# DREME 4.12.0 # command: dreme -v 1 -oc cutnotseq_memechip_out/dreme_out -png -dna -p cutnotseq_memechip_out/seqs-centered -n cutnotseq_memechip_out/seqs-shuffled # positives: 702 from cutnotseq_memechip_out/seqs-centered (Mon Oct 21 16:55:05 PDT 2019) # negatives: 702 from cutnotseq_memechip_out/seqs-shuffled (Mon Oct 21 16:55:05 PDT 2019) # host: surya.stanford.edu # when: Mon Oct 21 17:05:51 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 0.275 C 0.228 G 0.233 T 0.263 MOTIF ATGYWAAT DREME-1 # Word RC Word Pos Neg P-value E-value # BEST ATGYWAAT ATTWRCAT 134 15 8.4e-028 2.7e-023 # ATGCAAAT ATTTGCAT 52 4 2.4e-012 7.6e-008 # ATGCTAAT ATTAGCAT 34 4 2.2e-007 7.0e-003 # ATGTAAAT ATTTACAT 31 3 2.9e-007 9.3e-003 # ATGTTAAT ATTAACAT 26 4 2.5e-005 8.0e-001 letter-probability matrix: alength= 4 w= 8 nsites= 153 E= 2.7e-023 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 0.601307 0.000000 0.398693 0.575163 0.000000 0.000000 0.424837 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 GGTBCTGA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST GGTBCTGA TCAGVACC 96 3 9.6e-027 3.1e-022 # GGTGCTGA TCAGCACC 65 3 4.3e-017 1.4e-012 # GGTCCTGA TCAGGACC 20 0 8.3e-007 2.7e-002 # GGTTCTGA TCAGAACC 11 0 4.7e-004 1.5e+001 letter-probability matrix: alength= 4 w= 8 nsites= 105 E= 3.1e-022 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 0.190476 0.704762 0.104762 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 CTGTCCR DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CTGTCCR YGGACAG 78 13 1.9e-013 5.9e-009 # CTGTCCA TGGACAG 52 7 3.2e-010 1.0e-005 # CTGTCCG CGGACAG 28 6 8.2e-005 2.6e+000 letter-probability matrix: alength= 4 w= 7 nsites= 85 E= 5.9e-009 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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.635294 0.000000 0.364706 0.000000 MOTIF ASAAAASA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST ASAAAASA TSTTTTST 48 5 1.8e-010 5.7e-006 # ACAAAACA TGTTTTGT 14 0 5.7e-005 1.8e+000 # ACAAAAGA TCTTTTGT 13 1 8.7e-004 2.7e+001 # AGAAAAGA TCTTTTCT 13 2 3.5e-003 1.1e+002 # AGAAAACA TGTTTTCT 12 2 6.3e-003 2.0e+002 letter-probability matrix: alength= 4 w= 8 nsites= 56 E= 5.7e-006 1.000000 0.000000 0.000000 0.000000 0.000000 0.535714 0.464286 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 0.517857 0.482143 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GCCAGGRA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST GCCAGGRA TYCCTGGC 25 1 3.3e-007 1.0e-002 # GCCAGGAA TTCCTGGC 15 0 2.8e-005 8.9e-001 # GCCAGGGA TCCCTGGC 10 1 5.7e-003 1.8e+002 letter-probability matrix: alength= 4 w= 8 nsites= 25 E= 1.0e-002 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 0.600000 0.000000 0.400000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AGGRAA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST AGGRAA TTYCCT 165 96 1.4e-006 4.4e-002 # AGGAAA TTTCCT 98 57 3.1e-004 9.8e+000 # AGGGAA TTCCCT 79 45 9.1e-004 2.8e+001 letter-probability matrix: alength= 4 w= 6 nsites= 191 E= 4.4e-002 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.549738 0.000000 0.450262 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF TCCAGGR DREME-7 # Word RC Word Pos Neg P-value E-value # BEST TCCAGGR YCCTGGA 49 12 6.0e-007 1.9e-002 # TCCAGGA TCCTGGA 28 4 7.9e-006 2.4e-001 # TCCAGGG CCCTGGA 22 8 7.5e-003 2.3e+002 letter-probability matrix: alength= 4 w= 7 nsites= 51 E= 1.9e-002 0.000000 0.000000 0.000000 1.000000 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 0.568627 0.000000 0.431373 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 39.27 seconds