | YWKFDPVKV |
WTGPNCERK | 9 | WTGPNCERK |
Random model letter frequencies (./background):
A 0.070 C 0.029 D 0.047 E 0.065 F 0.030 G 0.071 H 0.023 I 0.034 K 0.046
L 0.098 M 0.022 N 0.033 P 0.087 Q 0.036 R 0.066 S 0.083 T 0.059 V 0.056
W 0.016 Y 0.028
Motif ID | Alt ID | Sequence Name | Strand | Start | End | p-value | q-value | Matched Sequence |
---|---|---|---|---|---|---|---|---|
METSGCAPA | MEME-2 | METSGCAPAEEDLCQ | + | 1 | 9 | 6.15e-12 | 2.43e-09 | METSGCAPA |
METSGCAPA | MEME-2 | SPMETSGCAPAEEDL | + | 3 | 11 | 6.15e-12 | 2.43e-09 | METSGCAPA |
METSGCAPA | MEME-2 | SPSPMETSGCAPAEE | + | 5 | 13 | 6.15e-12 | 2.43e-09 | METSGCAPA |
METSGCAPA | MEME-2 | TASPSPMETSGCAPA | + | 7 | 15 | 6.15e-12 | 2.43e-09 | METSGCAPA |
METSGCAPA | MEME-2 | CWMIDSECRPRFREL | + | 3 | 11 | 3.08e-10 | 8.1e-08 | MIDSECRPR |
METSGCAPA | MEME-2 | VKCWMIDSECRPRFR | + | 5 | 13 | 3.08e-10 | 8.1e-08 | MIDSECRPR |
METSGCAPA | MEME-2 | GMSETAPAAPAAAPP | + | 3 | 11 | 1.66e-08 | 3.74e-06 | SETAPAAPA |
Command line:
fimo --parse-genomic-coord --verbosity 1 --oc fimo_out_2 --bgfile ./background --motif METSGCAPA meme_out/meme.xml Clq2pp.fasta
Settings:
output_directory = fimo_out_2 | MEME file name = meme_out/meme.xml | sequence file name = Clq2pp.fasta |
background file name = ./background | alphabet = Protein | max stored scores = 100000 |
allow clobber = true | compute q-values = true | parse genomic coord. = true |
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.