# DREME 4.12.0 # command: dreme -v 1 -oc cutrun_memechip_out/dreme_out -png -dna -p cutrun_memechip_out/seqs-centered -n cutrun_memechip_out/seqs-shuffled # positives: 4307 from cutrun_memechip_out/seqs-centered (Mon Oct 21 17:09:02 PDT 2019) # negatives: 4307 from cutrun_memechip_out/seqs-shuffled (Mon Oct 21 17:09:02 PDT 2019) # host: surya.stanford.edu # when: Mon Oct 21 17:23:49 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 0.284 C 0.216 G 0.217 T 0.283 MOTIF ATGYWAAT DREME-1 # Word RC Word Pos Neg P-value E-value # BEST ATGYWAAT ATTWRCAT 890 91 6.3e-184 2.7e-179 # ATGCAAAT ATTTGCAT 385 33 8.5e-081 3.6e-076 # ATGCTAAT ATTAGCAT 223 11 6.0e-054 2.6e-049 # ATGTAAAT ATTTACAT 226 25 5.1e-043 2.2e-038 # ATGTTAAT ATTAACAT 137 22 3.9e-022 1.7e-017 letter-probability matrix: alength= 4 w= 8 nsites= 1025 E= 2.7e-179 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 0.628293 0.000000 0.371707 0.635122 0.000000 0.000000 0.364878 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 GGTSCTGA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST GGTSCTGA TCAGSACC 261 20 1.7e-056 7.1e-052 # GGTGCTGA TCAGCACC 202 12 6.7e-047 2.8e-042 # GGTCCTGA TCAGGACC 62 8 7.7e-012 3.3e-007 letter-probability matrix: alength= 4 w= 8 nsites= 276 E= 7.1e-052 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 0.228261 0.771739 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 DTATKCA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST DTATKCA TGMATAH 839 368 1.4e-049 5.9e-045 # TTATGCA TGCATAA 255 86 1.3e-021 5.4e-017 # ATATGCA TGCATAT 197 62 2.5e-018 1.0e-013 # TTATTCA TGAATAA 207 88 7.0e-013 2.9e-008 # ATATTCA TGAATAT 141 75 3.2e-006 1.4e-001 # GTATTCA TGAATAC 80 37 3.9e-005 1.6e+000 # GTATGCA TGCATAC 67 38 2.9e-003 1.2e+002 letter-probability matrix: alength= 4 w= 7 nsites= 951 E= 5.9e-045 0.344900 0.000000 0.154574 0.500526 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 0.536278 0.463722 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GGACAGCD DREME-4 # Word RC Word Pos Neg P-value E-value # BEST GGACAGCD HGCTGTCC 218 36 4.3e-034 1.8e-029 # GGACAGCG CGCTGTCC 71 1 1.2e-020 4.9e-016 # GGACAGCA TGCTGTCC 68 11 1.5e-011 6.2e-007 # GGACAGCT AGCTGTCC 89 24 2.2e-010 9.3e-006 letter-probability matrix: alength= 4 w= 8 nsites= 232 E= 1.8e-029 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 0.293103 0.000000 0.314655 0.392241 MOTIF GGAATKY DREME-5 # Word RC Word Pos Neg P-value E-value # BEST GGAATKY RMATTCC 533 223 4.4e-033 1.8e-028 # GGAATGT ACATTCC 156 48 4.0e-015 1.7e-010 # GGAATTT AAATTCC 201 78 2.2e-014 9.4e-010 # GGAATTC GAATTCC 96 39 4.2e-007 1.7e-002 # GGAATGC GCATTCC 102 60 5.4e-004 2.3e+001 letter-probability matrix: alength= 4 w= 7 nsites= 568 E= 1.8e-028 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 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.468310 0.531690 0.000000 0.360915 0.000000 0.639085 MOTIF RGGAAR DREME-6 # Word RC Word Pos Neg P-value E-value # BEST RGGAAR YTTCCY 1638 1198 3.4e-024 1.4e-019 # AGGAAA TTTCCT 643 437 1.1e-011 4.8e-007 # GGGAAG CTTCCC 405 276 1.5e-007 6.2e-003 # GGGAAA TTTCCC 427 306 1.7e-006 7.2e-002 # AGGAAG CTTCCT 452 348 6.5e-005 2.7e+000 letter-probability matrix: alength= 4 w= 6 nsites= 2033 E= 1.4e-019 0.565667 0.000000 0.434333 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 0.000000 0.561731 0.000000 0.438269 0.000000 MOTIF ASARAGA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST ASARAGA TCTYTST 655 390 1.0e-018 4.3e-014 # AGAAAGA TCTTTCT 233 131 2.6e-008 1.1e-003 # ACAAAGA TCTTTGT 198 112 3.8e-007 1.6e-002 # AGAGAGA TCTCTCT 190 110 1.5e-006 6.3e-002 # ACAGAGA TCTCTGT 120 69 1.1e-004 4.5e+000 letter-probability matrix: alength= 4 w= 7 nsites= 770 E= 4.3e-014 1.000000 0.000000 0.000000 0.000000 0.000000 0.401299 0.598701 0.000000 1.000000 0.000000 0.000000 0.000000 0.566234 0.000000 0.433766 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 ACAAADG DREME-8 # Word RC Word Pos Neg P-value E-value # BEST ACAAADG CHTTTGT 477 261 4.0e-017 1.7e-012 # ACAAAAG CTTTTGT 208 105 1.6e-009 6.5e-005 # ACAAAGG CCTTTGT 144 76 2.0e-006 8.3e-002 # ACAAATG CATTTGT 148 87 3.3e-005 1.4e+000 letter-probability matrix: alength= 4 w= 7 nsites= 511 E= 1.7e-012 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 1.000000 0.000000 0.000000 0.000000 0.422701 0.000000 0.287671 0.289628 0.000000 0.000000 1.000000 0.000000 MOTIF CCRCCYCC DREME-9 # Word RC Word Pos Neg P-value E-value # BEST CCRCCYCC GGRGGYGG 171 59 1.9e-014 7.7e-010 # CCGCCCCC GGGGGCGG 53 17 8.9e-006 3.7e-001 # CCACCTCC GGAGGTGG 37 11 1.1e-004 4.4e+000 # CCACCCCC GGGGGTGG 56 23 1.2e-004 5.1e+000 # CCGCCTCC GGAGGCGG 32 9 2.1e-004 8.6e+000 letter-probability matrix: alength= 4 w= 8 nsites= 190 E= 7.7e-010 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.505263 0.000000 0.494737 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.626316 0.000000 0.373684 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF ATGBARA DREME-10 # Word RC Word Pos Neg P-value E-value # BEST ATGBARA TYTVCAT 643 413 2.2e-014 9.0e-010 # ATGTAAA TTTACAT 120 60 3.7e-006 1.5e-001 # ATGTAGA TCTACAT 93 44 1.5e-005 6.1e-001 # ATGGAGA TCTCCAT 96 58 1.3e-003 5.2e+001 # ATGCAGA TCTGCAT 113 74 2.4e-003 9.9e+001 # ATGGAAA TTTCCAT 161 115 2.9e-003 1.2e+002 # ATGCAAA TTTGCAT 117 82 7.3e-003 3.0e+002 letter-probability matrix: alength= 4 w= 7 nsites= 716 E= 9.0e-010 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 0.326816 0.364525 0.308659 1.000000 0.000000 0.000000 0.000000 0.571229 0.000000 0.428771 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ATGCGCAT DREME-11 # Word RC Word Pos Neg P-value E-value # BEST ATGCGCAT ATGCGCAT 44 1 1.2e-012 4.8e-008 # ATGCGCAT ATGCGCAT 44 1 1.2e-012 4.8e-008 letter-probability matrix: alength= 4 w= 8 nsites= 45 E= 4.8e-008 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 0.000000 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 0.000000 1.000000 MOTIF ACACSTGG DREME-12 # Word RC Word Pos Neg P-value E-value # BEST ACACSTGG CCASGTGT 58 7 1.8e-011 7.5e-007 # ACACCTGG CCAGGTGT 39 5 6.6e-008 2.7e-003 # ACACGTGG CCACGTGT 19 2 1.1e-004 4.5e+000 letter-probability matrix: alength= 4 w= 8 nsites= 60 E= 7.5e-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 0.000000 1.000000 0.000000 0.000000 0.000000 0.666667 0.333333 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 MOTIF CCKCCC DREME-13 # Word RC Word Pos Neg P-value E-value # BEST CCKCCC GGGMGG 545 372 8.5e-010 3.5e-005 # CCTCCC GGGAGG 413 278 4.9e-008 2.0e-003 # CCGCCC GGGCGG 168 111 3.1e-004 1.3e+001 letter-probability matrix: alength= 4 w= 6 nsites= 643 E= 3.5e-005 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.287714 0.712286 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 GAAATDC DREME-14 # Word RC Word Pos Neg P-value E-value # BEST GAAATDC GHATTTC 213 112 6.1e-009 2.5e-004 # GAAATAC GTATTTC 62 26 7.3e-005 3.0e+000 # GAAATGC GCATTTC 78 39 1.8e-004 7.4e+000 # GAAATTC GAATTTC 75 47 6.7e-003 2.8e+002 letter-probability matrix: alength= 4 w= 7 nsites= 216 E= 2.5e-004 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.287037 0.000000 0.365741 0.347222 0.000000 1.000000 0.000000 0.000000 MOTIF DTCTTTTA DREME-15 # Word RC Word Pos Neg P-value E-value # BEST DTCTTTTA TAAAAGAH 165 81 3.0e-008 1.2e-003 # ATCTTTTA TAAAAGAT 62 24 2.3e-005 9.5e-001 # GTCTTTTA TAAAAGAC 42 21 5.4e-003 2.2e+002 # TTCTTTTA TAAAAGAA 61 37 9.5e-003 3.9e+002 letter-probability matrix: alength= 4 w= 8 nsites= 165 E= 1.2e-003 0.375758 0.000000 0.254545 0.369697 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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ACAAAACA DREME-16 # Word RC Word Pos Neg P-value E-value # BEST ACAAAACA TGTTTTGT 57 13 4.6e-008 1.9e-003 # ACAAAACA TGTTTTGT 57 13 4.6e-008 1.9e-003 letter-probability matrix: alength= 4 w= 8 nsites= 59 E= 1.9e-003 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 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 MOTIF CCTGGAGR DREME-17 # Word RC Word Pos Neg P-value E-value # BEST CCTGGAGR YCTCCAGG 88 31 6.9e-008 2.8e-003 # CCTGGAGA TCTCCAGG 42 13 5.4e-005 2.2e+000 # CCTGGAGG CCTCCAGG 46 18 2.9e-004 1.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 89 E= 2.8e-003 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 0.000000 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 0.483146 0.000000 0.516854 0.000000 MOTIF GCCAGGWA DREME-18 # Word RC Word Pos Neg P-value E-value # BEST GCCAGGWA TWCCTGGC 57 14 1.2e-007 4.9e-003 # GCCAGGTA TACCTGGC 37 9 1.9e-005 7.9e-001 # GCCAGGAA TTCCTGGC 20 5 2.0e-003 8.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 59 E= 4.9e-003 0.000000 0.000000 1.000000 0.000000 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 0.338983 0.000000 0.000000 0.661017 1.000000 0.000000 0.000000 0.000000 MOTIF CAGCCHC DREME-19 # Word RC Word Pos Neg P-value E-value # BEST CAGCCHC GDGGCTG 292 189 7.8e-007 3.2e-002 # CAGCCCC GGGGCTG 121 79 1.6e-003 6.6e+001 # CAGCCTC GAGGCTG 100 66 4.7e-003 1.9e+002 # CAGCCAC GTGGCTG 78 49 6.0e-003 2.4e+002 letter-probability matrix: alength= 4 w= 7 nsites= 304 E= 3.2e-002 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 0.000000 1.000000 0.000000 0.000000 0.259868 0.411184 0.000000 0.328947 0.000000 1.000000 0.000000 0.000000 MOTIF GACAGTTY DREME-20 # Word RC Word Pos Neg P-value E-value # BEST GACAGTTY RAACTGTC 53 14 8.1e-007 3.3e-002 # GACAGTTC GAACTGTC 23 3 4.3e-005 1.7e+000 # GACAGTTT AAACTGTC 30 11 2.1e-003 8.6e+001 letter-probability matrix: alength= 4 w= 8 nsites= 53 E= 3.3e-002 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 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.433962 0.000000 0.566038 MOTIF AYATTTA DREME-21 # Word RC Word Pos Neg P-value E-value # BEST AYATTTA TAAATRT 215 128 9.6e-007 3.9e-002 # ATATTTA TAAATAT 122 67 3.2e-005 1.3e+000 # ACATTTA TAAATGT 99 62 2.0e-003 8.2e+001 letter-probability matrix: alength= 4 w= 7 nsites= 224 E= 3.9e-002 1.000000 0.000000 0.000000 0.000000 0.000000 0.446429 0.000000 0.553571 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 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 541.14 seconds