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 bigclq.txt
Database contains 424 sequences, 6316 residues
MOTIFS meme_out/meme.xml (Protein)
MOTIF | WIDTH | BEST POSSIBLE MATCH |
---|---|---|
GSGSGSGMA | 9 | GSGSGSGMA |
HEPENQDATYSW | 12 | HEPENQDATYSW |
LEPSIPWKS | 9 | LEPSIPWKS |
LVCNGVLQG | 9 | LVCNGVLQG |
DDIEKWF | 7 | DDIEKWF |
KIFYVYMKR | 9 | KIFYVYMKR |
LKVEDPFYW | 9 | LKVEDPFYW |
LSYTWDFGD | 9 | LSYTWDFGD |
QASRIWS | 7 | QASRIWS |
MPTPEATGMTPE | 12 | MSTPESTGMTPA |
NWCMQI | 6 | NWCMQI |
KLLMEKE | 7 | KLLMEKE |
IHHNTHLCF | 9 | IHHNTHLCF |
WLGVSRQLR | 9 | WLGVSRQLR |
MHNSEISKR | 9 | MHNSEISKR |
TLQGLGISW | 9 | TLQGLGISW |
HCWGPGPTQCVN | 12 | HCWGPGPTQCVN |
EPEPVKEEK | 9 | EPEPVKEEK |
RELDLHF | 7 | RGLDLHF |
CYHPDGGPVPI | 11 | EIFPDGGPVPS |
KPTTSEKIH | 9 | KPTTSEKIH |
TPTLQHY | 7 | TPTLQHY |
QTYMNGSPTYSM | 12 | QTYMNGSPTYSM |
TGDENFAJPYW | 11 | TGLESFALPMW |
CQGGLPK | 7 | CQGGLPK |
LGASLYLGW | 9 | LGASLYLGW |
TAADMAAQITKR | 12 | TAADMAAQITKR |
ANKEILDEAYVM | 12 | ANKEILDEAYVM |
ICTIDVY | 7 | ICTIDVY |
IPEEDLLKK | 9 | ASEEDLLKK |
Random model letter frequencies (./background):
A 0.067 C 0.020 D 0.043 E 0.065 F 0.025 G 0.087 H 0.015 I 0.038 K 0.061
L 0.108 M 0.030 N 0.028 P 0.081 Q 0.034 R 0.043 S 0.096 T 0.047 V 0.049
W 0.034 Y 0.029
Motif ID | Alt ID | Sequence Name | Strand | Start | End | p-value | q-value | Matched Sequence |
---|---|---|---|---|---|---|---|---|
LVCNGVLQG | MEME-4 | LVCNGVLQGITSWGS | + | 1 | 9 | 2.14e-11 | 2.07e-08 | LVCNGVLQG |
LVCNGVLQG | MEME-4 | GPLVCNGVLQGITSW | + | 3 | 11 | 2.14e-11 | 2.07e-08 | LVCNGVLQG |
LVCNGVLQG | MEME-4 | GDSGGPLVCNGVLQG | + | 7 | 15 | 2.14e-11 | 2.07e-08 | LVCNGVLQG |
LVCNGVLQG | MEME-4 | QVCTGTDMKLRLPAS | + | 1 | 9 | 8.11e-10 | 3.92e-07 | QVCTGTDMK |
LVCNGVLQG | MEME-4 | STQVCTGTDMKLRLP | + | 3 | 11 | 8.11e-10 | 3.92e-07 | QVCTGTDMK |
LVCNGVLQG | MEME-4 | AASTQVCTGTDMKLR | + | 5 | 13 | 8.11e-10 | 3.92e-07 | QVCTGTDMK |
LVCNGVLQG | MEME-4 | VVVLGVVFGILIKRR | + | 1 | 9 | 3.49e-08 | 1.13e-05 | VVVLGVVFG |
LVCNGVLQG | MEME-4 | GILLVVVLGVVFGIL | + | 5 | 13 | 3.49e-08 | 1.13e-05 | VVVLGVVFG |
LVCNGVLQG | MEME-4 | VVGILLVVVLGVVFG | + | 7 | 15 | 3.49e-08 | 1.13e-05 | VVVLGVVFG |
LVCNGVLQG | MEME-4 | VTLCNGTYEGLLRRN | + | 2 | 10 | 8.61e-08 | 2.27e-05 | TLCNGTYEG |
LVCNGVLQG | MEME-4 | YNHLVTLCNGTYEGL | + | 6 | 14 | 8.61e-08 | 2.27e-05 | TLCNGTYEG |
LVCNGVLQG | MEME-4 | QMTFGRLQGISPKIM | + | 1 | 9 | 1.52e-07 | 3.34e-05 | QMTFGRLQG |
LVCNGVLQG | MEME-4 | RPQMTFGRLQGISPK | + | 3 | 11 | 1.52e-07 | 3.34e-05 | QMTFGRLQG |
LVCNGVLQG | MEME-4 | ADGLAVIGVLMK | + | 4 | 12 | 1.73e-07 | 3.34e-05 | LAVIGVLMK |
LVCNGVLQG | MEME-4 | ASKADGLAVIGVLMK | + | 7 | 15 | 1.73e-07 | 3.34e-05 | LAVIGVLMK |
LVCNGVLQG | MEME-4 | TLLVVMGTLVALVGL | + | 3 | 11 | 2.1e-07 | 3.59e-05 | LVVMGTLVA |
LVCNGVLQG | MEME-4 | GWPTTLLVVMGTLVA | + | 7 | 15 | 2.1e-07 | 3.59e-05 | LVVMGTLVA |
LVCNGVLQG | MEME-4 | GRNECDVCTDQLFGA | + | 6 | 14 | 2.99e-07 | 4.82e-05 | DVCTDQLFG |
LVCNGVLQG | MEME-4 | VIWVNNTIINGSQVW | + | 3 | 11 | 2.02e-06 | 0.000308 | WVNNTIING |
LVCNGVLQG | MEME-4 | ERPPLENRVLTGWGL | + | 4 | 12 | 7.26e-06 | 0.00105 | PLENRVLTG |
LVCNGVLQG | MEME-4 | ETFIKNIIIQDCMWS | + | 3 | 11 | 8.61e-06 | 0.00119 | FIKNIIIQD |
Command line:
fimo --parse-genomic-coord --verbosity 1 --oc fimo_out_5 --bgfile ./background --motif LVCNGVLQG meme_out/meme.xml bigclq.txt
Settings:
output_directory = fimo_out_5 | MEME file name = meme_out/meme.xml | sequence file name = bigclq.txt |
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.