Database and Motifs | High-scoring Motif Occurences | Debugging Information | Results in TSV Format | Results in GFF3 Format |
FIMO version 5.5.1, (Release date: Sun Jan 29 10:33:12 2023 -0800)
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 NEGATIVE.fasta
Database contains 3136 sequences, 78400 residues
MOTIFS meme_out/meme.txt (DNA)
MOTIF | WIDTH | BEST POSSIBLE MATCH |
---|---|---|
WWYWVAGGAR | 10 | ATTTGAGGAG |
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 |
---|---|---|---|---|---|---|---|---|
WWYWVAGGAR | MEME-1 | Seq1396 | - | 8 | 17 | 3.83e-06 | 0.385 | ATCAGAGGAG |
WWYWVAGGAR | MEME-1 | Seq1973 | + | 14 | 23 | 1.3e-05 | 0.652 | TTTTCAGGAG |
WWYWVAGGAR | MEME-1 | Seq534 | - | 6 | 15 | 4.04e-05 | 1 | AATACAGGAG |
WWYWVAGGAR | MEME-1 | Seq2077 | + | 12 | 21 | 4.6e-05 | 1 | TATTCAGGAG |
WWYWVAGGAR | MEME-1 | Seq1089 | + | 15 | 24 | 5.24e-05 | 1 | ATCGCAGGAG |
WWYWVAGGAR | MEME-1 | Seq549 | + | 13 | 22 | 6.04e-05 | 1 | ATTTCAGGAA |
WWYWVAGGAR | MEME-1 | Seq483 | + | 9 | 18 | 0.000117 | 1 | TTGTCAGGAG |
WWYWVAGGAR | MEME-1 | Seq2241 | + | 9 | 18 | 0.000123 | 1 | AGTTCAGGAG |
WWYWVAGGAR | MEME-1 | Seq901 | - | 8 | 17 | 0.000133 | 1 | ATTTCAGGAT |
WWYWVAGGAR | MEME-1 | Seq708 | + | 5 | 14 | 0.000137 | 1 | GACTCAGGAG |
WWYWVAGGAR | MEME-1 | Seq2048 | - | 11 | 20 | 0.000137 | 1 | TGTTGAGGAG |
WWYWVAGGAR | MEME-1 | Seq2971 | + | 14 | 23 | 0.000212 | 1 | AACCCAGGAG |
WWYWVAGGAR | MEME-1 | Seq632 | + | 2 | 11 | 0.000223 | 1 | GTTAGAGGAA |
WWYWVAGGAR | MEME-1 | Seq1413 | + | 10 | 19 | 0.000225 | 1 | TAATCAGGAG |
WWYWVAGGAR | MEME-1 | Seq2922 | + | 11 | 20 | 0.000237 | 1 | GCCACAGGAG |
WWYWVAGGAR | MEME-1 | Seq1554 | - | 5 | 14 | 0.000283 | 1 | TATAGAGGAA |
WWYWVAGGAR | MEME-1 | Seq1092 | - | 7 | 16 | 0.000283 | 1 | GTGACAGGAG |
WWYWVAGGAR | MEME-1 | Seq1737 | - | 5 | 14 | 0.000322 | 1 | AACAGCGGAG |
WWYWVAGGAR | MEME-1 | Seq1507 | + | 11 | 20 | 0.000348 | 1 | TTATCAGGAA |
WWYWVAGGAR | MEME-1 | Seq1812 | - | 6 | 15 | 0.000348 | 1 | TATCCAGGAG |
WWYWVAGGAR | MEME-1 | Seq1011 | - | 16 | 25 | 0.000348 | 1 | ATGTCAGGAA |
WWYWVAGGAR | MEME-1 | Seq45 | + | 12 | 21 | 0.00035 | 1 | ACTGGAGGAG |
WWYWVAGGAR | MEME-1 | Seq2405 | - | 12 | 21 | 0.000393 | 1 | TACAGAGGAT |
WWYWVAGGAR | MEME-1 | Seq1050 | + | 16 | 25 | 0.000401 | 1 | ATTCCAGGAA |
WWYWVAGGAR | MEME-1 | Seq2161 | - | 7 | 16 | 0.000439 | 1 | ATATCAGGAT |
WWYWVAGGAR | MEME-1 | Seq1452 | - | 11 | 20 | 0.000439 | 1 | TTAACAGGAA |
WWYWVAGGAR | MEME-1 | Seq1866 | + | 9 | 18 | 0.00045 | 1 | TATTCAGGAT |
WWYWVAGGAR | MEME-1 | Seq695 | - | 14 | 23 | 0.000474 | 1 | CTTCCAGGAG |
WWYWVAGGAR | MEME-1 | Seq2440 | + | 4 | 13 | 0.000491 | 1 | AGCACAGGAA |
WWYWVAGGAR | MEME-1 | Seq2141 | - | 5 | 14 | 0.000503 | 1 | ATTGGAGGAT |
WWYWVAGGAR | MEME-1 | Seq2183 | + | 15 | 24 | 0.000503 | 1 | ACTTGAGGAT |
WWYWVAGGAR | MEME-1 | Seq2028 | + | 5 | 14 | 0.00056 | 1 | ATTTCCGGAA |
WWYWVAGGAR | MEME-1 | Seq926 | + | 15 | 24 | 0.000565 | 1 | ATCACCGGAA |
WWYWVAGGAR | MEME-1 | Seq2161 | - | 16 | 25 | 0.000611 | 1 | TGCACAGGAA |
WWYWVAGGAR | MEME-1 | Seq1725 | - | 14 | 23 | 0.00062 | 1 | ATCTGCGGAT |
WWYWVAGGAR | MEME-1 | Seq2288 | + | 4 | 13 | 0.000676 | 1 | TTCACCGGAA |
WWYWVAGGAR | MEME-1 | Seq1785 | + | 5 | 14 | 0.000705 | 1 | AAATCAGGAA |
WWYWVAGGAR | MEME-1 | Seq685 | + | 6 | 15 | 0.000705 | 1 | AAATCAGGAA |
WWYWVAGGAR | MEME-1 | Seq2425 | - | 10 | 19 | 0.000705 | 1 | AAATCAGGAA |
WWYWVAGGAR | MEME-1 | Seq2099 | + | 2 | 11 | 0.000711 | 1 | GTATCAGGAA |
WWYWVAGGAR | MEME-1 | Seq2064 | + | 7 | 16 | 0.00072 | 1 | TTTAAAGGAT |
WWYWVAGGAR | MEME-1 | Seq840 | - | 14 | 23 | 0.00072 | 1 | TGCTCAGGAT |
WWYWVAGGAR | MEME-1 | Seq639 | + | 5 | 14 | 0.000746 | 1 | GATTGAGGAT |
WWYWVAGGAR | MEME-1 | Seq2755 | + | 15 | 24 | 0.000781 | 1 | TTTTCAGGAC |
WWYWVAGGAR | MEME-1 | Seq3110 | + | 3 | 12 | 0.000804 | 1 | GCCGCAGGAG |
WWYWVAGGAR | MEME-1 | Seq1989 | + | 12 | 21 | 0.000816 | 1 | AAGTCAGGAA |
WWYWVAGGAR | MEME-1 | Seq16 | - | 16 | 25 | 0.000832 | 1 | TGTAGAGGAT |
WWYWVAGGAR | MEME-1 | Seq2608 | + | 9 | 18 | 0.000841 | 1 | GCCACAGGAA |
WWYWVAGGAR | MEME-1 | Seq2854 | - | 16 | 25 | 0.000841 | 1 | TAAAGAGGAA |
WWYWVAGGAR | MEME-1 | Seq781 | - | 10 | 19 | 0.000855 | 1 | GATTCCGGAG |
WWYWVAGGAR | MEME-1 | Seq1961 | - | 13 | 22 | 0.000886 | 1 | GCGTCAGGAG |
WWYWVAGGAR | MEME-1 | Seq2554 | - | 11 | 20 | 0.000927 | 1 | CAGAGAGGAG |
WWYWVAGGAR | MEME-1 | Seq1728 | - | 7 | 16 | 0.000932 | 1 | GTGCCAGGAG |
WWYWVAGGAR | MEME-1 | Seq1872 | + | 11 | 20 | 0.000944 | 1 | ACATCAGGAA |
WWYWVAGGAR | MEME-1 | Seq1549 | + | 15 | 24 | 0.000966 | 1 | CTATCAGGAA |
WWYWVAGGAR | MEME-1 | Seq1241 | + | 3 | 12 | 0.00097 | 1 | AACGCAGGAT |
WWYWVAGGAR | MEME-1 | Seq1146 | - | 11 | 20 | 0.000983 | 1 | AATTGCGGAA |
WWYWVAGGAR | MEME-1 | Seq813 | + | 2 | 11 | 0.000993 | 1 | GGCACAGGAA |
WWYWVAGGAR | MEME-1 | Seq707 | + | 2 | 11 | 0.000993 | 1 | GGCACAGGAA |
Command line:
fimo --oc fimo_neg -thresh 0.001 meme_out/meme.txt NEGATIVE.fasta
Settings:
output_directory = fimo_neg | MEME file name = meme_out/meme.txt | sequence file name = NEGATIVE.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 = 0.001 | pseudocount = 0.1 |
alpha = 1 | verbosity = 2 |
This information can be useful in the event you wish to report a problem with the FIMO software.