# 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: 697 from intersection_memechip_out/seqs-centered (Mon Oct 21 18:59:35 PDT 2019) # negatives: 697 from intersection_memechip_out/seqs-shuffled (Mon Oct 21 18:59:35 PDT 2019) # host: surya.stanford.edu # when: Mon Oct 21 19:12:21 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 0.281 C 0.217 G 0.218 T 0.284 MOTIF ATGYWAAT DREME-1 # Word RC Word Pos Neg P-value E-value # BEST ATGYWAAT ATTWRCAT 275 16 1.2e-075 3.7e-071 # ATGCAAAT ATTTGCAT 137 4 5.2e-039 1.7e-034 # ATGCTAAT ATTAGCAT 72 7 1.1e-015 3.4e-011 # ATGTAAAT ATTTACAT 58 3 5.4e-015 1.7e-010 # ATGTTAAT ATTAACAT 36 2 1.8e-009 5.7e-005 letter-probability matrix: alength= 4 w= 8 nsites= 320 E= 3.7e-071 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 0.693750 0.000000 0.306250 0.650000 0.000000 0.000000 0.350000 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 TGMATAW DREME-2 # Word RC Word Pos Neg P-value E-value # BEST TGMATAW WTATKCA 213 64 1.7e-024 5.3e-020 # TGCATAT ATATGCA 70 11 1.6e-012 5.0e-008 # TGCATAA TTATGCA 82 18 6.4e-012 2.0e-007 # TGAATAA TTATTCA 62 22 4.0e-006 1.3e-001 # TGAATAT ATATTCA 37 14 7.3e-004 2.3e+001 letter-probability matrix: alength= 4 w= 7 nsites= 252 E= 5.3e-020 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.404762 0.595238 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 0.595238 0.000000 0.000000 0.404762 MOTIF KAAAGRA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST KAAAGRA TYCTTTM 123 45 6.0e-011 1.9e-006 # GAAAGGA TCCTTTC 35 11 2.2e-004 6.7e+000 # GAAAGAA TTCTTTC 40 15 4.0e-004 1.2e+001 # TAAAGAA TTCTTTA 27 10 3.4e-003 1.1e+002 # TAAAGGA TCCTTTA 26 11 9.2e-003 2.9e+002 letter-probability matrix: alength= 4 w= 7 nsites= 127 E= 1.9e-006 0.000000 0.000000 0.590551 0.409449 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 0.519685 0.000000 0.480315 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CATRACA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CATRACA TGTYATG 66 15 1.6e-009 5.0e-005 # CATGACA TGTCATG 39 8 2.0e-006 6.0e-002 # CATAACA TGTTATG 28 8 5.2e-004 1.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 68 E= 5.0e-005 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.426471 0.000000 0.573529 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 CAGGWR DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CAGGWR YWCCTG 242 144 2.8e-009 8.6e-005 # CAGGTA TACCTG 64 28 6.7e-005 2.1e+000 # CAGGTG CACCTG 72 35 1.3e-004 4.0e+000 # CAGGAA TTCCTG 85 51 1.4e-003 4.3e+001 # CAGGAG CTCCTG 67 41 6.0e-003 1.8e+002 letter-probability matrix: alength= 4 w= 6 nsites= 315 E= 8.6e-005 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 0.526984 0.000000 0.000000 0.473016 0.530159 0.000000 0.469841 0.000000 MOTIF CTCCCRC DREME-6 # Word RC Word Pos Neg P-value E-value # BEST CTCCCRC GYGGGAG 30 2 9.3e-008 2.8e-003 # CTCCCAC GTGGGAG 20 2 5.4e-005 1.6e+000 # CTCCCGC GCGGGAG 11 0 4.7e-004 1.4e+001 letter-probability matrix: alength= 4 w= 7 nsites= 30 E= 2.8e-003 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 1.000000 0.000000 0.000000 0.666667 0.000000 0.333333 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF ATGCGCAT DREME-7 # Word RC Word Pos Neg P-value E-value # BEST ATGCGCAT ATGCGCAT 22 0 2.0e-007 6.1e-003 # ATGCGCAT ATGCGCAT 22 0 2.0e-007 6.1e-003 letter-probability matrix: alength= 4 w= 8 nsites= 22 E= 6.1e-003 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 CCTTTSA DREME-8 # Word RC Word Pos Neg P-value E-value # BEST CCTTTSA TSAAAGG 61 19 7.0e-007 2.1e-002 # CCTTTCA TGAAAGG 30 8 2.0e-004 5.9e+000 # CCTTTGA TCAAAGG 33 11 5.3e-004 1.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 67 E= 2.1e-002 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 0.462687 0.537313 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 40.28 seconds