# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MSS11/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MSS11/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MSS11/seqs-shuffled # positives: 760 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MSS11/seqs-centered (Sat Jan 18 21:26:58 PST 2020) # negatives: 760 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MSS11/seqs-shuffled (Sat Jan 18 21:26:58 PST 2020) # host: kali.stanford.edu # when: Sat Jan 18 21:43:31 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 0.300 C 0.201 G 0.206 T 0.293 MOTIF SRGTTCGA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST SRGTTCGA TCGAACYS 92 6 2.7e-022 9.5e-018 # GGGTTCGA TCGAACCC 36 2 1.8e-009 6.5e-005 # CGGTTCGA TCGAACCG 27 2 6.6e-007 2.3e-002 # GAGTTCGA TCGAACTC 17 1 6.7e-005 2.4e+000 # CAGTTCGA TCGAACTG 12 2 6.3e-003 2.2e+002 letter-probability matrix: alength= 4 w= 8 nsites= 92 E= 9.5e-018 0.000000 0.423913 0.576087 0.000000 0.315217 0.000000 0.684783 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 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AAAAARWA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST AAAAARWA TWYTTTTT 160 68 1.9e-011 6.6e-007 # AAAAAGAA TTCTTTTT 56 17 1.6e-006 5.5e-002 # AAAAAAAA TTTTTTTT 72 33 5.2e-005 1.8e+000 # AAAAAATA TATTTTTT 51 20 1.1e-004 3.8e+000 # AAAAAGTA TACTTTTT 19 6 6.9e-003 2.4e+002 letter-probability matrix: alength= 4 w= 8 nsites= 180 E= 6.6e-007 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 0.600000 0.000000 0.400000 0.000000 0.638889 0.000000 0.000000 0.361111 1.000000 0.000000 0.000000 0.000000 MOTIF AGTGGTW DREME-3 # Word RC Word Pos Neg P-value E-value # BEST AGTGGTW WACCACT 65 16 8.0e-009 2.8e-004 # AGTGGTT AACCACT 37 9 1.6e-005 5.5e-001 # AGTGGTA TACCACT 33 7 1.7e-005 5.9e-001 letter-probability matrix: alength= 4 w= 7 nsites= 71 E= 2.8e-004 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 0.464789 0.000000 0.000000 0.535211 MOTIF SAAGA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST SAAGA TCTTS 365 264 9.1e-008 3.2e-003 # GAAGA TCTTC 216 152 7.9e-005 2.7e+000 # CAAGA TCTTG 204 142 9.3e-005 3.2e+000 letter-probability matrix: alength= 4 w= 5 nsites= 506 E= 3.2e-003 0.000000 0.484190 0.515810 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 1.000000 0.000000 0.000000 0.000000 MOTIF AATGGYCA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST AATGGYCA TGRCCATT 26 1 1.7e-007 5.8e-003 # AATGGTCA TGACCATT 19 1 1.8e-005 6.1e-001 # AATGGCCA TGGCCATT 7 0 7.7e-003 2.6e+002 letter-probability matrix: alength= 4 w= 8 nsites= 26 E= 5.8e-003 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 0.000000 1.000000 0.000000 0.000000 0.269231 0.000000 0.730769 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 29.03 seconds