# DREME 4.12.0 # command: dreme -v 1 -oc cutnotseq_memechip_out/dreme_out -png -dna -p cutnotseq_memechip_out/seqs-centered -n cutnotseq_memechip_out/seqs-shuffled # positives: 2638 from cutnotseq_memechip_out/seqs-centered (Mon Oct 21 17:04:10 PDT 2019) # negatives: 2638 from cutnotseq_memechip_out/seqs-shuffled (Mon Oct 21 17:04:10 PDT 2019) # host: surya.stanford.edu # when: Mon Oct 21 17:16:37 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 0.267 C 0.229 G 0.233 T 0.270 MOTIF ATGYWAAT DREME-1 # Word RC Word Pos Neg P-value E-value # BEST ATGYWAAT ATTWRCAT 604 51 1.1e-135 4.6e-131 # ATGCAAAT ATTTGCAT 258 15 3.5e-061 1.4e-056 # ATGCTAAT ATTAGCAT 166 7 6.0e-042 2.5e-037 # ATGTTAAT ATTAACAT 131 12 2.4e-027 9.8e-023 # ATGTAAAT ATTTACAT 125 17 2.7e-022 1.1e-017 letter-probability matrix: alength= 4 w= 8 nsites= 738 E= 4.6e-131 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 0.636856 0.000000 0.363144 0.566396 0.000000 0.000000 0.433604 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 GGTNCTGA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST GGTNCTGA TCAGNACC 485 28 1.4e-118 5.8e-114 # GGTGCTGA TCAGCACC 333 12 2.1e-087 8.6e-083 # GGTCCTGA TCAGGACC 93 5 1.1e-022 4.4e-018 # GGTACTGA TCAGTACC 31 2 6.1e-008 2.5e-003 # GGTTCTGA TCAGAACC 37 9 1.9e-005 7.7e-001 letter-probability matrix: alength= 4 w= 8 nsites= 510 E= 5.8e-114 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.060784 0.184314 0.682353 0.072549 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GGACAGCD DREME-3 # Word RC Word Pos Neg P-value E-value # BEST GGACAGCD HGCTGTCC 370 24 2.0e-086 8.0e-082 # GGACAGCG CGCTGTCC 132 8 5.2e-031 2.1e-026 # GGACAGCT AGCTGTCC 138 11 4.4e-030 1.8e-025 # GGACAGCA TGCTGTCC 108 5 5.1e-027 2.1e-022 letter-probability matrix: alength= 4 w= 8 nsites= 384 E= 8.0e-082 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.281250 0.000000 0.351562 0.367188 MOTIF TGMATAW DREME-4 # Word RC Word Pos Neg P-value E-value # BEST TGMATAW WTATKCA 415 166 9.4e-029 3.8e-024 # TGCATAA TTATGCA 151 43 4.5e-016 1.8e-011 # TGCATAT ATATGCA 121 33 1.2e-013 5.0e-009 # TGAATAA TTATTCA 118 51 8.7e-008 3.5e-003 # TGAATAT ATATTCA 88 46 1.5e-004 6.1e+000 letter-probability matrix: alength= 4 w= 7 nsites= 478 E= 3.8e-024 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.447699 0.552301 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.573222 0.000000 0.000000 0.426778 MOTIF AHGGACAG DREME-5 # Word RC Word Pos Neg P-value E-value # BEST AHGGACAG CTGTCCDT 95 10 4.0e-019 1.6e-014 # ATGGACAG CTGTCCAT 48 4 5.4e-011 2.2e-006 # ACGGACAG CTGTCCGT 19 1 1.9e-005 7.8e-001 # AAGGACAG CTGTCCTT 28 5 3.2e-005 1.3e+000 letter-probability matrix: alength= 4 w= 8 nsites= 96 E= 1.6e-014 1.000000 0.000000 0.000000 0.000000 0.291667 0.197917 0.000000 0.510417 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF AMATTCC DREME-6 # Word RC Word Pos Neg P-value E-value # BEST AMATTCC GGAATKT 217 76 4.8e-018 1.9e-013 # ACATTCC GGAATGT 99 27 2.3e-011 9.1e-007 # AAATTCC GGAATTT 121 49 9.8e-009 3.9e-004 letter-probability matrix: alength= 4 w= 7 nsites= 224 E= 1.9e-013 1.000000 0.000000 0.000000 0.000000 0.549107 0.450893 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 MOTIF CCCGCCY DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CCCGCCY RGGCGGG 172 54 2.0e-016 7.9e-012 # CCCGCCC GGGCGGG 116 39 1.3e-010 5.1e-006 # CCCGCCT AGGCGGG 63 19 4.8e-007 1.9e-002 letter-probability matrix: alength= 4 w= 7 nsites= 204 E= 7.9e-012 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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.671569 0.000000 0.328431 MOTIF ATGBARA DREME-8 # Word RC Word Pos Neg P-value E-value # BEST ATGBARA TYTVCAT 370 192 8.7e-016 3.5e-011 # ATGTAGA TCTACAT 57 19 6.5e-006 2.6e-001 # ATGTAAA TTTACAT 71 28 7.6e-006 3.1e-001 # ATGCAAA TTTGCAT 71 33 1.1e-004 4.3e+000 # ATGGAAA TTTCCAT 81 46 1.1e-003 4.3e+001 # ATGCAGA TCTGCAT 71 39 1.3e-003 5.3e+001 # ATGGAGA TCTCCAT 64 34 1.5e-003 5.9e+001 letter-probability matrix: alength= 4 w= 7 nsites= 427 E= 3.5e-011 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 0.339578 0.346604 0.313817 1.000000 0.000000 0.000000 0.000000 0.536300 0.000000 0.463700 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ARAGRAA DREME-9 # Word RC Word Pos Neg P-value E-value # BEST ARAGRAA TTYCTYT 441 248 1.5e-015 6.1e-011 # AAAGAAA TTTCTTT 139 66 1.1e-007 4.4e-003 # AAAGGAA TTCCTTT 143 71 2.9e-007 1.2e-002 # AGAGGAA TTCCTCT 85 41 4.6e-005 1.8e+000 # AGAGAAA TTTCTCT 124 86 4.5e-003 1.8e+002 letter-probability matrix: alength= 4 w= 7 nsites= 498 E= 6.1e-011 1.000000 0.000000 0.000000 0.000000 0.574297 0.000000 0.425703 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.538153 0.000000 0.461847 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ACAAWRG DREME-10 # Word RC Word Pos Neg P-value E-value # BEST ACAAWRG CYWTTGT 304 163 4.2e-012 1.7e-007 # ACAATAG CTATTGT 59 19 2.8e-006 1.1e-001 # ACAAAAG CTTTTGT 113 62 5.5e-005 2.2e+000 # ACAAAGG CCTTTGT 77 44 1.5e-003 6.2e+001 # ACAATGG CCATTGT 70 39 1.8e-003 7.0e+001 letter-probability matrix: alength= 4 w= 7 nsites= 325 E= 1.7e-007 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 0.600000 0.000000 0.000000 0.400000 0.541538 0.000000 0.458462 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF GGGWGGR DREME-11 # Word RC Word Pos Neg P-value E-value # BEST GGGWGGR YCCWCCC 310 183 1.1e-009 4.2e-005 # GGGAGGG CCCTCCC 125 67 1.2e-005 4.9e-001 # GGGTGGG CCCACCC 70 40 2.5e-003 9.9e+001 # GGGTGGA TCCACCC 68 39 3.0e-003 1.2e+002 # GGGAGGA TCCTCCC 78 47 3.2e-003 1.3e+002 letter-probability matrix: alength= 4 w= 7 nsites= 337 E= 4.2e-005 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.602374 0.000000 0.000000 0.397626 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.421365 0.000000 0.578635 0.000000 MOTIF CCAGGWA DREME-12 # Word RC Word Pos Neg P-value E-value # BEST CCAGGWA TWCCTGG 121 52 5.1e-008 2.0e-003 # CCAGGTA TACCTGG 49 17 4.6e-005 1.8e+000 # CCAGGAA TTCCTGG 72 35 1.9e-004 7.7e+000 letter-probability matrix: alength= 4 w= 7 nsites= 123 E= 2.0e-003 0.000000 1.000000 0.000000 0.000000 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 0.585366 0.000000 0.000000 0.414634 1.000000 0.000000 0.000000 0.000000 MOTIF AGTGCTGA DREME-13 # Word RC Word Pos Neg P-value E-value # BEST AGTGCTGA TCAGCACT 49 10 1.2e-007 4.6e-003 # AGTGCTGA TCAGCACT 49 10 1.2e-007 4.6e-003 letter-probability matrix: alength= 4 w= 8 nsites= 49 E= 4.6e-003 1.000000 0.000000 0.000000 0.000000 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GGAGAGCK DREME-14 # Word RC Word Pos Neg P-value E-value # BEST GGAGAGCK MGCTCTCC 65 20 4.2e-007 1.7e-002 # GGAGAGCT AGCTCTCC 42 11 1.0e-005 4.1e-001 # GGAGAGCG CGCTCTCC 25 9 4.4e-003 1.7e+002 letter-probability matrix: alength= 4 w= 8 nsites= 67 E= 1.7e-002 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.373134 0.626866 MOTIF AGAGVCAG DREME-15 # Word RC Word Pos Neg P-value E-value # BEST AGAGVCAG CTGBCTCT 87 35 1.1e-006 4.2e-002 # AGAGGCAG CTGCCTCT 36 13 6.7e-004 2.6e+001 # AGAGCCAG CTGGCTCT 24 9 6.6e-003 2.6e+002 # AGAGACAG CTGTCTCT 29 13 9.5e-003 3.8e+002 letter-probability matrix: alength= 4 w= 8 nsites= 91 E= 4.2e-002 1.000000 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 0.000000 0.340659 0.263736 0.395604 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 273.35 seconds