# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--SOK2/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--SOK2/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--SOK2/seqs-shuffled # positives: 954 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--SOK2/seqs-centered (Sat Jan 18 13:35:53 PST 2020) # negatives: 954 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--SOK2/seqs-shuffled (Sat Jan 18 13:35:53 PST 2020) # host: kali.stanford.edu # when: Sat Jan 18 13:52:38 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 0.295 C 0.204 G 0.204 T 0.296 MOTIF TCGAACCB DREME-1 # Word RC Word Pos Neg P-value E-value # BEST TCGAACCB VGGTTCGA 73 4 2.6e-018 9.9e-014 # TCGAACCG CGGTTCGA 27 0 6.2e-009 2.3e-004 # TCGAACCC GGGTTCGA 27 2 6.9e-007 2.6e-002 # TCGAACCT AGGTTCGA 19 2 1.0e-004 3.9e+000 letter-probability matrix: alength= 4 w= 8 nsites= 73 E= 9.9e-014 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 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 0.369863 0.369863 0.260274 MOTIF AARAAAWA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST AARAAAWA TWTTTYTT 176 78 1.9e-011 7.3e-007 # AAAAAATA TATTTTTT 60 18 6.1e-007 2.3e-002 # AAAAAAAA TTTTTTTT 77 31 3.1e-006 1.2e-001 # AAGAAATA TATTTCTT 27 6 1.4e-004 5.4e+000 # AAGAAAAA TTTTTCTT 50 26 3.4e-003 1.3e+002 letter-probability matrix: alength= 4 w= 8 nsites= 201 E= 7.3e-007 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.646766 0.000000 0.353234 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 0.601990 0.000000 0.000000 0.398010 1.000000 0.000000 0.000000 0.000000 MOTIF AGTGGTW DREME-3 # Word RC Word Pos Neg P-value E-value # BEST AGTGGTW WACCACT 70 13 2.8e-011 1.0e-006 # AGTGGTA TACCACT 38 4 2.1e-008 7.9e-004 # AGTGGTT AACCACT 39 9 6.0e-006 2.3e-001 letter-probability matrix: alength= 4 w= 7 nsites= 79 E= 1.0e-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 0.493671 0.000000 0.000000 0.506329 MOTIF ATCTKG DREME-4 # Word RC Word Pos Neg P-value E-value # BEST ATCTKG CMAGAT 141 70 1.3e-007 4.8e-003 # ATCTTG CAAGAT 89 47 1.2e-004 4.5e+000 # ATCTGG CCAGAT 55 24 2.5e-004 9.2e+000 letter-probability matrix: alength= 4 w= 6 nsites= 152 E= 4.8e-003 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.381579 0.618421 0.000000 0.000000 1.000000 0.000000 MOTIF CRACAA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CRACAA TTGTYG 153 83 6.9e-007 2.6e-002 # CAACAA TTGTTG 113 60 1.5e-005 5.6e-001 # CGACAA TTGTCG 47 26 8.2e-003 3.1e+002 letter-probability matrix: alength= 4 w= 6 nsites= 174 E= 2.6e-002 0.000000 1.000000 0.000000 0.000000 0.718391 0.000000 0.281609 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 MOTIF TCTMCCA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST TCTMCCA TGGKAGA 39 7 7.0e-007 2.6e-002 # TCTACCA TGGTAGA 24 4 8.1e-005 3.0e+000 # TCTCCCA TGGGAGA 15 3 3.6e-003 1.3e+002 letter-probability matrix: alength= 4 w= 7 nsites= 39 E= 2.6e-002 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.615385 0.384615 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 MOTIF CACCGTGS DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CACCGTGS SCACGGTG 23 1 1.3e-006 4.9e-002 # CACCGTGG CCACGGTG 13 0 1.2e-004 4.3e+000 # CACCGTGC GCACGGTG 10 1 5.7e-003 2.1e+002 letter-probability matrix: alength= 4 w= 8 nsites= 23 E= 4.9e-002 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 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 0.434783 0.565217 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 47.49 seconds