# 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: 1204 from intersection_memechip_out/seqs-centered (Mon Oct 21 19:01:46 PDT 2019) # negatives: 1204 from intersection_memechip_out/seqs-shuffled (Mon Oct 21 19:01:46 PDT 2019) # host: surya.stanford.edu # when: Mon Oct 21 19:14:16 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 0.217 G 0.216 T 0.283 MOTIF ATGYWAA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST ATGYWAA TTWRCAT 597 122 1.3e-105 4.4e-101 # ATGCAAA TTTGCAT 319 62 3.6e-050 1.3e-045 # ATGTAAA TTTACAT 144 25 3.4e-023 1.2e-018 # ATGCTAA TTAGCAT 136 24 1.1e-021 3.8e-017 # ATGTTAA TTAACAT 66 17 1.7e-008 6.0e-004 letter-probability matrix: alength= 4 w= 7 nsites= 711 E= 4.4e-101 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 0.699015 0.000000 0.300985 0.710267 0.000000 0.000000 0.289733 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CATRAYAA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST CATRAYAA TTRTYATG 194 16 1.9e-043 6.7e-039 # CATAACAA TTGTTATG 94 3 1.6e-025 5.7e-021 # CATGACAA TTGTCATG 52 4 3.4e-012 1.2e-007 # CATAATAA TTATTATG 32 6 1.1e-005 3.7e-001 # CATGATAA TTATCATG 18 3 7.1e-004 2.5e+001 letter-probability matrix: alength= 4 w= 8 nsites= 196 E= 6.7e-039 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.647959 0.000000 0.352041 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.744898 0.000000 0.255102 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF TGMATAW DREME-3 # Word RC Word Pos Neg P-value E-value # BEST TGMATAW WTATKCA 237 67 1.1e-026 3.7e-022 # TGCATAT ATATGCA 75 13 2.1e-012 7.1e-008 # TGAATAA TTATTCA 81 19 5.9e-011 2.1e-006 # TGAATAT ATATTCA 60 15 5.2e-008 1.8e-003 # TGCATAA TTATGCA 55 22 8.6e-005 3.0e+000 letter-probability matrix: alength= 4 w= 7 nsites= 268 E= 3.7e-022 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.541045 0.458955 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 0.533582 0.000000 0.000000 0.466418 MOTIF TGCGCATW DREME-4 # Word RC Word Pos Neg P-value E-value # BEST TGCGCATW WATGCGCA 59 1 2.6e-017 9.0e-013 # TGCGCATA TATGCGCA 49 0 1.1e-015 3.7e-011 # TGCGCATT AATGCGCA 19 1 1.9e-005 6.5e-001 letter-probability matrix: alength= 4 w= 8 nsites= 59 E= 9.0e-013 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 0.779661 0.000000 0.000000 0.220339 MOTIF ACAAWRG DREME-5 # Word RC Word Pos Neg P-value E-value # BEST ACAAWRG CYWTTGT 225 89 5.9e-017 2.0e-012 # ACAAAGG CCTTTGT 72 28 4.1e-006 1.4e-001 # ACAAAAG CTTTTGT 71 29 1.1e-005 3.8e-001 # ACAATAG CTATTGT 50 20 1.8e-004 6.3e+000 # ACAATGG CCATTGT 43 17 4.6e-004 1.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 240 E= 2.0e-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 0.612500 0.000000 0.000000 0.387500 0.508333 0.000000 0.491667 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF CAGGWR DREME-6 # Word RC Word Pos Neg P-value E-value # BEST CAGGWR YWCCTG 412 262 5.8e-012 2.0e-007 # CAGGTG CACCTG 130 74 2.6e-005 8.9e-001 # CAGGAA TTCCTG 149 90 3.6e-005 1.2e+000 # CAGGTA TACCTG 87 43 4.6e-005 1.6e+000 # CAGGAG CTCCTG 117 81 4.6e-003 1.6e+002 letter-probability matrix: alength= 4 w= 6 nsites= 521 E= 2.0e-007 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 0.552783 0.000000 0.000000 0.447217 0.504798 0.000000 0.495202 0.000000 MOTIF AAAGRAA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST AAAGRAA TTYCTTT 166 71 3.8e-011 1.3e-006 # AAAGAAA TTTCTTT 105 43 7.8e-008 2.6e-003 # AAAGGAA TTCCTTT 70 29 1.6e-005 5.4e-001 letter-probability matrix: alength= 4 w= 7 nsites= 182 E= 1.3e-006 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 0.593407 0.000000 0.406593 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CYTCCC DREME-8 # Word RC Word Pos Neg P-value E-value # BEST CYTCCC GGGARG 209 113 5.2e-009 1.7e-004 # CCTCCC GGGAGG 115 58 4.2e-006 1.4e-001 # CTTCCC GGGAAG 108 60 7.8e-005 2.6e+000 letter-probability matrix: alength= 4 w= 6 nsites= 234 E= 1.7e-004 0.000000 1.000000 0.000000 0.000000 0.000000 0.529915 0.000000 0.470085 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 1.000000 0.000000 0.000000 MOTIF GAGAA DREME-9 # Word RC Word Pos Neg P-value E-value # BEST GAGAA TTCTC 351 235 2.2e-008 7.3e-004 # GAGAA TTCTC 351 235 2.2e-008 7.3e-004 letter-probability matrix: alength= 4 w= 5 nsites= 409 E= 7.3e-004 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 1.000000 0.000000 0.000000 0.000000 MOTIF CCTTTSA DREME-10 # Word RC Word Pos Neg P-value E-value # BEST CCTTTSA TSAAAGG 113 50 1.8e-007 6.0e-003 # CCTTTCA TGAAAGG 63 24 1.3e-005 4.1e-001 # CCTTTGA TCAAAGG 53 26 1.4e-003 4.5e+001 letter-probability matrix: alength= 4 w= 7 nsites= 119 E= 6.0e-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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.546218 0.453782 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 82.82 seconds