| Database and Motifs | High-scoring Motif Occurences | Debugging Information |
FIMO version 4.11.4, (Release date: Thu Mar 30 17:02:08 2017 -0700)
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 memechip_example_output_files/Klf1.fna
Database contains 904 sequences, 452000 residues
MOTIFS JASPAR_CORE_2014.meme (DNA)
| MOTIF | WIDTH | BEST POSSIBLE MATCH |
|---|---|---|
| MA0004.1 | 6 | CACGTG |
| MA0006.1 | 6 | TGCGTG |
| MA0008.1 | 8 | CAATTATT |
| MA0009.1 | 11 | CTAGGTGTGAA |
| MA0010.1 | 14 | GTAATAAACAAATC |
| MA0011.1 | 8 | TACTATTT |
| MA0012.1 | 11 | TAAACTAAAAG |
| MA0013.1 | 11 | TAGTAAACAAA |
| MA0015.1 | 10 | GTATATATAC |
| MA0016.1 | 10 | GGGGTCACGG |
| MA0017.1 | 14 | TGACCTTTGAACCT |
| MA0019.1 | 12 | AGATGCAATCCC |
| MA0020.1 | 6 | AAAGCA |
| MA0021.1 | 6 | AAAGCG |
| MA0022.1 | 12 | GGGGTTTTTCCG |
| MA0023.1 | 10 | GGGGTTTTCC |
| MA0025.1 | 11 | TTATGTAACAT |
| MA0026.1 | 7 | CCGGAAG |
| 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 |
| MA0034.1 | 10 | GACAACCGCC |
| MA0038.1 | 10 | CAAATCACTG |
| MA0040.1 | 11 | TATTGTTTATT |
| MA0041.1 | 12 | GAATGTTTGTTT |
| MA0042.1 | 12 | GGATGTTTGTTT |
| MA0043.1 | 12 | GGTTACGTAATT |
| MA0044.1 | 9 | GTTGTATTC |
| MA0045.1 | 16 | CAACAAATGGAAAAAC |
| MA0046.1 | 14 | GGTTAATAATTAAC |
| MA0048.1 | 12 | GCGCAGCTGCGT |
| MA0049.1 | 10 | GCATAAAAAA |
| MA0051.1 | 18 | GGAAAGTGAAAGCAAAAC |
| MA0053.1 | 5 | AAAGC |
| MA0054.1 | 9 | TAACCGTTT |
| MA0056.1 | 6 | TGGGGA |
| MA0057.1 | 10 | GTAGGGGGAA |
| MA0059.1 | 11 | GAGCACGTGGT |
| MA0063.1 | 7 | TTAATTG |
| MA0064.1 | 5 | AAAGC |
| 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 |
| MA0082.1 | 14 | CCAAAAATGGAAAT |
| MA0084.1 | 9 | GTAAACAAT |
| MA0085.1 | 16 | TTGTGGGAAACGAGAT |
| MA0086.1 | 6 | CAGGTG |
| MA0087.1 | 7 | ATTGTTT |
| MA0088.1 | 20 | GATTTCCCATAATGCCTTGC |
| MA0089.1 | 6 | CATGAC |
| MA0090.1 | 12 | CACATTCCTCCG |
| MA0091.1 | 12 | CGACCATCTGTT |
| MA0092.1 | 10 | GGTCTGGCAT |
| MA0096.1 | 7 | ATGACGT |
| MA0097.1 | 12 | GATGACGTGGCC |
| 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 |
| MA0118.1 | 9 | TGGGGGTTC |
| MA0119.1 | 14 | TGGCACCATGCCAA |
| MA0120.1 | 12 | TTTTCCTTTTCG |
| MA0121.1 | 8 | AGATCCGC |
| MA0122.1 | 9 | TTAAGTGGA |
| MA0123.1 | 10 | CGGTGCCCCC |
| MA0124.1 | 7 | ATACTTA |
| MA0125.1 | 8 | TAATTGGT |
| MA0126.1 | 9 | AGTAACAGT |
| MA0127.1 | 10 | ACTTCTTATT |
| MA0128.1 | 8 | ACACGTGG |
| MA0129.1 | 7 | TACGTCA |
| 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 |
| MA0165.1 | 7 | TTTATGA |
| MA0166.1 | 7 | TTAATGA |
| MA0167.1 | 7 | TTAATTA |
| MA0168.1 | 7 | TTAATTG |
| MA0169.1 | 7 | TTAATTG |
| MA0170.1 | 7 | TTAATTA |
| MA0171.1 | 7 | TTAATTG |
| MA0172.1 | 7 | TTAATTA |
| MA0173.1 | 7 | TTAACAT |
| MA0174.1 | 7 | TTTATTA |
| MA0175.1 | 7 | TTAATTG |
| MA0176.1 | 7 | TTAATTA |
| MA0177.1 | 7 | TTAATTA |
| MA0178.1 | 7 | TTAATTA |
| MA0179.1 | 7 | TTAATTA |
| MA0180.1 | 9 | TTTAATTAG |
| MA0181.1 | 7 | TTAATTA |
| MA0182.1 | 7 | TTTATTA |
| MA0183.1 | 8 | TTTAATTA |
| MA0184.1 | 7 | CTAATTA |
| MA0185.1 | 6 | TTCGTG |
| MA0186.1 | 7 | TTAATGA |
| MA0187.1 | 7 | TAATTAC |
| MA0188.1 | 7 | CCAATTA |
| MA0189.1 | 7 | TTAATTA |
| MA0190.1 | 6 | TAATCC |
| MA0191.1 | 7 | TTAATTA |
| MA0192.1 | 7 | TTAATTG |
| MA0193.1 | 7 | CTACCAA |
| MA0194.1 | 7 | TTAATTA |
| MA0195.1 | 7 | TTAATTA |
| MA0196.1 | 7 | TTAATTG |
| MA0197.1 | 8 | TTTAATTA |
| MA0198.1 | 7 | CTAATTA |
| MA0199.1 | 5 | TGATA |
| MA0200.1 | 7 | CTAATTA |
| MA0201.1 | 7 | TTAATCC |
| MA0202.1 | 7 | CTAATTA |
| MA0203.1 | 7 | TTAATGA |
| MA0204.1 | 6 | TGATAC |
| MA0205.1 | 10 | TTGCTCTCTC |
| MA0206.1 | 7 | TTAATTA |
| MA0207.1 | 6 | TGACAG |
| MA0208.1 | 7 | TAATTAA |
| MA0209.1 | 7 | CTAATTA |
| MA0210.1 | 5 | TAACA |
| MA0211.1 | 7 | TTAAGTG |
| MA0212.1 | 6 | TAATCC |
| MA0213.1 | 8 | CTGGCGCC |
| MA0214.1 | 7 | TTAATTG |
| MA0215.1 | 7 | TTAATGA |
| MA0217.1 | 5 | TAACA |
| MA0218.1 | 6 | TTGAAC |
| MA0219.1 | 7 | TTAATGA |
| MA0220.1 | 7 | TTAATTA |
| MA0221.1 | 7 | CTAATGA |
| MA0222.1 | 8 | TTTTGACA |
| MA0224.1 | 7 | GTAATTA |
| MA0225.1 | 7 | TTAATTA |
| MA0226.1 | 7 | TTAATTA |
| MA0227.1 | 6 | TGACAG |
| MA0228.1 | 7 | CTAATTA |
| MA0229.1 | 8 | TCTAATTA |
| MA0230.1 | 7 | TTAATTA |
| MA0231.1 | 6 | TAACTA |
| MA0232.1 | 6 | TAATTA |
| MA0233.1 | 5 | AAACA |
| MA0234.1 | 6 | TAATCC |
| MA0235.1 | 7 | TTGATTT |
| MA0236.1 | 7 | TTAATTA |
| MA0238.1 | 7 | TTAATTA |
| MA0239.1 | 9 | AGTAACAGT |
| MA0240.1 | 7 | TTAATTA |
| MA0241.1 | 7 | CTAATTA |
| MA0242.1 | 9 | TAACCGCAA |
| MA0243.1 | 12 | GACATTCCTCGA |
| MA0244.1 | 8 | ATTGCAAA |
| MA0245.1 | 7 | TTAATTA |
| MA0246.1 | 6 | TGATAC |
| MA0248.1 | 7 | TTAATTG |
| MA0249.1 | 12 | TCGCATATGTTG |
| MA0250.1 | 7 | TTAATTG |
| MA0251.1 | 7 | TTAATTA |
| MA0252.1 | 6 | TGACAG |
| MA0253.1 | 9 | TTTCAAGTG |
| MA0254.1 | 6 | TATGCA |
| MA0255.1 | 10 | TTGAGTGATT |
| MA0256.1 | 7 | CTAATGA |
| MA0257.1 | 7 | TTAATTA |
| MA0094.2 | 8 | TTTAATTA |
| MA0259.1 | 8 | GGACGTGC |
| MA0260.1 | 6 | GAAACC |
| MA0261.1 | 6 | GAACAC |
| MA0262.1 | 13 | AATGTTGCGAATT |
| MA0263.1 | 14 | ATTGGCTTCGTTAA |
| MA0264.1 | 11 | ACCACTTGAAA |
| MA0265.1 | 16 | TCGTATAAAGTGATAT |
| MA0266.1 | 7 | CTCTAGA |
| MA0267.1 | 7 | ACCAGCA |
| MA0268.1 | 7 | ACCCCAC |
| MA0269.1 | 21 | TTACATATTGCACCCGATTGG |
| MA0270.1 | 8 | CACACCCC |
| MA0271.1 | 6 | AGACGC |
| MA0272.1 | 8 | GTGACTCT |
| MA0273.1 | 21 | GATAATTCTCGGCAAGTATGT |
| MA0274.1 | 8 | ACTTGAAT |
| MA0275.1 | 6 | CCGGAA |
| MA0276.1 | 10 | CCGGATCGGG |
| MA0277.1 | 9 | AAAAAGAAA |
| MA0278.1 | 21 | GCACAGCCAGAGTCAAGTCAA |
| MA0279.1 | 10 | ATTAGTAAGC |
| MA0280.1 | 6 | CCGGAA |
| MA0281.1 | 8 | GCACGTGA |
| MA0282.1 | 8 | CTCGGAAA |
| MA0283.1 | 8 | GGCGGAGA |
| MA0284.1 | 10 | TTACGTAATC |
| MA0285.1 | 9 | CTAAGCCAC |
| MA0286.1 | 9 | ATGACGTAA |
| MA0287.1 | 11 | CAGCAAAAATG |
| MA0288.1 | 9 | TGACACATT |
| MA0289.1 | 7 | CGATAAG |
| MA0290.1 | 19 | AAAAGCCGCGGGCGGGATT |
| MA0291.1 | 9 | AATGTGCGC |
| MA0292.1 | 7 | CTCCGGA |
| MA0293.1 | 11 | AAAGATCTAAA |
| MA0294.1 | 9 | CGGAAAAAT |
| MA0295.1 | 8 | GACGCAAA |
| MA0296.1 | 20 | TGAATTGTAAACAAAGAGGA |
| MA0297.1 | 7 | GTAAACA |
| MA0298.1 | 6 | CTATCA |
| MA0299.1 | 15 | CGGGGAACAGTACTC |
| MA0300.1 | 8 | CCGATAAG |
| MA0301.1 | 9 | AGATCTACA |
| MA0302.1 | 11 | AAAGATCTAAA |
| MA0303.1 | 21 | CAAGGGATGAGTCATACTTCA |
| MA0304.1 | 8 | TGGAAGCC |
| MA0305.1 | 7 | GCTTCCT |
| MA0306.1 | 9 | ACCCCTAAA |
| MA0307.1 | 5 | GATAA |
| MA0308.1 | 21 | ATTAAAAAACTCCGGAGTATA |
| MA0309.1 | 8 | TGATAAGA |
| MA0310.1 | 8 | GACACGTG |
| MA0311.1 | 5 | CGGAA |
| MA0312.1 | 8 | CGGAGATA |
| MA0313.1 | 5 | TTGGT |
| MA0314.1 | 15 | TCTGATTGGTTCAGA |
| MA0315.1 | 15 | ACCAATCAGAGGCGA |
| MA0316.1 | 15 | TGGGATCTGATTGGT |
| MA0317.1 | 8 | ATAAACAA |
| MA0318.1 | 8 | CATGTAAT |
| MA0319.1 | 8 | ATGGAACA |
| MA0320.1 | 8 | CCGCCGAG |
| MA0321.1 | 9 | GCATGTGAA |
| MA0322.1 | 9 | GCATGTGAA |
| MA0323.1 | 15 | AAGCCGGAAGCGGGG |
| MA0324.1 | 10 | CCGTTACCGG |
| MA0325.1 | 8 | CCGGAATT |
| MA0326.1 | 8 | TTTGCTCA |
| MA0327.1 | 7 | ACACAAT |
| MA0328.1 | 9 | CATGTAATT |
| MA0329.1 | 7 | ACGCGTA |
| MA0330.1 | 7 | ACGCGTT |
| MA0331.1 | 12 | CCCAATTAGGAA |
| MA0332.1 | 6 | CTGTGG |
| MA0333.1 | 9 | AGTGTGGCG |
| MA0334.1 | 7 | CGCCACA |
| MA0335.1 | 8 | AACTGTGG |
| MA0336.1 | 21 | AGGACTATAGAACACTCTAAA |
| MA0337.1 | 7 | CCCCCGC |
| MA0338.1 | 7 | CCCCGCA |
| MA0339.1 | 7 | CCCCGCA |
| MA0340.1 | 6 | TAGGTA |
| MA0341.1 | 5 | AGGGG |
| MA0342.1 | 5 | AGGGG |
| MA0343.1 | 21 | TTTCCGGCCACAAAAACGCAA |
| MA0344.1 | 8 | GCCGGGGA |
| MA0345.1 | 21 | ATGACCTATATATAAAAATGA |
| MA0346.1 | 20 | TTTATTTATATATAATATGA |
| MA0347.1 | 20 | CTAGATCAGGGTCCATCGCA |
| MA0348.1 | 9 | TCGGAGATA |
| MA0349.1 | 7 | CGAACCG |
| MA0350.1 | 21 | AGGCACAGCTCATCGCGTTTT |
| MA0351.1 | 21 | TTCTGCACCTCATCGCATCCT |
| MA0352.1 | 8 | TCCGCGGA |
| MA0353.1 | 8 | TCCGCGGA |
| MA0354.1 | 8 | ACGGAGAT |
| MA0355.1 | 10 | ACCTGCAGCA |
| MA0356.1 | 6 | ATAATA |
| MA0357.1 | 8 | GCACGTGC |
| MA0358.1 | 8 | CCCGGGAA |
| MA0359.1 | 10 | CACCCATACA |
| MA0360.1 | 8 | TGCGGAAC |
| MA0361.1 | 7 | CGGCCGA |
| MA0362.1 | 7 | CTCGGGG |
| MA0363.1 | 9 | GTTACCCGG |
| MA0364.1 | 7 | CCCCTGA |
| MA0365.1 | 8 | GGTTGCTA |
| MA0366.1 | 5 | AGGGG |
| MA0367.1 | 11 | AATTTTTCCGG |
| MA0368.1 | 7 | CGCCAAG |
| MA0369.1 | 18 | AGTTCTATAAATAGATTC |
| MA0370.1 | 10 | TCCAAAGGAA |
| MA0371.1 | 12 | TCCATTGTTCTC |
| MA0372.1 | 8 | ACCCCTAA |
| MA0373.1 | 7 | GGTGGCG |
| MA0374.1 | 7 | CGCGCGG |
| MA0375.1 | 8 | CGCGCGCG |
| MA0376.1 | 20 | ATATTAGCACGTGCTTAGTC |
| MA0377.1 | 21 | TAGAGAATAGAAGAAATAAAA |
| MA0378.1 | 21 | ATTGAAAAAAATTTTCTACGG |
| MA0379.1 | 5 | ATATA |
| MA0380.1 | 7 | CTCCGGA |
| MA0381.1 | 6 | GGCCAT |
| MA0382.1 | 8 | ACGTAATG |
| MA0383.1 | 21 | TTACCTATAATTAAATTAGCA |
| MA0384.1 | 11 | TGGTAGCGCCG |
| MA0385.1 | 11 | ACCTGCAGGCA |
| MA0386.1 | 21 | GACTAGATATATATATTCGAT |
| MA0387.1 | 10 | AATTAAAGAA |
| MA0388.1 | 8 | GAAATCAA |
| MA0389.1 | 8 | AGATCTAC |
| MA0390.1 | 21 | GTCCAAAATTTTTCACTCTGG |
| MA0391.1 | 7 | CTCGGAA |
| MA0392.1 | 8 | CGGTGTTA |
| MA0393.1 | 7 | TGAAACA |
| MA0394.1 | 8 | TGCGGCGC |
| MA0395.1 | 20 | TGATCGGCGCCGCACGACGA |
| MA0396.1 | 9 | GCTAGCGCA |
| MA0397.1 | 9 | GATAGCGCA |
| MA0398.1 | 9 | AAAATTTTT |
| MA0399.1 | 7 | CGCGGGG |
| MA0400.1 | 20 | ATGATAAACTCCGAAAATTT |
| MA0401.1 | 8 | ACGCGAAA |
| MA0402.1 | 8 | TGCTGGTT |
| MA0403.1 | 8 | AACCCTAA |
| MA0404.1 | 8 | CGGATCCG |
| MA0405.1 | 8 | GCGGACAT |
| MA0406.1 | 8 | ACATTCCC |
| MA0407.1 | 15 | GGAAACTCTAAGAAC |
| MA0408.1 | 8 | CTGTCAAA |
| MA0409.1 | 7 | CACGTGA |
| MA0410.1 | 8 | CGGCGGGA |
| MA0411.1 | 7 | TATACGA |
| MA0412.1 | 13 | TCGGCGGCTAATT |
| MA0413.1 | 20 | AAATTCCCCCTGAATTTGTG |
| MA0414.1 | 7 | CTCGAGA |
| MA0415.1 | 20 | ATTTGCTTACGTAAGCTCGT |
| MA0416.1 | 8 | ATTACGTA |
| MA0417.1 | 6 | AAGCAT |
| MA0418.1 | 20 | GGTCTGATTACGTAAGCGAC |
| MA0419.1 | 11 | ATTAGTAAGCA |
| MA0420.1 | 8 | ACCGGAAC |
| MA0421.1 | 10 | TTTACCCGGC |
| MA0422.1 | 10 | CCGGAGATAA |
| MA0423.1 | 9 | ACCCCTATT |
| MA0424.1 | 8 | CTCCGGAA |
| MA0425.1 | 14 | ACCCCACTTTTTTA |
| MA0426.1 | 6 | TAATTG |
| MA0427.1 | 11 | AGCTCCGGAGA |
| MA0428.1 | 9 | AACGGAAAT |
| MA0429.1 | 7 | CGGCCGA |
| MA0430.1 | 8 | CCGGAGTT |
| MA0431.1 | 9 | ACCCCGCAC |
| MA0432.1 | 8 | TCGGAGAT |
| MA0433.1 | 8 | TTAATTAA |
| MA0434.1 | 9 | TGTAGATCA |
| MA0435.1 | 20 | TGAAGACGTAAATCCTTACA |
| MA0436.1 | 7 | CCCCACG |
| MA0437.1 | 9 | ATTTCTCCG |
| MA0438.1 | 8 | ACGGAAAT |
| MA0439.1 | 11 | CTTATCTCCGC |
| MA0440.1 | 15 | ACCTTAAAGGTCATG |
| MA0441.1 | 9 | TTCCCCGCA |
| MA0442.1 | 6 | CTTTGT |
| MA0443.1 | 10 | AGGGGGCGGA |
| MA0444.1 | 7 | TTAATTG |
| MA0445.1 | 11 | TCCATTGTTCT |
| MA0446.1 | 11 | TGTTTGCTTAA |
| MA0447.1 | 10 | ATTACGTAAT |
| MA0448.1 | 7 | TTAATTA |
| MA0449.1 | 10 | GGCACGTGCC |
| MA0450.1 | 9 | GGGGCGTGA |
| MA0451.1 | 12 | AAACTAGAGCAC |
| MA0453.1 | 12 | TATGCAAATTAG |
| MA0454.1 | 11 | AACAGTAGCAG |
| MA0456.1 | 12 | GACCCCCCGCTG |
| MA0457.1 | 7 | TTAATTA |
| MA0458.1 | 11 | TTGTTTACATT |
| MA0459.1 | 10 | AAAAGTCAAA |
| MA0460.1 | 9 | AAGGATAAT |
| 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 |
| MA0529.1 | 15 | TCGAAACTATCGATA |
| MA0216.2 | 11 | GGCCATAAAAA |
| MA0530.1 | 15 | GATGACTCGGCAAAT |
| MA0531.1 | 15 | CCGCTAGATGGCGCC |
| MA0452.2 | 14 | TTTAACCCTTTTTC |
| MA0532.1 | 15 | CGGAATTCCAGGAAA |
| MA0533.1 | 21 | GCCCAAAAGTATGCAACAAAT |
| MA0534.1 | 15 | GAGTTCATTGACCTT |
| MA0237.2 | 14 | TCGGCTCCTTTGAT |
| MA0535.1 | 15 | CAGGCGCCGCCGCCG |
| MA0536.1 | 11 | TATCGATAGTT |
| MA0247.2 | 10 | TTTCAAGTGG |
| MA0537.1 | 11 | AAAAGTGAAAA |
| MA0538.1 | 15 | GTGTGTGTGTGCGTG |
| MA0540.1 | 16 | TGTCCCTGCGCGATAA |
| MA0541.1 | 15 | CGCGCGCGCGAAATT |
| MA0542.1 | 8 | TCTTATCA |
| MA0543.1 | 15 | AGAGAGACGCAGAGA |
| MA0544.1 | 12 | GTGTCGGCCGCT |
| MA0545.1 | 11 | GAACAGCTGTC |
| MA0546.1 | 10 | AAAGTAAACA |
| MA0547.1 | 15 | AAAATGATGACAATT |
| MA0548.1 | 15 | TTTCCATTTTTGGAA |
| MA0549.1 | 11 | CGCACGTGTGA |
| MA0550.1 | 14 | AAGCCACGTGTCCA |
| MA0551.1 | 16 | AATGCCACGTGGCATT |
| MA0552.1 | 14 | AGAAGGTCACGTGG |
| MA0553.1 | 8 | CCTCGTAC |
| MA0554.1 | 21 | TTTTTTTTTTTTTTTTTTTTT |
| MA0555.1 | 20 | ATTACCAAAAATGGAAAGAA |
| MA0556.1 | 15 | TTCCAAAAATGGAAA |
| MA0557.1 | 12 | CTCACGCGCTCA |
| MA0558.1 | 21 | AATTTCCAAAAATAGAAAGAA |
| MA0559.1 | 14 | CCAAAAAAGGAAAA |
| MA0560.1 | 10 | AGCCACGTGA |
| MA0561.1 | 8 | CACGTGGC |
| MA0562.1 | 8 | TCACGTGG |
| MA0563.1 | 11 | TCCATTTTTGG |
| MA0564.1 | 9 | CTGCATGCA |
| MA0565.1 | 9 | CGCATGCGC |
| MA0566.1 | 8 | GCACGTGC |
| MA0567.1 | 8 | CGCCGCCA |
| MA0568.1 | 8 | GCACGTGC |
| MA0569.1 | 8 | ACACGTGC |
| MA0570.1 | 19 | GGACACGTGGCACGACGGG |
| MA0005.2 | 18 | ATTACCAAATTGGGTAAT |
| MA0571.1 | 21 | TGGCACAGTTCCCGAGGTGAA |
| MA0572.1 | 12 | TTCAATTATTGC |
| MA0110.2 | 13 | GGTCCAATTATTG |
| MA0573.1 | 19 | AATCGTAATGATTACTCGC |
| MA0574.1 | 13 | CGACGGTAGGTGG |
| MA0575.1 | 13 | AAGTGACAGTTAC |
| MA0576.1 | 13 | GGGGGGTAGGTGG |
| MA0577.1 | 16 | ATTGCCGTACTTTTTC |
| MA0578.1 | 16 | TTTTTTGTACCTTATT |
| MA0579.1 | 11 | GGCTCAGCGCG |
| MA0580.1 | 14 | CGTGAGTCACGTGA |
| MA0581.1 | 11 | TGCATGCACAT |
| MA0582.1 | 12 | CAGCAACAGAAA |
| MA0583.1 | 12 | ATCACCTGAGGC |
| MA0584.1 | 18 | TTTACCATATATAGAAAT |
| MA0001.2 | 18 | GTTTCCATATATAGTAAG |
| MA0585.1 | 18 | ATTGCCAAATTGGGTAAG |
| MA0586.1 | 19 | TTGCGTCCGTACAGGAGGG |
| MA0587.1 | 10 | GTGGACCCGG |
| MA0588.1 | 11 | TGGTGACGTAA |
| MA0589.1 | 11 | TTGACCGAGCC |
| MA0590.1 | 19 | TATTGACCGGCGGTCAATA |
| 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 (memechip_example_output_files/background):
A 0.256 C 0.244 G 0.244 T 0.256
| Motif ID | Alt ID | Sequence Name | Strand | Start | End | p-value | q-value | Matched Sequence |
|---|---|---|---|---|---|---|---|---|
| MA0531.1 | CTCF | chr17 | + | 29067479 | 29067493 | 2.95e-07 | 0.105 | CCGACAGATGGCGTT |
| MA0531.1 | CTCF | chr15 | - | 98886983 | 98886997 | 3.78e-07 | 0.105 | CCAACAGGTGGCGCA |
| MA0531.1 | CTCF | chr4 | - | 132806735 | 132806749 | 4.95e-07 | 0.105 | CCACCAGGGGGCGCT |
| MA0531.1 | CTCF | chr9 | + | 21069754 | 21069768 | 1.87e-06 | 0.276 | CACCAAGATGGCGCT |
| MA0531.1 | CTCF | chr2 | - | 25148567 | 25148581 | 2.17e-06 | 0.276 | CCACTAGGGGGCGCA |
| MA0531.1 | CTCF | chr7 | + | 148956815 | 148956829 | 4.67e-06 | 0.473 | CCAGCAGATGGTGCC |
| MA0531.1 | CTCF | chr12 | - | 90222493 | 90222507 | 5.2e-06 | 0.473 | CCGGCGGGTGGCGCA |
| MA0531.1 | CTCF | chr10 | - | 40726685 | 40726699 | 6.04e-06 | 0.48 | CTGCCAGATGGTGCC |
| MA0531.1 | CTCF | chr13 | - | 23643541 | 23643555 | 7.1e-06 | 0.501 | GCTGTAGAGGGCGCT |
| MA0531.1 | CTCF | chr2 | + | 25148381 | 25148395 | 9.56e-06 | 0.555 | GCTCCAGATGGAGCC |
| MA0531.1 | CTCF | chr6 | + | 83115633 | 83115647 | 1e-05 | 0.555 | CCAGCAGAGGGCGTT |
| MA0531.1 | CTCF | chr7 | - | 135432872 | 135432886 | 1.1e-05 | 0.555 | GGGGCAGGGGGCGCC |
| MA0531.1 | CTCF | chr4 | + | 117601499 | 117601513 | 1.14e-05 | 0.555 | GCGCTAGGGGGAGCC |
| MA0531.1 | CTCF | chr11 | + | 117642146 | 117642160 | 1.22e-05 | 0.555 | CCCCTAGGTGGAGTC |
| MA0531.1 | CTCF | chr14 | + | 21299299 | 21299313 | 1.37e-05 | 0.574 | ACTCCAGGTGGTGCT |
| MA0531.1 | CTCF | chr11 | + | 20182091 | 20182105 | 1.59e-05 | 0.574 | CCAGAAGGTGGAGCT |
| MA0531.1 | CTCF | chr19 | + | 8994887 | 8994901 | 1.62e-05 | 0.574 | GTCCCAGGTGTCGCT |
| MA0531.1 | CTCF | chr9 | - | 107982651 | 107982665 | 1.66e-05 | 0.574 | TTGCTAGGTGGAGCC |
| MA0531.1 | CTCF | chr9 | + | 120025506 | 120025520 | 1.71e-05 | 0.574 | GTGACAGGTGGAGCC |
| MA0531.1 | CTCF | chr11 | + | 57590725 | 57590739 | 2e-05 | 0.637 | ACGGTGGATGGCGTC |
| MA0531.1 | CTCF | chrX | - | 39372717 | 39372731 | 2.47e-05 | 0.749 | CTGACAGATGGTGCA |
| MA0531.1 | CTCF | chr7 | + | 106743028 | 106743042 | 2.66e-05 | 0.769 | CTGGCAGAGGGCGTT |
| MA0531.1 | CTCF | chr6 | + | 41654318 | 41654332 | 2.8e-05 | 0.773 | CCTCTGGGTGGAGCC |
| MA0531.1 | CTCF | chr19 | - | 47458522 | 47458536 | 3.09e-05 | 0.789 | CAGCCAGATGTAGCT |
| MA0531.1 | CTCF | chr5 | - | 118933853 | 118933867 | 3.41e-05 | 0.789 | ACCCCAGATGGTGTC |
| MA0531.1 | CTCF | chr11 | + | 90524610 | 90524624 | 3.58e-05 | 0.789 | ACCAAAGGTGGCTCC |
| MA0531.1 | CTCF | chr12 | + | 114386767 | 114386781 | 3.65e-05 | 0.789 | CCAGTGGAGGGCGCA |
| MA0531.1 | CTCF | chr11 | - | 44322593 | 44322607 | 3.83e-05 | 0.789 | CTGCTGGGTGGAGCC |
| MA0531.1 | CTCF | chr13 | + | 34169976 | 34169990 | 4.02e-05 | 0.789 | CCGCGAGAGGGAGCC |
| MA0531.1 | CTCF | chr9 | - | 120025648 | 120025662 | 4.26e-05 | 0.789 | CCCGCTGATGGAGCC |
| MA0531.1 | CTCF | chr3 | + | 88305677 | 88305691 | 4.42e-05 | 0.789 | AAAGTAGGTGGAGCC |
| MA0531.1 | CTCF | chr12 | + | 80012859 | 80012873 | 4.81e-05 | 0.789 | TTGCTAGGTGGAGCA |
| MA0531.1 | CTCF | chr11 | - | 116481583 | 116481597 | 5.22e-05 | 0.789 | GCAGTAGGTGTTGCC |
| MA0531.1 | CTCF | chr5 | + | 144322495 | 144322509 | 5.41e-05 | 0.789 | GAGCTGGGTGGAGCC |
| MA0531.1 | CTCF | chr18 | + | 65375240 | 65375254 | 5.46e-05 | 0.789 | GCATCAGGTGGCTCT |
| MA0531.1 | CTCF | chr1 | + | 134264330 | 134264344 | 5.52e-05 | 0.789 | TCAGCAGAGGGAGCC |
| MA0531.1 | CTCF | chr11 | - | 96817501 | 96817515 | 5.77e-05 | 0.789 | GCTGCAGATGGAGCA |
| MA0531.1 | CTCF | chr4 | - | 128725122 | 128725136 | 5.77e-05 | 0.789 | TCCACAGATGGCTTT |
| MA0531.1 | CTCF | chr16 | - | 8687288 | 8687302 | 5.82e-05 | 0.789 | CAGCTAAGTGGCGTG |
| MA0531.1 | CTCF | chr8 | - | 108344836 | 108344850 | 5.93e-05 | 0.789 | GCACTAGGTGGTGTA |
| MA0531.1 | CTCF | chr8 | + | 97258010 | 97258024 | 6.09e-05 | 0.789 | GAGGCAGGTGGAGCA |
| MA0531.1 | CTCF | chr19 | - | 8994867 | 8994881 | 6.15e-05 | 0.789 | CCGGCTAGTGGCGTC |
| MA0531.1 | CTCF | chr11 | + | 115374687 | 115374701 | 6.15e-05 | 0.789 | ACAATGGATGGCTCC |
| MA0531.1 | CTCF | chr11 | + | 115374348 | 115374362 | 6.31e-05 | 0.789 | CCACAAAATGGCTCC |
| MA0531.1 | CTCF | chr4 | + | 129974629 | 129974643 | 6.31e-05 | 0.789 | ACAGAAGGGGGCGCG |
| MA0531.1 | CTCF | chr19 | - | 6236179 | 6236193 | 6.36e-05 | 0.789 | GGGACAGATGGCTCA |
| MA0531.1 | CTCF | chr13 | - | 96735348 | 96735362 | 6.36e-05 | 0.789 | CCTATAAGGGGCGTT |
| MA0531.1 | CTCF | chr10 | + | 59466262 | 59466276 | 6.42e-05 | 0.789 | CACCAGGGTGGCGCG |
| MA0531.1 | CTCF | chr17 | - | 47735167 | 47735181 | 6.65e-05 | 0.789 | CGGGTGGATGGTGCC |
| MA0531.1 | CTCF | chr11 | + | 58166617 | 58166631 | 6.65e-05 | 0.789 | CTGGTAGAGGGCTCC |
| MA0531.1 | CTCF | chr12 | - | 85792183 | 85792197 | 6.77e-05 | 0.789 | CGGTTAGGGGGCGTC |
| MA0531.1 | CTCF | chr9 | + | 24715330 | 24715344 | 6.89e-05 | 0.789 | CGAGCAGGTGGAGCA |
| MA0531.1 | CTCF | chr7 | - | 71081180 | 71081194 | 6.89e-05 | 0.789 | ACGTTTGGGGGCGCT |
| MA0531.1 | CTCF | chr7 | - | 19832517 | 19832531 | 7.07e-05 | 0.789 | CCCCTTGGGGGAGCC |
| MA0531.1 | CTCF | chr14 | + | 21299163 | 21299177 | 7.07e-05 | 0.789 | GAGCCAGAGGGCGTG |
| MA0531.1 | CTCF | chr5 | + | 38900947 | 38900961 | 7.07e-05 | 0.789 | CACAGAGATGGAGCC |
| MA0531.1 | CTCF | chr12 | + | 77866542 | 77866556 | 7.07e-05 | 0.789 | CTTCCGGGTGTCGCT |
| MA0531.1 | CTCF | chr11 | + | 32169161 | 32169175 | 7.19e-05 | 0.789 | GGGCTGGGTGGAGCT |
| MA0531.1 | CTCF | chr11 | - | 95662119 | 95662133 | 7.45e-05 | 0.795 | CTCCCAGATGGCTTC |
| MA0531.1 | CTCF | chr1 | - | 77295199 | 77295213 | 7.65e-05 | 0.795 | CAGCTAGATGGCTTA |
| MA0531.1 | CTCF | chr15 | + | 38473340 | 38473354 | 7.78e-05 | 0.795 | GCTGCAGGTGGCTCA |
| MA0531.1 | CTCF | chr7 | - | 135432647 | 135432661 | 7.98e-05 | 0.795 | CAGGAGGGTGTCGCC |
| MA0531.1 | CTCF | chr1 | - | 170140652 | 170140666 | 8.04e-05 | 0.795 | TAGATGGATGGAGCT |
| MA0531.1 | CTCF | chr14 | + | 21299243 | 21299257 | 8.11e-05 | 0.795 | CCCTCAGGTGGCTCA |
| MA0531.1 | CTCF | chr1 | + | 60399997 | 60400011 | 8.18e-05 | 0.795 | CGGACTGGTGTCGCA |
| MA0531.1 | CTCF | chr11 | - | 116481504 | 116481518 | 8.25e-05 | 0.795 | TACACAGATGGAGCA |
| MA0531.1 | CTCF | chr15 | - | 91082676 | 91082690 | 8.47e-05 | 0.801 | GCTACAGATGTCTCT |
| MA0531.1 | CTCF | chr6 | + | 34857675 | 34857689 | 8.69e-05 | 0.801 | CTGGCAAGTGGAGCC |
| MA0531.1 | CTCF | chr10 | - | 60612432 | 60612446 | 8.69e-05 | 0.801 | ACACTAGGTGGAGAT |
| MA0531.1 | CTCF | chr5 | + | 64826901 | 64826915 | 9.14e-05 | 0.817 | TGGCTTGATGGAGCC |
| MA0531.1 | CTCF | chr3 | + | 51034136 | 51034150 | 9.3e-05 | 0.817 | GAATTAGGTGGTGCC |
| MA0531.1 | CTCF | chr3 | - | 95469417 | 95469431 | 9.45e-05 | 0.817 | CAAGCAGGTGTAGCT |
| MA0531.1 | CTCF | chr2 | + | 150491654 | 150491668 | 9.53e-05 | 0.817 | TCTCTAAGTGGCTCC |
| MA0531.1 | CTCF | chr9 | - | 57618788 | 57618802 | 9.61e-05 | 0.817 | GCTGCAGAGGGCTCC |
| MA0531.1 | CTCF | chr6 | - | 28617048 | 28617062 | 9.77e-05 | 0.817 | AACCCAGATGGAGTC |
| MA0531.1 | CTCF | chr6 | + | 149137002 | 149137016 | 9.77e-05 | 0.817 | CCATCGGGTGGAGCC |
| MA0531.1 | CTCF | chr17 | + | 24289297 | 24289311 | 9.93e-05 | 0.82 | CCGCCAGATGGCACC |
Command line:
/net/noble/vol1/home/cegrant/meme_4.11.4/bin/fimo --parse-genomic-coord --verbosity 1 --oc memechip_example_output_files/fimo_out_5 --bgfile memechip_example_output_files/background --motif MA0531.1 JASPAR_CORE_2014.meme memechip_example_output_files/Klf1.fna
Settings:
| output_directory = memechip_example_output_files/fimo_out_5 | MEME file name = JASPAR_CORE_2014.meme | sequence file name = memechip_example_output_files/Klf1.fna |
| background file name = memechip_example_output_files/background | alphabet = DNA | max stored scores = 100000 |
| allow clobber = true | compute q-values = true | parse genomic coord. = true |
| text only = false | scan both strands = true | 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.