# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/seqs-shuffled # positives: 954 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/seqs-centered (Sun Jan 19 04:21:32 PST 2020) # negatives: 954 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--THP2/seqs-shuffled (Sun Jan 19 04:21:32 PST 2020) # host: kali.stanford.edu # when: Sun Jan 19 04:38:17 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 0.303 C 0.193 G 0.200 T 0.304 MOTIF GGTTCRA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGTTCRA TYGAACC 91 16 6.9e-015 2.5e-010 # GGTTCGA TCGAACC 60 6 6.2e-013 2.3e-008 # GGTTCAA TTGAACC 34 10 1.7e-004 6.0e+000 letter-probability matrix: alength= 4 w= 7 nsites= 94 E= 2.5e-010 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 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.361702 0.000000 0.638298 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF SAAGAW DREME-2 # Word RC Word Pos Neg P-value E-value # BEST SAAGAW WTCTTS 407 268 1.7e-011 6.3e-007 # GAAGAT ATCTTC 121 61 1.8e-006 6.5e-002 # CAAGAA TTCTTG 131 75 2.3e-005 8.2e-001 # GAAGAA TTCTTC 165 110 2.1e-004 7.5e+000 # CAAGAT ATCTTG 90 57 2.9e-003 1.1e+002 letter-probability matrix: alength= 4 w= 6 nsites= 541 E= 6.3e-007 0.000000 0.432532 0.567468 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 0.582255 0.000000 0.000000 0.417745 MOTIF TACCRW DREME-3 # Word RC Word Pos Neg P-value E-value # BEST TACCRW WYGGTA 219 118 7.7e-010 2.7e-005 # TACCGT ACGGTA 42 16 3.6e-004 1.3e+001 # TACCAT ATGGTA 68 35 5.5e-004 1.9e+001 # TACCAA TTGGTA 76 46 3.2e-003 1.1e+002 # TACCGA TCGGTA 47 24 3.7e-003 1.3e+002 letter-probability matrix: alength= 4 w= 6 nsites= 240 E= 2.7e-005 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.620833 0.000000 0.379167 0.000000 0.529167 0.000000 0.000000 0.470833 MOTIF CGCCTTAR DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CGCCTTAR YTAAGGCG 32 1 3.1e-009 1.1e-004 # CGCCTTAA TTAAGGCG 23 1 1.3e-006 4.6e-002 # CGCCTTAG CTAAGGCG 9 0 1.9e-003 6.7e+001 letter-probability matrix: alength= 4 w= 8 nsites= 32 E= 1.1e-004 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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.718750 0.000000 0.281250 0.000000 MOTIF ACCACBAA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST ACCACBAA TTVGTGGT 37 4 3.9e-008 1.3e-003 # ACCACGAA TTCGTGGT 13 1 8.8e-004 3.1e+001 # ACCACTAA TTAGTGGT 14 2 2.0e-003 7.0e+001 # ACCACCAA TTGGTGGT 10 1 5.7e-003 2.0e+002 letter-probability matrix: alength= 4 w= 8 nsites= 37 E= 1.3e-003 1.000000 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 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.270270 0.351351 0.378378 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ATGGCAWC DREME-6 # Word RC Word Pos Neg P-value E-value # BEST ATGGCAWC GWTGCCAT 31 3 3.1e-007 1.1e-002 # ATGGCATC GATGCCAT 12 0 2.4e-004 8.2e+000 # ATGGCAAC GTTGCCAT 19 3 4.0e-004 1.4e+001 letter-probability matrix: alength= 4 w= 8 nsites= 31 E= 1.1e-002 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.612903 0.000000 0.000000 0.387097 0.000000 1.000000 0.000000 0.000000 MOTIF GGTMAGA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST GGTMAGA TCTKACC 38 6 3.6e-007 1.3e-002 # GGTAAGA TCTTACC 24 5 2.5e-004 8.7e+000 # GGTCAGA TCTGACC 14 1 4.7e-004 1.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 39 E= 1.3e-002 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.641026 0.358974 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 GGATSGAA DREME-8 # Word RC Word Pos Neg P-value E-value # BEST GGATSGAA TTCSATCC 28 2 3.6e-007 1.3e-002 # GGATCGAA TTCGATCC 19 2 1.0e-004 3.6e+000 # GGATGGAA TTCCATCC 9 0 1.9e-003 6.7e+001 letter-probability matrix: alength= 4 w= 8 nsites= 28 E= 1.3e-002 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 0.000000 0.000000 1.000000 0.000000 0.678571 0.321429 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 ACCCATRC DREME-9 # Word RC Word Pos Neg P-value E-value # BEST ACCCATRC GYATGGGT 20 0 8.6e-007 3.0e-002 # ACCCATAC GTATGGGT 13 0 1.2e-004 4.1e+000 # ACCCATGC GCATGGGT 8 0 3.8e-003 1.3e+002 letter-probability matrix: alength= 4 w= 8 nsites= 23 E= 3.0e-002 1.000000 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 0.000000 0.000000 0.000000 0.000000 1.000000 0.652174 0.000000 0.347826 0.000000 0.000000 1.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 59.26 seconds