# DREME 4.12.0 # command: dreme -v 1 -oc intersection_memechip_out/dreme_out -png -dna -p intersection_memechip_out/seqs-centered -n intersection_memechip_out/seqs-shuffled # positives: 1973 from intersection_memechip_out/seqs-centered (Mon Oct 21 17:11:53 PDT 2019) # negatives: 1973 from intersection_memechip_out/seqs-shuffled (Mon Oct 21 17:11:53 PDT 2019) # host: surya.stanford.edu # when: Mon Oct 21 17:25:59 PDT 2019 MEME version 4.12.0 ALPHABET "DNA" DNA-LIKE A "Adenine" CC0000 ~ T "Thymine" 008000 C "Cytosine" 0000CC ~ G "Guanine" FFB300 N "Any base" = ACGT X = ACGT . = ACGT V "Not T" = ACG H "Not G" = ACT D "Not C" = AGT B "Not A" = CGT M "Amino" = AC R "Purine" = AG W "Weak" = AT S "Strong" = CG Y "Pyrimidine" = CT K "Keto" = GT U = T END ALPHABET strands: + - Background letter frequencies (from dataset): A 0.282 C 0.218 G 0.219 T 0.281 MOTIF ATGBWAAT DREME-1 # Word RC Word Pos Neg P-value E-value # BEST ATGBWAAT ATTWVCAT 637 50 5.6e-154 2.2e-149 # ATGCAAAT ATTTGCAT 287 10 1.4e-076 5.6e-072 # ATGCTAAT ATTAGCAT 152 8 4.2e-037 1.7e-032 # ATGTAAAT ATTTACAT 138 5 4.3e-036 1.7e-031 # ATGTTAAT ATTAACAT 69 13 7.5e-011 3.0e-006 # ATGGTAAT ATTACCAT 21 4 4.4e-004 1.7e+001 # ATGGAAAT ATTTCCAT 32 10 4.4e-004 1.7e+001 letter-probability matrix: alength= 4 w= 8 nsites= 729 E= 2.2e-149 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.632373 0.072702 0.294925 0.662551 0.000000 0.000000 0.337449 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF MATRACAA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST MATRACAA TTGTYATK 303 37 1.3e-057 4.8e-053 # CATAACAA TTGTTATG 119 4 1.6e-031 6.2e-027 # AATAACAA TTGTTATT 78 11 3.8e-014 1.5e-009 # CATGACAA TTGTCATG 74 13 4.9e-012 1.9e-007 # AATGACAA TTGTCATT 37 9 1.8e-005 7.1e-001 letter-probability matrix: alength= 4 w= 8 nsites= 311 E= 4.8e-053 0.372990 0.627010 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.639871 0.000000 0.360129 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF WTATGCR DREME-3 # Word RC Word Pos Neg P-value E-value # BEST WTATGCR YGCATAW 348 89 1.1e-041 4.1e-037 # ATATGCA TGCATAT 152 41 3.3e-017 1.3e-012 # TTATGCA TGCATAA 147 46 2.1e-014 8.3e-010 # TTATGCG CGCATAA 34 2 8.5e-009 3.3e-004 # ATATGCG CGCATAT 39 6 2.4e-007 9.1e-003 letter-probability matrix: alength= 4 w= 7 nsites= 378 E= 4.1e-037 0.518519 0.000000 0.000000 0.481481 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.817460 0.000000 0.182540 0.000000 MOTIF CAGGWR DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CAGGWR YWCCTG 665 411 5.6e-020 2.2e-015 # CAGGTG CACCTG 190 101 3.4e-008 1.3e-003 # CAGGTA TACCTG 131 62 2.0e-007 7.7e-003 # CAGGAG CTCCTG 201 116 3.8e-007 1.5e-002 # CAGGAA TTCCTG 240 167 7.9e-005 3.1e+000 letter-probability matrix: alength= 4 w= 6 nsites= 815 E= 2.2e-015 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.577914 0.000000 0.000000 0.422086 0.499387 0.000000 0.500613 0.000000 MOTIF AAAGRVA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST AAAGRVA TBYCTTT 555 330 4.5e-018 1.7e-013 # AAAGAAA TTTCTTT 156 83 6.5e-007 2.5e-002 # AAAGGAA TTCCTTT 130 68 3.7e-006 1.4e-001 # AAAGGGA TCCCTTT 93 46 3.1e-005 1.2e+000 # AAAGACA TGTCTTT 81 38 3.9e-005 1.5e+000 # AAAGAGA TCTCTTT 95 61 3.4e-003 1.3e+002 # AAAGGCA TGCCTTT 93 60 4.1e-003 1.5e+002 letter-probability matrix: alength= 4 w= 7 nsites= 656 E= 1.7e-013 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.507622 0.000000 0.492378 0.000000 0.440549 0.271341 0.288110 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ATCTRCAT DREME-6 # Word RC Word Pos Neg P-value E-value # BEST ATCTRCAT ATGYAGAT 78 11 3.8e-014 1.5e-009 # ATCTGCAT ATGCAGAT 44 6 1.4e-008 5.1e-004 # ATCTACAT ATGTAGAT 34 5 1.1e-006 4.1e-002 letter-probability matrix: alength= 4 w= 8 nsites= 78 E= 1.5e-009 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.435897 0.000000 0.564103 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF CCCCDCCC DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CCCCDCCC GGGHGGGG 78 18 1.4e-010 5.3e-006 # CCCCTCCC GGGAGGGG 37 8 6.9e-006 2.6e-001 # CCCCGCCC GGGCGGGG 20 3 2.4e-004 8.9e+000 # CCCCACCC GGGTGGGG 26 7 6.3e-004 2.4e+001 letter-probability matrix: alength= 4 w= 8 nsites= 84 E= 5.3e-006 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.297619 0.000000 0.261905 0.440476 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF RGAGA DREME-8 # Word RC Word Pos Neg P-value E-value # BEST RGAGA TCTCY 802 619 7.6e-010 2.9e-005 # AGAGA TCTCT 483 357 5.6e-007 2.1e-002 # GGAGA TCTCC 465 358 1.6e-005 6.1e-001 letter-probability matrix: alength= 4 w= 5 nsites= 1087 E= 2.9e-005 0.529899 0.000000 0.470101 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AAWGCGC DREME-9 # Word RC Word Pos Neg P-value E-value # BEST AAWGCGC GCGCWTT 37 3 8.4e-009 3.1e-004 # AATGCGC GCGCATT 25 1 3.7e-007 1.4e-002 # AAAGCGC GCGCTTT 12 2 6.4e-003 2.4e+002 letter-probability matrix: alength= 4 w= 7 nsites= 37 E= 3.1e-004 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.324324 0.000000 0.000000 0.675676 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF TATTCAW DREME-10 # Word RC Word Pos Neg P-value E-value # BEST TATTCAW WTGAATA 142 65 2.1e-008 7.6e-004 # TATTCAT ATGAATA 90 31 2.4e-008 8.7e-004 # TATTCAA TTGAATA 65 34 1.1e-003 3.9e+001 letter-probability matrix: alength= 4 w= 7 nsites= 157 E= 7.6e-004 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.414013 0.000000 0.000000 0.585987 MOTIF ACTGRGTC DREME-11 # Word RC Word Pos Neg P-value E-value # BEST ACTGRGTC GACYCAGT 30 2 1.1e-007 4.1e-003 # ACTGGGTC GACCCAGT 20 2 5.8e-005 2.1e+000 # ACTGAGTC GACTCAGT 10 0 9.7e-004 3.6e+001 letter-probability matrix: alength= 4 w= 8 nsites= 30 E= 4.1e-003 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.333333 0.000000 0.666667 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 MOTIF GRAATGCA DREME-12 # Word RC Word Pos Neg P-value E-value # BEST GRAATGCA TGCATTYC 58 16 3.9e-007 1.4e-002 # GAAATGCA TGCATTTC 39 11 4.1e-005 1.5e+000 # GGAATGCA TGCATTCC 19 5 3.2e-003 1.2e+002 letter-probability matrix: alength= 4 w= 8 nsites= 58 E= 1.4e-002 0.000000 0.000000 1.000000 0.000000 0.672414 0.000000 0.327586 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF TAYGTAA DREME-13 # Word RC Word Pos Neg P-value E-value # BEST TAYGTAA TTACRTA 61 18 5.0e-007 1.8e-002 # TATGTAA TTACATA 51 17 1.9e-005 7.1e-001 # TACGTAA TTACGTA 10 1 5.8e-003 2.1e+002 letter-probability matrix: alength= 4 w= 7 nsites= 63 E= 1.8e-002 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.158730 0.000000 0.841270 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AMCACG DREME-14 # Word RC Word Pos Neg P-value E-value # BEST AMCACG CGTGKT 59 17 5.6e-007 2.0e-002 # ACCACG CGTGGT 33 8 5.2e-005 1.9e+000 # AACACG CGTGTT 27 9 1.9e-003 6.9e+001 letter-probability matrix: alength= 4 w= 6 nsites= 61 E= 2.0e-002 1.000000 0.000000 0.000000 0.000000 0.442623 0.557377 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF AMATTCC DREME-15 # Word RC Word Pos Neg P-value E-value # BEST AMATTCC GGAATKT 109 50 1.0e-006 3.8e-002 # ACATTCC GGAATGT 56 23 1.1e-004 4.2e+000 # AAATTCC GGAATTT 54 28 2.5e-003 9.1e+001 letter-probability matrix: alength= 4 w= 7 nsites= 111 E= 3.8e-002 1.000000 0.000000 0.000000 0.000000 0.486486 0.513514 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 174.97 seconds