# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--CAT8/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--CAT8/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--CAT8/seqs-shuffled # positives: 485 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--CAT8/seqs-centered (Sun Jan 19 06:18:49 PST 2020) # negatives: 485 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--CAT8/seqs-shuffled (Sun Jan 19 06:18:49 PST 2020) # host: kali.stanford.edu # when: Sun Jan 19 06:28:33 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 0.289 C 0.211 G 0.213 T 0.287 MOTIF SGGTTCRA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST SGGTTCRA TYGAACCS 89 2 2.4e-026 6.5e-022 # GGGTTCGA TCGAACCC 39 2 1.9e-010 5.2e-006 # CGGTTCGA TCGAACCG 31 0 2.8e-010 7.8e-006 # GGGTTCAA TTGAACCC 12 0 2.3e-004 6.2e+000 # CGGTTCAA TTGAACCG 7 0 7.6e-003 2.1e+002 letter-probability matrix: alength= 4 w= 8 nsites= 89 E= 6.5e-022 0.000000 0.426966 0.573034 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 1.000000 0.000000 1.000000 0.000000 0.000000 0.213483 0.000000 0.786517 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ACCWCT DREME-2 # Word RC Word Pos Neg P-value E-value # BEST ACCWCT AGWGGT 128 26 1.9e-020 5.2e-016 # ACCACT AGTGGT 101 16 2.1e-018 5.8e-014 # ACCTCT AGAGGT 34 12 6.3e-004 1.7e+001 letter-probability matrix: alength= 4 w= 6 nsites= 152 E= 5.2e-016 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.776316 0.000000 0.000000 0.223684 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF CCRTACAY DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CCRTACAY RTGTAYGG 78 5 1.6e-019 4.4e-015 # CCATACAT ATGTATGG 34 2 5.7e-009 1.5e-004 # CCGTACAT ATGTACGG 27 1 7.6e-008 2.1e-003 # CCATACAC GTGTATGG 10 0 9.3e-004 2.5e+001 # CCGTACAC GTGTACGG 14 2 1.9e-003 5.3e+001 letter-probability matrix: alength= 4 w= 8 nsites= 91 E= 4.4e-015 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.538462 0.000000 0.461538 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.274725 0.000000 0.725275 MOTIF AACTKGGC DREME-4 # Word RC Word Pos Neg P-value E-value # BEST AACTKGGC GCCMAGTT 43 0 4.3e-014 1.1e-009 # AACTTGGC GCCAAGTT 32 0 1.4e-010 3.7e-006 # AACTGGGC GCCCAGTT 11 0 4.6e-004 1.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 43 E= 1.1e-009 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 0.000000 1.000000 0.000000 0.000000 0.255814 0.744186 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CGCCTTA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CGCCTTA TAAGGCG 60 5 4.7e-014 1.3e-009 # CGCCTTA TAAGGCG 60 5 4.7e-014 1.3e-009 letter-probability matrix: alength= 4 w= 7 nsites= 60 E= 1.3e-009 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 MOTIF GTSATA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST GTSATA TATSAC 86 20 2.5e-012 6.7e-008 # GTGATA TATCAC 60 8 6.6e-012 1.7e-007 # GTCATA TATGAC 29 13 8.5e-003 2.3e+002 letter-probability matrix: alength= 4 w= 6 nsites= 92 E= 6.7e-008 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.326087 0.673913 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ACCCANAC DREME-7 # Word RC Word Pos Neg P-value E-value # BEST ACCCANAC GTNTGGGT 47 4 4.5e-011 1.2e-006 # ACCCACAC GTGTGGGT 14 0 5.5e-005 1.5e+000 # ACCCATAC GTATGGGT 13 0 1.1e-004 3.0e+000 # ACCCAGAC GTCTGGGT 13 2 3.5e-003 9.2e+001 # ACCCAAAC GTTTGGGT 12 2 6.2e-003 1.6e+002 letter-probability matrix: alength= 4 w= 8 nsites= 54 E= 1.2e-006 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 0.222222 0.277778 0.240741 0.259259 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CGCKCTAC DREME-8 # Word RC Word Pos Neg P-value E-value # BEST CGCKCTAC GTAGMGCG 30 0 5.9e-010 1.5e-005 # CGCGCTAC GTAGCGCG 23 0 9.1e-008 2.4e-003 # CGCTCTAC GTAGAGCG 7 0 7.6e-003 2.0e+002 letter-probability matrix: alength= 4 w= 8 nsites= 30 E= 1.5e-005 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 0.000000 0.766667 0.233333 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF AAAAAAMT DREME-9 # Word RC Word Pos Neg P-value E-value # BEST AAAAAAMT AKTTTTTT 63 15 5.2e-009 1.4e-004 # AAAAAAAT ATTTTTTT 47 12 1.3e-006 3.4e-002 # AAAAAACT AGTTTTTT 17 3 1.2e-003 3.0e+001 letter-probability matrix: alength= 4 w= 8 nsites= 69 E= 1.4e-004 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 1.000000 0.000000 0.000000 0.000000 0.739130 0.260870 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF CASACGC DREME-10 # Word RC Word Pos Neg P-value E-value # BEST CASACGC GCGTSTG 36 3 1.0e-008 2.6e-004 # CACACGC GCGTGTG 18 0 3.2e-006 8.4e-002 # CAGACGC GCGTCTG 18 3 6.7e-004 1.7e+001 letter-probability matrix: alength= 4 w= 7 nsites= 36 E= 2.6e-004 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.500000 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 MOTIF CCATCGTK DREME-11 # Word RC Word Pos Neg P-value E-value # BEST CCATCGTK MACGATGG 25 0 2.2e-008 5.6e-004 # CCATCGTT AACGATGG 17 0 6.6e-006 1.7e-001 # CCATCGTG CACGATGG 8 0 3.8e-003 9.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 25 E= 5.6e-004 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 0.000000 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 0.320000 0.680000 MOTIF CACGGTGM DREME-12 # Word RC Word Pos Neg P-value E-value # BEST CACGGTGM KCACCGTG 28 1 3.8e-008 9.9e-004 # CACGGTGA TCACCGTG 17 1 6.4e-005 1.6e+000 # CACGGTGC GCACCGTG 11 0 4.6e-004 1.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 28 E= 9.9e-004 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 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.607143 0.392857 0.000000 0.000000 MOTIF CAAGAK DREME-13 # Word RC Word Pos Neg P-value E-value # BEST CAAGAK MTCTTG 81 29 7.6e-008 2.0e-003 # CAAGAT ATCTTG 53 17 4.7e-006 1.2e-001 # CAAGAG CTCTTG 31 14 6.9e-003 1.8e+002 letter-probability matrix: alength= 4 w= 6 nsites= 91 E= 2.0e-003 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.340659 0.659341 MOTIF CAACGWTG DREME-14 # Word RC Word Pos Neg P-value E-value # BEST CAACGWTG CAWCGTTG 23 0 9.1e-008 2.3e-003 # CAACGTTG CAACGTTG 15 0 2.7e-005 7.0e-001 # CAACGATG CATCGTTG 8 0 3.8e-003 9.7e+001 letter-probability matrix: alength= 4 w= 8 nsites= 23 E= 2.3e-003 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 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.347826 0.000000 0.000000 0.652174 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 MOTIF GCCRTTAC DREME-15 # Word RC Word Pos Neg P-value E-value # BEST GCCRTTAC GTAAYGGC 25 1 3.0e-007 7.6e-003 # GCCGTTAC GTAACGGC 14 0 5.5e-005 1.4e+000 # GCCATTAC GTAATGGC 11 1 3.0e-003 7.7e+001 letter-probability matrix: alength= 4 w= 8 nsites= 25 E= 7.6e-003 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.440000 0.000000 0.560000 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 0.000000 1.000000 0.000000 0.000000 MOTIF TCAKAA DREME-16 # Word RC Word Pos Neg P-value E-value # BEST TCAKAA TTMTGA 95 42 6.4e-007 1.6e-002 # TCAGAA TTCTGA 60 24 2.6e-005 6.6e-001 # TCATAA TTATGA 37 18 5.9e-003 1.5e+002 letter-probability matrix: alength= 4 w= 6 nsites= 102 E= 1.6e-002 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.627451 0.372549 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ACTTSTAA DREME-17 # Word RC Word Pos Neg P-value E-value # BEST ACTTSTAA TTASAAGT 20 0 7.8e-007 2.0e-002 # ACTTCTAA TTAGAAGT 12 0 2.3e-004 5.7e+000 # ACTTGTAA TTACAAGT 8 0 3.8e-003 9.6e+001 letter-probability matrix: alength= 4 w= 8 nsites= 20 E= 2.0e-002 1.000000 0.000000 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 0.000000 0.600000 0.400000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AYTGCGCC DREME-18 # Word RC Word Pos Neg P-value E-value # BEST AYTGCGCC GGCGCART 19 0 1.6e-006 4.0e-002 # ATTGCGCC GGCGCAAT 11 0 4.6e-004 1.2e+001 # ACTGCGCC GGCGCAGT 8 0 3.8e-003 9.6e+001 letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 4.0e-002 1.000000 0.000000 0.000000 0.000000 0.000000 0.421053 0.000000 0.578947 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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CGCGGGSA DREME-19 # Word RC Word Pos Neg P-value E-value # BEST CGCGGGSA TSCCCGCG 19 0 1.6e-006 4.0e-002 # CGCGGGGA TCCCCGCG 10 0 9.3e-004 2.3e+001 # CGCGGGCA TGCCCGCG 9 0 1.9e-003 4.7e+001 letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 4.0e-002 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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.473684 0.526316 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 63.75 seconds