Database and Motifs High-scoring Motif Occurences Debugging Information



FIMO - Motif search tool

FIMO version 4.11.1, (Release date: Fri Apr 22 11:12:17 2016 +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 AND MOTIFS

DATABASE memechip_example_output_files/Klf1.fna
Database contains 0 sequences, 0 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


SECTION I: HIGH-SCORING MOTIF OCCURENCES

Motif Sequence Name Strand Start End p-value q-value Matched Sequence
MA0545.1 chr7 + 26005199 26005209 4.64e-07 0.06 CAACAGCTGTC
MA0545.1 chr1 - 82634209 82634219 4.64e-07 0.06 CAACAGCTGTC
MA0545.1 chr16 - 91804748 91804758 4.64e-07 0.06 CAACAGCTGTC
MA0545.1 chr11 + 95667066 95667076 4.64e-07 0.06 CAACAGCTGTC
MA0545.1 chr3 + 101355994 101356004 4.64e-07 0.06 CAACAGCTGTC
MA0545.1 chr14 - 119195542 119195552 1.15e-06 0.124 GAACAGCTGGC
MA0545.1 chr14 - 51490496 51490506 1.81e-06 0.167 CAACAGCTGCC
MA0545.1 chr7 + 99891490 99891500 3.26e-06 0.263 AAACAGCTGGC
MA0545.1 chr12 + 70395146 70395156 4.42e-06 0.294 CAGCAGCTGTC
MA0545.1 chr9 - 65063742 65063752 5.14e-06 0.294 GAACAGCTGGT
MA0545.1 chr3 + 145253892 145253902 5.14e-06 0.294 GAACAACTGTC
MA0545.1 chr14 - 41775825 41775835 6.09e-06 0.294 CAACAGCTGGT
MA0545.1 chr11 + 69760047 69760057 6.09e-06 0.294 CAACAGCTGGT
MA0545.1 chr3 + 19087407 19087417 6.57e-06 0.294 CAACAGCTGCT
MA0545.1 chr7 - 139915866 139915876 7.24e-06 0.294 GAACAGTTGGC
MA0545.1 chr11 - 96817577 96817587 7.46e-06 0.294 CAGCAGCTGAC
MA0545.1 chr19 + 43786225 43786235 8.15e-06 0.294 CAACAGTTGGC
MA0545.1 chr11 + 50038454 50038464 8.85e-06 0.294 GAGCAGCTGGC
MA0545.1 chr19 - 5963878 5963888 9.51e-06 0.294 CAGCAGCTGGC
MA0545.1 chr4 - 128533231 128533241 9.51e-06 0.294 CAGCAGCTGGC
MA0545.1 chr18 + 75108383 75108393 1e-05 0.294 TAACAGCTGTC
MA0545.1 chr7 - 151918213 151918223 1e-05 0.294 TAACAGCTGTC
MA0545.1 chr14 + 51549609 51549619 1.18e-05 0.295 CAACAACTGCC
MA0545.1 chr18 + 60666952 60666962 1.18e-05 0.295 CAACAACTGCC
MA0545.1 chr5 - 38901031 38901041 1.21e-05 0.295 AAGCAGCTGTC
MA0545.1 chr11 + 84637311 84637321 1.25e-05 0.295 GGACAGCTGGC
MA0545.1 chr17 - 29575520 29575530 1.3e-05 0.295 GGACAGCTGCC
MA0545.1 chr16 + 32449829 32449839 1.32e-05 0.295 GAACAGTTGTT
MA0545.1 chr12 - 110018389 110018399 1.32e-05 0.295 GAACAGTTGTT
MA0545.1 chr10 - 59711592 59711602 1.47e-05 0.306 AAACAGTTGAC
MA0545.1 chr18 + 62120439 62120449 1.54e-05 0.306 TAACAGCTGGC
MA0545.1 chr3 - 19087408 19087418 1.61e-05 0.306 CAGCAGCTGTT
MA0545.1 chr1 - 59010737 59010747 1.63e-05 0.306 GAACAGCTGTG
MA0545.1 chr19 - 5922343 5922353 1.7e-05 0.306 AGACAGCTGTC
MA0545.1 chr13 + 107891272 107891282 1.7e-05 0.306 AGACAGCTGTC
MA0545.1 chr13 - 107891273 107891283 1.7e-05 0.306 AGACAGCTGTC
MA0545.1 chr17 - 48438608 48438618 1.75e-05 0.306 CAACAGCTGTG
MA0545.1 chr13 + 100518309 100518319 1.87e-05 0.306 GCACAGCTGTC
MA0545.1 chr11 - 102226617 102226627 1.87e-05 0.306 GCACAGCTGTC
MA0545.1 chr2 + 166529341 166529351 1.89e-05 0.306 AAGCAGCTGGC
MA0545.1 chr17 - 24340082 24340092 2.02e-05 0.313 AAGCAGCTGCC
MA0545.1 chr2 + 172174167 172174177 2.04e-05 0.313 CCACAGCTGTC
MA0545.1 chr3 - 101355995 101356005 2.13e-05 0.321 GGACAGCTGTT
MA0545.1 chr6 - 56190317 56190327 2.2e-05 0.323 GAACAGCTGAG
MA0545.1 chr3 - 138480355 138480365 2.25e-05 0.323 GAACAGATGAC
MA0545.1 chr11 - 58166809 58166819 2.47e-05 0.329 CAACAGCTGAG
MA0545.1 chr18 + 32702170 32702180 2.56e-05 0.329 GAGCAGCTGCT
MA0545.1 chr18 - 32702171 32702181 2.77e-05 0.329 CAGCAGCTGCT
MA0545.1 chr14 + 41775549 41775559 2.77e-05 0.329 CAGCAGCTGCT
MA0545.1 chr15 + 78888469 78888479 2.77e-05 0.329 CAGCAGCTGCT
MA0545.1 chr15 - 78888470 78888480 2.77e-05 0.329 CAGCAGCTGCT
MA0545.1 chr11 - 104890372 104890382 2.77e-05 0.329 CAGCAGCTGCT
MA0545.1 chr4 - 151334608 151334618 2.82e-05 0.329 CCACAGCTGAC
MA0545.1 chr5 + 27985244 27985254 2.86e-05 0.329 CACCAGCTGTC
MA0545.1 chr7 - 35754287 35754297 2.88e-05 0.329 AGACAGCTGGC
MA0545.1 chr12 - 102194444 102194454 2.97e-05 0.329 AGACAGCTGCC
MA0545.1 chr12 + 102194516 102194526 3e-05 0.329 CAACAGCTGGG
MA0545.1 chr12 + 102194443 102194453 3.11e-05 0.329 GGGCAGCTGTC
MA0545.1 chr2 - 131039737 131039747 3.11e-05 0.329 CAACAGATGGC
MA0545.1 chr7 - 35754347 35754357 3.27e-05 0.329 GAGCAGTTGCC
MA0545.1 chr12 + 78031631 78031641 3.39e-05 0.329 CAGCAGTTGGC
MA0545.1 chr14 - 56155162 56155172 3.55e-05 0.329 CCACAGCTGGC
MA0545.1 chr12 - 77866478 77866488 3.55e-05 0.329 CCACAGCTGGC
MA0545.1 chr18 + 85054364 85054374 3.55e-05 0.329 CAGCAGTTGCC
MA0545.1 chr3 - 101355957 101355967 3.55e-05 0.329 CCACAGCTGGC
MA0545.1 chr4 - 135734056 135734066 3.55e-05 0.329 CCACAGCTGGC
MA0545.1 chr4 - 135745647 135745657 3.55e-05 0.329 CAGCAGTTGCC
MA0545.1 chr10 - 93585416 93585426 3.64e-05 0.329 CCACAGCTGCC
MA0545.1 chr7 + 148354799 148354809 3.64e-05 0.329 CCACAGCTGCC
MA0545.1 chr1 - 183187594 183187604 3.64e-05 0.329 CCACAGCTGCC
MA0545.1 chr16 + 55924499 55924509 3.76e-05 0.329 GGACAGCTGGT
MA0545.1 chr5 + 35503788 35503798 3.83e-05 0.329 TAGCAGCTGTC
MA0545.1 chr14 + 41775866 41775876 3.83e-05 0.329 TAGCAGCTGTC
MA0545.1 chr5 - 35503789 35503799 3.9e-05 0.329 GGACAGCTGCT
MA0545.1 chr14 - 41775867 41775877 3.9e-05 0.329 GGACAGCTGCT
MA0545.1 chr12 - 70395147 70395157 3.9e-05 0.329 GGACAGCTGCT
MA0545.1 chr5 - 30290239 30290249 3.92e-05 0.329 AAACAGCTGTG
MA0545.1 chr2 - 32629461 32629471 4.18e-05 0.334 GAGCAACTGGC
MA0545.1 chr12 + 110018388 110018398 4.18e-05 0.334 AAACAACTGTT
MA0545.1 chr9 + 70682780 70682790 4.23e-05 0.334 GGGCAGCTGAC
MA0545.1 chr1 + 169314684 169314694 4.3e-05 0.334 GACCAGCTGGC
MA0545.1 chr4 - 8632120 8632130 4.37e-05 0.334 CAGCAACTGGC
MA0545.1 chr5 + 33374889 33374899 4.6e-05 0.334 CACCAGCTGGC
MA0545.1 chr11 + 57768191 57768201 4.6e-05 0.334 CACCAGCTGGC
MA0545.1 chr1 + 75176015 75176025 4.6e-05 0.334 CACCAGCTGGC
MA0545.1 chr8 - 97257862 97257872 4.6e-05 0.334 CACCAGCTGGC
MA0545.1 chr5 - 64979291 64979301 4.85e-05 0.334 GGGCAGCTGGC
MA0545.1 chr18 - 75108384 75108394 4.85e-05 0.334 AGACAGCTGTT
MA0545.1 chr1 + 82634208 82634218 4.85e-05 0.334 AGACAGCTGTT
MA0545.1 chr3 - 84162723 84162733 4.85e-05 0.334 AAACAGTTGGT
MA0545.1 chr16 + 91804747 91804757 4.85e-05 0.334 AGACAGCTGTT
MA0545.1 chr4 - 117504888 117504898 4.85e-05 0.334 GGGCAGCTGGC
MA0545.1 chr7 + 151918212 151918222 4.85e-05 0.334 AGACAGCTGTT
MA0545.1 chr6 - 34428762 34428772 4.95e-05 0.334 TAGCAGCTGAC
MA0545.1 chr4 + 109112652 109112662 4.99e-05 0.334 AAACAGCTGAG
MA0545.1 chr1 - 59010956 59010966 5.07e-05 0.334 CAACAGATGTT
MA0545.1 chr4 + 132806913 132806923 5.09e-05 0.334 CGGCAGCTGGC
MA0545.1 chr19 + 5922342 5922352 5.23e-05 0.334 TGACAGCTGTC
MA0545.1 chr5 + 30290238 30290248 5.23e-05 0.334 GCACAGCTGTT
MA0545.1 chr17 + 48438607 48438617 5.23e-05 0.334 GCACAGCTGTT
MA0545.1 chr1 + 59010736 59010746 5.23e-05 0.334 GCACAGCTGTT
MA0545.1 chr15 - 98886987 98886997 5.36e-05 0.336 CAACAGGTGGC
MA0545.1 chr4 - 135734095 135734105 5.36e-05 0.336 AAGCAGCTGGT
MA0545.1 chr2 - 131039929 131039939 5.44e-05 0.336 AAGCAGTTGAC
MA0545.1 chr14 - 41775550 41775560 5.51e-05 0.336 AAGCAGCTGCT
MA0545.1 chr11 + 104890371 104890381 5.51e-05 0.336 AAGCAGCTGCT
MA0545.1 chr16 - 55924500 55924510 5.6e-05 0.338 AACCAGCTGTC
MA0545.1 chr11 + 57590745 57590755 5.76e-05 0.344 AAACAGCTGGG
MA0545.1 chr7 + 35754279 35754289 5.83e-05 0.344 TAGCAGCTGCC
MA0545.1 chr9 - 122282441 122282451 5.95e-05 0.344 GCACAGTTGTC
MA0545.1 chr7 + 16685502 16685512 6e-05 0.344 GAGCAGCTGTG
MA0545.1 chr4 - 56610565 56610575 6.02e-05 0.344 GAGCAGATGTC
MA0545.1 chr15 + 22325154 22325164 6.12e-05 0.344 GAACAGATGAT
MA0545.1 chr13 - 39515904 39515914 6.12e-05 0.344 AAACAACTGGT
MA0545.1 chr8 - 85947051 85947061 6.12e-05 0.344 GAACAGATGAT
MA0545.1 chr11 + 53840103 53840113 6.26e-05 0.349 ACACAGCTGGC
MA0545.1 chr10 - 59256433 59256443 6.33e-05 0.35 CAGCAGCTGTG
MA0545.1 chr7 - 82905747 82905757 6.57e-05 0.36 GCACAGCTGAT
MA0545.1 chr13 - 20242276 20242286 6.74e-05 0.365 CCGCAGCTGTC
MA0545.1 chr5 + 144580152 144580162 6.78e-05 0.365 CCACAGCTGAT
MA0545.1 chr3 + 51492747 51492757 7.03e-05 0.373 AGACAGTTGAC
MA0545.1 chr12 - 112506150 112506160 7.05e-05 0.373 GAACAGATGCT
MA0545.1 chr14 + 51490495 51490505 7.29e-05 0.374 GGGCAGCTGTT
MA0545.1 chr9 + 64640345 64640355 7.29e-05 0.374 CAACAAATGTC
MA0545.1 chr11 + 20182283 20182293 7.43e-05 0.374 CAACAGATGCT
MA0545.1 chr12 - 114387036 114387046 7.43e-05 0.374 GCACAGCTGGT
MA0545.1 chr5 + 144322572 144322582 7.43e-05 0.374 GCACAGCTGGT
MA0545.1 chr19 + 5896830 5896840 7.48e-05 0.374 GCACAGTTGAC
MA0545.1 chr11 - 102236696 102236706 7.48e-05 0.374 CATCAGCTGTC
MA0545.1 chr7 + 19832635 19832645 7.55e-05 0.374 GAGCAGCTGAG
MA0545.1 chr2 - 103324364 103324374 7.64e-05 0.374 GAGCAGATGAC
MA0545.1 chr14 - 122643151 122643161 7.64e-05 0.374 TGACAGCTGCC
MA0545.1 chr5 + 109105866 109105876 7.73e-05 0.376 CAGCAGTTGGT
MA0545.1 chr13 - 100518310 100518320 7.99e-05 0.381 GGACAGCTGTG
MA0545.1 chr11 + 102226616 102226626 7.99e-05 0.381 GGACAGCTGTG
MA0545.1 chr19 - 5922181 5922191 8.11e-05 0.381 CAGCAGCTGAG
MA0545.1 chr8 + 97324263 97324273 8.11e-05 0.381 GGACAGATGTC
MA0545.1 chr10 + 59256432 59256442 8.2e-05 0.381 CCACAGCTGCT
MA0545.1 chr7 + 110976444 110976454 8.2e-05 0.381 GAGCAACTGAT
MA0545.1 chr2 - 84852747 84852757 8.55e-05 0.395 CAGCAACTGAT
MA0545.1 chr11 - 4577316 4577326 8.69e-05 0.397 GAGCAGCTGGG
MA0545.1 chr17 - 24289531 24289541 8.85e-05 0.397 GCACAGTTGCC
MA0545.1 chr7 - 25638124 25638134 8.85e-05 0.397 CACCAGCTGAT
MA0545.1 chr12 - 90222735 90222745 8.85e-05 0.397 CACCAGCTGAT
MA0545.1 chr5 - 22924340 22924350 8.97e-05 0.398 GAGCAGCTGCG
MA0545.1 chr11 - 57315749 57315759 9.04e-05 0.398 GAACACTTGTC
MA0545.1 chr3 - 100351353 100351363 9.06e-05 0.398 AGGCAGCTGCC
MA0545.1 chr11 - 44322583 44322593 9.18e-05 0.398 CAGCAGCTGGG
MA0545.1 chr14 + 69939944 69939954 9.18e-05 0.398 CAGCAGCTGGG
MA0545.1 chr16 + 49777141 49777151 9.27e-05 0.399 AAGCAGTTGTT
MA0545.1 chr14 + 47973862 47973872 9.49e-05 0.406 AAACACCTGGC
MA0545.1 chr1 - 134264662 134264672 9.74e-05 0.411 CATCAGCTGAC
MA0545.1 chr3 - 138480473 138480483 9.74e-05 0.411 CATCAGCTGAC

DEBUGGING INFORMATION

Command line:

/Users/t.bailey/meme_hg/meme/BUILD/bin/fimo --parse-genomic-coord --verbosity 1 --oc memechip_example_output_files/fimo_out_3 --bgfile memechip_example_output_files/background --motif MA0545.1 JASPAR_CORE_2014.meme memechip_example_output_files/Klf1.fna

Settings:

output_directory = memechip_example_output_files/fimo_out_3 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.


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