# DREME 4.12.0 # command: dreme -v 1 -oc gm_memeout/dreme_out -png -dna -p gm_memeout/seqs-centered -n gm_memeout/seqs-shuffled # positives: 596 from gm_memeout/seqs-centered (Sat Nov 23 15:54:38 PST 2019) # negatives: 596 from gm_memeout/seqs-shuffled (Sat Nov 23 15:54:38 PST 2019) # host: kali.stanford.edu # when: Sat Nov 23 16:28:11 PST 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 0.299 C 0.199 G 0.200 T 0.302 MOTIF RGTTCRA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST RGTTCRA TYGAACY 143 31 2.3e-021 7.4e-017 # GGTTCGA TCGAACC 69 10 5.9e-013 1.9e-008 # AGTTCGA TCGAACT 27 5 4.6e-005 1.5e+000 # GGTTCAA TTGAACC 32 9 1.7e-004 5.5e+000 # AGTTCAA TTGAACT 25 9 4.1e-003 1.3e+002 letter-probability matrix: alength= 4 w= 7 nsites= 146 E= 7.4e-017 0.328767 0.000000 0.671233 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.404110 0.000000 0.595890 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AAAAAWAW DREME-2 # Word RC Word Pos Neg P-value E-value # BEST AAAAAWAW WTWTTTTT 142 58 3.7e-011 1.2e-006 # AAAAAAAT ATTTTTTT 77 27 1.5e-007 4.9e-003 # AAAAATAA TTATTTTT 51 18 2.7e-005 8.5e-001 # AAAAAAAA TTTTTTTT 51 24 8.8e-004 2.8e+001 # AAAAATAT ATATTTTT 23 9 9.2e-003 2.9e+002 letter-probability matrix: alength= 4 w= 8 nsites= 156 E= 1.2e-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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.576923 0.000000 0.000000 0.423077 1.000000 0.000000 0.000000 0.000000 0.538462 0.000000 0.000000 0.461538 MOTIF AGTGGTW DREME-3 # Word RC Word Pos Neg P-value E-value # BEST AGTGGTW WACCACT 62 10 4.1e-011 1.3e-006 # AGTGGTA TACCACT 32 2 2.4e-008 7.5e-004 # AGTGGTT AACCACT 37 8 5.4e-006 1.7e-001 letter-probability matrix: alength= 4 w= 7 nsites= 71 E= 1.3e-006 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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.450704 0.000000 0.000000 0.549296 MOTIF CCATDC DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CCATDC GHATGG 88 36 4.8e-007 1.5e-002 # CCATAC GTATGG 33 12 1.0e-003 3.2e+001 # CCATGC GCATGG 22 7 3.7e-003 1.2e+002 # CCATTC GAATGG 37 18 6.1e-003 1.9e+002 letter-probability matrix: alength= 4 w= 6 nsites= 93 E= 1.5e-002 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 0.000000 1.000000 0.365591 0.000000 0.236559 0.397849 0.000000 1.000000 0.000000 0.000000 MOTIF GGCGTGY DREME-5 # Word RC Word Pos Neg P-value E-value # BEST GGCGTGY RCACGCC 20 0 8.1e-007 2.5e-002 # GGCGTGT ACACGCC 12 0 2.3e-004 7.1e+000 # GGCGTGC GCACGCC 8 0 3.8e-003 1.2e+002 letter-probability matrix: alength= 4 w= 7 nsites= 20 E= 2.5e-002 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 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.400000 0.000000 0.600000 # Stopping reason: E-value threshold exceeded # Running time: 49.05 seconds