# DREME 4.12.0 # command: dreme -v 1 -oc memeout_tam/dreme_out -png -dna -p memeout_tam/seqs-centered -n memeout_tam/seqs-shuffled # positives: 5269 from memeout_tam/seqs-centered (Thu Nov 05 03:00:24 PST 2020) # negatives: 5269 from memeout_tam/seqs-shuffled (Thu Nov 05 03:00:24 PST 2020) # host: surya.stanford.edu # when: Thu Nov 05 03:11:49 PST 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 0.246 C 0.254 G 0.256 T 0.244 MOTIF RKGTCA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST RKGTCA TGACMY 3661 1304 7.8e-479 3.5e-474 # AGGTCA TGACCT 2164 410 1.6e-371 7.0e-367 # GGGTCA TGACCC 1071 372 1.5e-090 6.6e-086 # ATGTCA TGACAT 885 280 2.7e-082 1.2e-077 # GTGTCA TGACAC 633 389 4.7e-016 2.1e-011 letter-probability matrix: alength= 4 w= 6 nsites= 5391 E= 3.5e-474 0.655352 0.000000 0.344648 0.000000 0.000000 0.000000 0.695418 0.304582 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF RYAAAYA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST RYAAAYA TRTTTRY 1586 415 5.8e-196 2.5e-191 # GCAAACA TGTTTGC 427 103 2.0e-050 8.4e-046 # GTAAACA TGTTTAC 306 64 1.7e-040 7.1e-036 # GTAAATA TATTTAC 181 17 1.2e-036 5.0e-032 # ACAAACA TGTTTGT 357 114 8.8e-032 3.8e-027 # GCAAATA TATTTGC 197 34 5.9e-030 2.5e-025 # ATAAACA TGTTTAT 158 33 2.2e-021 9.4e-017 # ACAAATA TATTTGT 167 52 7.7e-016 3.3e-011 # ATAAATA TATTTAT 104 23 6.2e-014 2.7e-009 letter-probability matrix: alength= 4 w= 7 nsites= 1891 E= 2.5e-191 0.404019 0.000000 0.595981 0.000000 0.000000 0.609201 0.000000 0.390799 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 0.675833 0.000000 0.324167 1.000000 0.000000 0.000000 0.000000 MOTIF AGGGCR DREME-3 # Word RC Word Pos Neg P-value E-value # BEST AGGGCR YGCCCT 1349 644 3.7e-070 1.6e-065 # AGGGCA TGCCCT 1172 542 2.1e-063 8.9e-059 # AGGGCG CGCCCT 236 113 9.8e-012 4.2e-007 letter-probability matrix: alength= 4 w= 6 nsites= 1585 E= 1.6e-065 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 1.000000 0.000000 0.000000 0.840379 0.000000 0.159621 0.000000 MOTIF TTATCW DREME-4 # Word RC Word Pos Neg P-value E-value # BEST TTATCW WGATAA 752 277 1.1e-056 4.5e-052 # TTATCT AGATAA 477 129 8.4e-051 3.5e-046 # TTATCA TGATAA 302 154 6.4e-013 2.7e-008 letter-probability matrix: alength= 4 w= 6 nsites= 803 E= 4.5e-052 0.000000 0.000000 0.000000 1.000000 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 1.000000 0.000000 0.000000 0.386052 0.000000 0.000000 0.613948 MOTIF CCTSRGGC DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CCTSRGGC GCCYSAGG 401 139 3.0e-032 1.3e-027 # CCTGAGGC GCCTCAGG 148 42 1.4e-015 5.8e-011 # CCTGGGGC GCCCCAGG 171 58 1.1e-014 4.6e-010 # CCTCAGGC GCCTGAGG 107 43 7.3e-008 3.1e-003 # CCTCGGGC GCCCGAGG 32 9 2.1e-004 8.8e+000 letter-probability matrix: alength= 4 w= 8 nsites= 411 E= 1.3e-027 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 0.265207 0.734793 0.000000 0.498783 0.000000 0.501217 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CCHGGGM DREME-6 # Word RC Word Pos Neg P-value E-value # BEST CCHGGGM KCCCDGG 822 479 1.2e-024 5.1e-020 # CCAGGGC GCCCTGG 185 79 1.7e-011 6.9e-007 # CCTGGGC GCCCAGG 266 150 3.6e-009 1.5e-004 # CCCGGGC GCCCGGG 76 30 4.1e-006 1.7e-001 # CCAGGGA TCCCTGG 199 127 3.0e-005 1.3e+000 # CCTGGGA TCCCAGG 199 138 4.3e-004 1.8e+001 # CCCGGGA TCCCGGG 52 23 5.2e-004 2.2e+001 letter-probability matrix: alength= 4 w= 7 nsites= 891 E= 5.1e-020 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.375982 0.120090 0.000000 0.503928 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.469136 0.530864 0.000000 0.000000 MOTIF GGTSAC DREME-7 # Word RC Word Pos Neg P-value E-value # BEST GGTSAC GTSACC 526 267 3.7e-022 1.6e-017 # GGTGAC GTCACC 366 182 2.7e-016 1.1e-011 # GGTCAC GTGACC 255 113 1.8e-014 7.6e-010 letter-probability matrix: alength= 4 w= 6 nsites= 577 E= 1.6e-017 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 0.393414 0.606586 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CWGGAA DREME-8 # Word RC Word Pos Neg P-value E-value # BEST CWGGAA TTCCWG 1113 761 1.6e-019 6.5e-015 # CAGGAA TTCCTG 612 400 1.3e-012 5.4e-008 # CTGGAA TTCCAG 580 390 8.5e-011 3.5e-006 letter-probability matrix: alength= 4 w= 6 nsites= 1242 E= 6.5e-015 0.000000 1.000000 0.000000 0.000000 0.517713 0.000000 0.000000 0.482287 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 MOTIF AGRTTA DREME-9 # Word RC Word Pos Neg P-value E-value # BEST AGRTTA TAAYCT 487 268 5.7e-017 2.4e-012 # AGGTTA TAACCT 284 152 5.4e-011 2.2e-006 # AGATTA TAATCT 216 117 1.9e-008 8.1e-004 letter-probability matrix: alength= 4 w= 6 nsites= 526 E= 2.4e-012 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.425856 0.000000 0.574144 0.000000 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 AGGTCG DREME-10 # Word RC Word Pos Neg P-value E-value # BEST AGGTCG CGACCT 204 76 2.5e-015 1.0e-010 # AGGTCG CGACCT 204 76 2.5e-015 1.0e-010 letter-probability matrix: alength= 4 w= 6 nsites= 209 E= 1.0e-010 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 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF ACAGGHT DREME-11 # Word RC Word Pos Neg P-value E-value # BEST ACAGGHT ADCCTGT 391 227 5.4e-012 2.2e-007 # ACAGGTT AACCTGT 132 71 9.3e-006 3.8e-001 # ACAGGAT ATCCTGT 124 66 1.3e-005 5.4e-001 # ACAGGCT AGCCTGT 147 93 2.6e-004 1.1e+001 letter-probability matrix: alength= 4 w= 7 nsites= 417 E= 2.2e-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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.321343 0.362110 0.000000 0.316547 0.000000 0.000000 0.000000 1.000000 MOTIF CCNGGC DREME-12 # Word RC Word Pos Neg P-value E-value # BEST CCNGGC GCCNGG 1086 839 2.7e-010 1.1e-005 # CCAGGC GCCTGG 554 422 5.2e-006 2.1e-001 # CCTGGC GCCAGG 581 450 9.9e-006 4.1e-001 # CCGGGC GCCCGG 159 94 2.1e-005 8.7e-001 # CCCGGC GCCGGG 189 121 5.3e-005 2.2e+000 letter-probability matrix: alength= 4 w= 6 nsites= 1249 E= 1.1e-005 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.369095 0.128903 0.092874 0.409127 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF RCACACAS DREME-13 # Word RC Word Pos Neg P-value E-value # BEST RCACACAS STGTGTGY 203 100 9.8e-010 4.0e-005 # ACACACAC GTGTGTGT 63 26 5.1e-005 2.1e+000 # ACACACAG CTGTGTGT 70 34 2.5e-004 1.0e+001 # GCACACAC GTGTGTGC 49 21 5.3e-004 2.1e+001 # GCACACAG CTGTGTGC 56 33 9.3e-003 3.8e+002 letter-probability matrix: alength= 4 w= 8 nsites= 241 E= 4.0e-005 0.589212 0.000000 0.410788 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 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.522822 0.477178 0.000000 MOTIF CYGGGGCA DREME-14 # Word RC Word Pos Neg P-value E-value # BEST CYGGGGCA TGCCCCRG 101 33 1.3e-009 5.3e-005 # CTGGGGCA TGCCCCAG 79 31 2.4e-006 9.7e-002 # CCGGGGCA TGCCCCGG 22 2 1.8e-005 7.2e-001 letter-probability matrix: alength= 4 w= 8 nsites= 101 E= 5.3e-005 0.000000 1.000000 0.000000 0.000000 0.000000 0.217822 0.000000 0.782178 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AAAGTCAM DREME-15 # Word RC Word Pos Neg P-value E-value # BEST AAAGTCAM KTGACTTT 100 34 4.0e-009 1.6e-004 # AAAGTCAA TTGACTTT 64 23 5.8e-006 2.4e-001 # AAAGTCAC GTGACTTT 36 11 1.7e-004 6.8e+000 letter-probability matrix: alength= 4 w= 8 nsites= 100 E= 1.6e-004 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 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.640000 0.360000 0.000000 0.000000 MOTIF ARGAATGY DREME-16 # Word RC Word Pos Neg P-value E-value # BEST ARGAATGY RCATTCYT 150 61 2.6e-010 1.1e-005 # AGGAATGT ACATTCCT 40 15 4.9e-004 2.0e+001 # AAGAATGT ACATTCTT 35 13 1.0e-003 4.1e+001 # AGGAATGC GCATTCCT 37 16 2.7e-003 1.1e+002 # AAGAATGC GCATTCTT 38 17 3.2e-003 1.3e+002 letter-probability matrix: alength= 4 w= 8 nsites= 151 E= 1.1e-005 1.000000 0.000000 0.000000 0.000000 0.490066 0.000000 0.509934 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 1.000000 0.000000 0.000000 0.496689 0.000000 0.503311 MOTIF ARATA DREME-17 # Word RC Word Pos Neg P-value E-value # BEST ARATA TATYT 973 757 7.6e-009 3.1e-004 # AGATA TATCT 537 402 2.2e-006 9.1e-002 # AAATA TATTT 488 394 5.3e-004 2.2e+001 letter-probability matrix: alength= 4 w= 5 nsites= 1090 E= 3.1e-004 1.000000 0.000000 0.000000 0.000000 0.472477 0.000000 0.527523 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 MOTIF TCTGGGMA DREME-18 # Word RC Word Pos Neg P-value E-value # BEST TCTGGGMA TKCCCAGA 107 46 3.7e-007 1.5e-002 # TCTGGGAA TTCCCAGA 44 13 2.3e-005 9.0e-001 # TCTGGGCA TGCCCAGA 63 33 1.4e-003 5.5e+001 letter-probability matrix: alength= 4 w= 8 nsites= 108 E= 1.5e-002 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.416667 0.583333 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GAYCTTGC DREME-19 # Word RC Word Pos Neg P-value E-value # BEST GAYCTTGC GCAAGRTC 59 17 6.4e-007 2.6e-002 # GACCTTGC GCAAGGTC 36 8 1.2e-005 4.9e-001 # GATCTTGC GCAAGATC 23 9 9.9e-003 4.0e+002 letter-probability matrix: alength= 4 w= 8 nsites= 59 E= 2.6e-002 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.610169 0.000000 0.389831 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 0.000000 1.000000 0.000000 0.000000 MOTIF CTGTAAW DREME-20 # Word RC Word Pos Neg P-value E-value # BEST CTGTAAW WTTACAG 133 66 9.4e-007 3.8e-002 # CTGTAAA TTTACAG 76 36 9.2e-005 3.7e+000 # CTGTAAT ATTACAG 57 30 2.4e-003 9.7e+001 letter-probability matrix: alength= 4 w= 7 nsites= 133 E= 3.8e-002 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 1.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.571429 0.000000 0.000000 0.428571 # Stopping reason: E-value threshold exceeded # Running time: 472.20 seconds