| Database and Motifs | High-scoring Motif Occurrences | Debugging Information |
FIMO version 4.10.0, (Release date: Wed May 21 10:35:36 2014 +1000)
For further information on how to interpret these results or to get a copy of the FIMO software please access http://meme.nbcr.net
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
Dynamic_Sex-independent_Output/Dynamic_Sex-independent.fa
Database contains
1624
sequences,
812000
residues
MOTIFS ./JASPAR_CORE_2014_vertebrates.meme (nucleotide)
| MOTIF | WIDTH | BEST POSSIBLE MATCH |
|---|---|---|
| MA0004.1 | 6 | CACGTG |
| MA0006.1 | 6 | TGCGTG |
| MA0009.1 | 11 | CTAGGTGTGAA |
| MA0017.1 | 14 | TGACCTTTGAACCT |
| MA0019.1 | 12 | AGATGCAATCCC |
| MA0025.1 | 11 | TTATGTAACAT |
| MA0027.1 | 11 | AAGTAGTGTTC |
| MA0028.1 | 10 | GAGCCGGAAG |
| MA0029.1 | 14 | AAGATAAGATAATA |
| MA0030.1 | 14 | CAAACGTAAACAAT |
| MA0031.1 | 8 | GTAAACAT |
| MA0032.1 | 8 | GGTAAGTA |
| MA0033.1 | 8 | TATACATA |
| MA0038.1 | 10 | CAAATCACTG |
| MA0040.1 | 11 | TATTGTTTATT |
| MA0041.1 | 12 | GAATGTTTGTTT |
| MA0042.1 | 12 | GGATGTTTGTTT |
| MA0043.1 | 12 | GGTTACGTAATT |
| MA0046.1 | 14 | GGTTAATAATTAAC |
| MA0048.1 | 12 | GCGCAGCTGCGT |
| MA0051.1 | 18 | GGAAAGTGAAAGCAAAAC |
| MA0056.1 | 6 | TGGGGA |
| MA0057.1 | 10 | GTAGGGGGAA |
| MA0059.1 | 11 | GAGCACGTGGT |
| MA0063.1 | 7 | TTAATTG |
| MA0066.1 | 20 | GTAGGTCACGGTGACCTACT |
| MA0067.1 | 8 | AGTCACGG |
| MA0068.1 | 30 | GAAAAATTTCCAATACTCCACTCCCCCCCC |
| MA0069.1 | 14 | TTCACGCATGAGTT |
| MA0070.1 | 12 | CCATCAATCAAA |
| MA0071.1 | 10 | ATCAAGGTCA |
| MA0072.1 | 14 | TATAAGTAGGTCAA |
| MA0073.1 | 20 | CCCCAAACCACCCCCCCCCA |
| MA0074.1 | 15 | GGGTCATCGAGTTCA |
| MA0075.1 | 5 | AATTA |
| MA0077.1 | 9 | CCATTGTTC |
| MA0078.1 | 9 | TTCATTGTC |
| MA0081.1 | 7 | AGAGGAA |
| MA0084.1 | 9 | GTAAACAAT |
| MA0087.1 | 7 | ATTGTTT |
| MA0088.1 | 20 | GATTTCCCATAATGCCTTGC |
| MA0089.1 | 6 | CATGAC |
| MA0090.1 | 12 | CACATTCCTCCG |
| MA0091.1 | 12 | CGACCATCTGTT |
| MA0092.1 | 10 | GGTCTGGCAT |
| MA0101.1 | 10 | GGGGATTTCC |
| MA0107.1 | 10 | GGGAATTTCC |
| MA0108.2 | 15 | GTATAAAAGGCGGGG |
| MA0109.1 | 10 | AACCTTATAT |
| MA0111.1 | 11 | AGGGTAACAGC |
| MA0115.1 | 17 | AAAGGTCAAAGGTCAAC |
| MA0116.1 | 15 | GGCACCCAGGGGTGC |
| MA0117.1 | 8 | GCTGACGG |
| MA0119.1 | 14 | TGGCACCATGCCAA |
| MA0122.1 | 9 | TTAAGTGGA |
| MA0124.1 | 7 | ATACTTA |
| MA0125.1 | 8 | TAATTGGT |
| MA0130.1 | 6 | ATCCAC |
| MA0131.1 | 10 | TAACGTCCGC |
| MA0132.1 | 6 | CTAATT |
| MA0133.1 | 7 | ACAACAC |
| MA0135.1 | 13 | AAATTAATTAATC |
| MA0136.1 | 9 | TACTTCCTT |
| MA0139.1 | 19 | TGGCCACCAGGGGGCGCTA |
| MA0142.1 | 15 | CTTTGTTATGCAAAT |
| MA0149.1 | 18 | GGAAGGAAGGAAGGAAGG |
| MA0062.2 | 11 | CCGGAAGTGGC |
| MA0039.2 | 10 | TGGGTGGGGC |
| MA0138.2 | 21 | TTCAGCACCATGGACAGCGCC |
| MA0002.2 | 11 | GTCTGTGGTTT |
| MA0047.2 | 12 | TGTTTACTTAGG |
| MA0112.2 | 20 | GGCCCAGGTCACCCTGACCT |
| MA0065.2 | 15 | GTAGGGCAAAGGTCA |
| MA0151.1 | 6 | ATTAAA |
| MA0152.1 | 7 | TTTTCCA |
| MA0153.1 | 12 | TTAATATTTAAC |
| MA0155.1 | 12 | TGTCAGGGGGCG |
| MA0156.1 | 8 | CAGGAAAT |
| MA0157.1 | 8 | TGTAAACA |
| MA0158.1 | 8 | CACTAATT |
| MA0159.1 | 17 | AGGTCATGGAGAGGTCA |
| MA0160.1 | 8 | AAGGTCAC |
| MA0161.1 | 6 | TTGGCA |
| MA0163.1 | 14 | GGGGCCCAAGGGGG |
| MA0164.1 | 7 | CAAGCTT |
| MA0018.2 | 8 | TGACGTCA |
| MA0099.2 | 7 | TGACTCA |
| MA0259.1 | 8 | GGACGTGC |
| MA0442.1 | 6 | CTTTGT |
| MA0141.2 | 12 | AGGTCAAGGTCA |
| MA0145.2 | 14 | CCAGTTCAAACCAG |
| MA0146.2 | 14 | GGGGCCGAGGCCTG |
| MA0461.1 | 8 | CAGATGGC |
| MA0462.1 | 11 | GAAATGACTCA |
| MA0463.1 | 14 | TTTCCTAGAAAGCA |
| MA0464.1 | 11 | CTCACGTGCAC |
| MA0465.1 | 11 | AAGCCATAAAA |
| MA0466.1 | 11 | TATTGCACAAT |
| MA0467.1 | 11 | AAGAGGATTAG |
| MA0468.1 | 11 | TAATTTAATCA |
| MA0469.1 | 15 | CTCCCGCCCCCACTC |
| MA0470.1 | 11 | GGGCGGGAAGG |
| MA0471.1 | 11 | GGGCGGGAAGG |
| MA0472.1 | 15 | CCCCCGCCCACGCAC |
| MA0473.1 | 13 | GAACCAGGAAGTG |
| MA0474.1 | 11 | ACAGGAAGTGG |
| MA0475.1 | 11 | ACAGGAAGTGG |
| MA0476.1 | 11 | TGTGACTCATT |
| MA0477.1 | 11 | GGTGACTCATG |
| MA0478.1 | 11 | GGATGACTCAT |
| MA0479.1 | 11 | TCCAATCCACA |
| MA0480.1 | 11 | TCCTGTTTACA |
| MA0481.1 | 15 | CAAAAGTAAACAAAG |
| MA0482.1 | 11 | TCTTATCTCCC |
| MA0483.1 | 11 | AAATCACAGCA |
| MA0484.1 | 15 | AGAGTCCAAAGTCCA |
| MA0485.1 | 13 | GGCCATAAATCAC |
| MA0486.1 | 15 | CTTCTAGAAGGTTCT |
| MA0488.1 | 13 | AAGATGATGTCAT |
| MA0489.1 | 14 | AGGAGATGACTCAT |
| MA0490.1 | 11 | GGATGACTCAT |
| MA0491.1 | 11 | GGTGACTCATC |
| MA0492.1 | 15 | AAAGATGATGTCATC |
| MA0493.1 | 11 | GGCCACACCCA |
| MA0494.1 | 19 | TGACCTAAAGTAACCTCTG |
| MA0495.1 | 18 | GCTGAGTCAGCAATTTTT |
| MA0496.1 | 15 | CTGAGTCAGCAATTT |
| MA0497.1 | 15 | ATGCTAAAAATAGAA |
| MA0498.1 | 15 | AGCTGTCACTCACCT |
| MA0499.1 | 13 | TGCAGCTGTCCCT |
| MA0500.1 | 11 | GACAGCTGCAG |
| MA0501.1 | 15 | ATGACTCAGCAATTT |
| MA0502.1 | 15 | AAATGGACCAATCAG |
| MA0503.1 | 11 | AGCCACTCAAG |
| MA0504.1 | 15 | AGGGGTCAGAGGTCA |
| MA0505.1 | 15 | AAGTTCAAGGTCAGC |
| MA0506.1 | 11 | GCGCCTGCGCA |
| MA0507.1 | 13 | TTCATTTGCATAT |
| MA0508.1 | 15 | AGAAAGTGAAAGTGA |
| MA0509.1 | 14 | GTTGCCATGGCAAC |
| MA0510.1 | 15 | CTCCCTGGCAACAGC |
| MA0511.1 | 15 | GGGGTTTGTGGTTTG |
| MA0512.1 | 11 | CAAAGGTCAGA |
| MA0513.1 | 13 | CTGTCTGTCACCT |
| MA0514.1 | 10 | CCTTTGTTTT |
| MA0515.1 | 10 | CCATTGTTTT |
| MA0516.1 | 15 | GCCCCGCCCCCTCCC |
| MA0517.1 | 15 | TCAGTTTCATTTTCC |
| MA0518.1 | 14 | TTTCCAGGAAATGG |
| MA0519.1 | 11 | ATTTCCAAGAA |
| MA0520.1 | 15 | CATTTCCTGAGAAAT |
| MA0521.1 | 11 | AACAGCTGCAG |
| MA0522.1 | 11 | CACAGCTGCAG |
| MA0523.1 | 14 | AAAGATCAAAGGAA |
| MA0524.1 | 15 | CATGGCCCCAGGGCA |
| MA0525.1 | 20 | AGACATGCCCAGACATGCCC |
| MA0526.1 | 11 | GTCATGTGACC |
| MA0527.1 | 15 | CTCTCGCGAGATCTG |
| MA0528.1 | 21 | GGAGGAGGAGGGGGAGGAGGA |
| MA0007.2 | 15 | AAGAACAGAATGTTC |
| MA0102.3 | 11 | ATTGCACAATA |
| MA0024.2 | 11 | CGGGCGGGAGG |
| MA0154.2 | 11 | GTCCCCAGGGA |
| MA0162.2 | 14 | CCCCCGCCCCCGCC |
| MA0076.2 | 11 | CCACTTCCGGC |
| MA0258.2 | 15 | AGGTCACCCTGACCT |
| MA0098.2 | 15 | CCCACTTCCTGTCTC |
| MA0148.3 | 15 | TCCATGTTTACTTTG |
| MA0035.3 | 11 | TTCTTATCTGT |
| MA0036.2 | 14 | AGATTCTTATCTGT |
| MA0037.2 | 8 | AGATAAGA |
| MA0114.2 | 15 | CTGGACTTTGGACTC |
| MA0050.2 | 21 | TTTTACTTTCACTTTCACTTT |
| MA0058.2 | 10 | AAGCACATGG |
| MA0052.2 | 15 | AGCTAAAAATAGCAT |
| MA0100.2 | 10 | CCAACTGCCA |
| MA0147.2 | 10 | CCATGTGCTT |
| MA0104.3 | 8 | GCCACGTG |
| MA0150.2 | 15 | CAGCATGACTCAGCA |
| MA0105.3 | 11 | GGGAATTTCCC |
| MA0060.2 | 18 | AGAGTGCTGATTGGTCCA |
| MA0014.2 | 19 | GAGGGCAGCCAAGCGTGAC |
| MA0080.3 | 15 | AAAAAGAGGAAGTGA |
| MA0143.3 | 8 | CCTTTGTT |
| MA0079.3 | 11 | GCCCCGCCCCC |
| MA0083.2 | 18 | CATGCCCAAATAAGGCAA |
| MA0137.3 | 11 | TTTCCAGGAAA |
| MA0144.2 | 11 | CTTCTGGGAAA |
| MA0140.2 | 18 | CTTATCTGTGAGGAGCAG |
| MA0003.2 | 15 | CATTGCCTCAGGGCA |
| MA0106.2 | 15 | ACATGCCCAGACATG |
| MA0093.2 | 11 | GCCACGTGACC |
| MA0095.2 | 12 | CAAGATGGCGGC |
| MA0103.2 | 9 | CCTCACCTG |
| MA0591.1 | 15 | AGGATGACTCAGCAC |
| MA0592.1 | 11 | CCAAGGTCACA |
| MA0593.1 | 11 | AAGTAAACAAA |
| MA0594.1 | 11 | GCCATAAATCA |
| MA0595.1 | 10 | ATCACCCCAC |
| MA0596.1 | 10 | ATGGGGTGAT |
| MA0597.1 | 9 | CTGCCCGCA |
| MA0598.1 | 8 | CCTTCCTG |
| MA0599.1 | 10 | GCCCCGCCCC |
| MA0600.1 | 19 | GTTGCCATGGCAACCGCGG |
| MA0113.2 | 15 | AGAACAGAATGTTCT |
Random model letter frequencies
(from Dynamic_Sex-independent_Output/background):
A 0.269 C 0.231 G 0.231 T 0.269
| Motif | Sequence Name | Strand | Start | End | p-value | Matched Sequence |
|---|
Command line:
/share/pkg/meme/4.10.0_4/install/bin/fimo --parse-genomic-coord --verbosity 1 --oc Dynamic_Sex-independent_Output/fimo_out_5 --bgfile Dynamic_Sex-independent_Output/background --motif MA0161.1 ./JASPAR_CORE_2014_vertebrates.meme Dynamic_Sex-independent_Output/Dynamic_Sex-independent.fa
Settings:
| output directory = Dynamic_Sex-independent_Output/fimo_out_5 | MEME file name = ./JASPAR_CORE_2014_vertebrates.meme | sequence file name = Dynamic_Sex-independent_Output/Dynamic_Sex-independent.fa |
| background file name = Dynamic_Sex-independent_Output/background | allow clobber = true | compute q-values = true |
| parse genomic coord. = true | text only = false | scan both strands = true |
| max sequence length = 250000000 | output threshold = 0.0001 | threshold type = p-value |
| max stored scores = 100000 | pseudocount = 0.1 | verbosity = 1 |
| selected motif = MA0161.1 |
This information can be useful in the event you wish to report a problem with the FIMO software.