# DREME 4.12.0 # command: dreme -v 1 -oc meme_out/tye7_nit/dreme_out -png -dna -p meme_out/tye7_nit/seqs-centered -n meme_out/tye7_nit/seqs-shuffled # positives: 3333 from meme_out/tye7_nit/seqs-centered (Wed May 20 12:01:05 PDT 2020) # negatives: 3333 from meme_out/tye7_nit/seqs-shuffled (Wed May 20 12:01:05 PDT 2020) # host: nandi.stanford.edu # when: Wed May 20 12:14:55 PDT 2020 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 0.313 C 0.188 G 0.188 T 0.312 MOTIF GAWGANGA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GAWGANGA TCNTCWTC 341 109 4.6e-031 2.0e-026 # GAAGAAGA TCTTCTTC 108 25 5.1e-014 2.2e-009 # GAAGATGA TCATCTTC 73 18 2.0e-009 8.6e-005 # GATGAAGA TCTTCATC 64 20 6.8e-007 3.0e-002 # GATGAGGA TCCTCATC 27 4 1.6e-005 7.0e-001 # GATGACGA TCGTCATC 34 8 3.3e-005 1.4e+000 # GAAGAGGA TCCTCTTC 39 12 9.4e-005 4.0e+000 # GATGATGA TCATCATC 59 25 1.2e-004 5.3e+000 # GAAGACGA TCGTCTTC 28 10 2.5e-003 1.1e+002 letter-probability matrix: alength= 4 w= 8 nsites= 384 E= 2.0e-026 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.580729 0.000000 0.000000 0.419271 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.401042 0.153646 0.148438 0.296875 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF YACCR DREME-2 # Word RC Word Pos Neg P-value E-value # BEST YACCR YGGTR 1448 1082 1.4e-020 6.1e-016 # TACCG CGGTA 327 195 9.8e-010 4.2e-005 # CACCA TGGTG 580 412 4.2e-009 1.8e-004 # TACCA TGGTA 626 476 4.4e-007 1.9e-002 # CACCG CGGTG 246 170 7.0e-005 3.0e+000 letter-probability matrix: alength= 4 w= 5 nsites= 1899 E= 6.1e-016 0.000000 0.462349 0.000000 0.537651 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.691943 0.000000 0.308057 0.000000 MOTIF GHAGWA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST GHAGWA TWCTDC 1143 841 3.4e-016 1.4e-011 # GAAGAA TTCTTC 489 333 3.5e-009 1.5e-004 # GCAGTA TACTGC 139 80 3.1e-005 1.3e+000 # GCAGAA TTCTGC 220 168 3.8e-003 1.6e+002 # GAAGTA TACTTC 207 158 4.8e-003 2.0e+002 # GTAGAA TTCTAC 191 144 4.9e-003 2.0e+002 # GTAGTA TACTAC 114 80 8.0e-003 3.3e+002 letter-probability matrix: alength= 4 w= 6 nsites= 1399 E= 1.4e-011 0.000000 0.000000 1.000000 0.000000 0.526090 0.258041 0.000000 0.215868 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.677627 0.000000 0.000000 0.322373 1.000000 0.000000 0.000000 0.000000 MOTIF ATATYY DREME-4 # Word RC Word Pos Neg P-value E-value # BEST ATATYY RRATAT 1025 777 4.6e-012 1.9e-007 # ATATTT AAATAT 520 375 1.1e-007 4.4e-003 # ATATTC GAATAT 300 214 4.6e-005 1.9e+000 # ATATCT AGATAT 294 225 9.3e-004 3.8e+001 # ATATCC GGATAT 187 135 1.8e-003 7.2e+001 letter-probability matrix: alength= 4 w= 6 nsites= 1226 E= 1.9e-007 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.350734 0.000000 0.649266 0.000000 0.360522 0.000000 0.639478 MOTIF CMAAGW DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CMAAGW WCTTKG 934 709 9.2e-011 3.7e-006 # CAAAGA TCTTTG 379 277 1.6e-005 6.4e-001 # CCAAGA TCTTGG 224 167 1.7e-003 7.0e+001 # CAAAGT ACTTTG 271 215 4.8e-003 1.9e+002 # CCAAGT ACTTGG 147 108 7.5e-003 3.0e+002 letter-probability matrix: alength= 4 w= 6 nsites= 1058 E= 3.7e-006 0.000000 1.000000 0.000000 0.000000 0.642722 0.357278 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 0.599244 0.000000 0.000000 0.400756 MOTIF TGGCCW DREME-6 # Word RC Word Pos Neg P-value E-value # BEST TGGCCW WGGCCA 185 89 1.6e-009 6.5e-005 # TGGCCA TGGCCA 81 28 1.5e-007 6.1e-003 # TGGCCT AGGCCA 104 61 4.4e-004 1.8e+001 letter-probability matrix: alength= 4 w= 6 nsites= 189 E= 6.5e-005 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.433862 0.000000 0.000000 0.566138 MOTIF CARTA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CARTA TAYTG 1140 946 1.7e-007 6.7e-003 # CAGTA TACTG 408 308 4.4e-005 1.8e+000 # CAATA TATTG 812 717 3.1e-003 1.2e+002 letter-probability matrix: alength= 4 w= 5 nsites= 1352 E= 6.7e-003 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.679734 0.000000 0.320266 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AGCAGBT DREME-8 # Word RC Word Pos Neg P-value E-value # BEST AGCAGBT AVCTGCT 151 76 2.3e-007 9.1e-003 # AGCAGGT ACCTGCT 51 23 7.1e-004 2.8e+001 # AGCAGCT AGCTGCT 39 16 1.3e-003 5.0e+001 # AGCAGTT AACTGCT 66 37 2.6e-003 1.0e+002 letter-probability matrix: alength= 4 w= 7 nsites= 156 E= 9.1e-003 1.000000 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 0.000000 1.000000 0.000000 0.000000 0.250000 0.326923 0.423077 0.000000 0.000000 0.000000 1.000000 MOTIF CAASG DREME-9 # Word RC Word Pos Neg P-value E-value # BEST CAASG CSTTG 890 718 4.8e-007 1.9e-002 # CAACG CGTTG 417 299 1.8e-006 6.9e-002 # CAAGG CCTTG 530 455 5.3e-003 2.1e+002 letter-probability matrix: alength= 4 w= 5 nsites= 1014 E= 1.9e-002 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.437870 0.562130 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF BTTCTTG DREME-10 # Word RC Word Pos Neg P-value E-value # BEST BTTCTTG CAAGAAV 277 177 6.8e-007 2.6e-002 # GTTCTTG CAAGAAC 73 37 3.5e-004 1.3e+001 # CTTCTTG CAAGAAG 67 39 4.0e-003 1.5e+002 # TTTCTTG CAAGAAA 144 104 5.7e-003 2.2e+002 letter-probability matrix: alength= 4 w= 7 nsites= 287 E= 2.6e-002 0.000000 0.229965 0.261324 0.508711 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 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 156.93 seconds