# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--TEC1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--TEC1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--TEC1/seqs-shuffled # positives: 860 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--TEC1/seqs-centered (Sat Jan 18 14:45:18 PST 2020) # negatives: 860 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--TEC1/seqs-shuffled (Sat Jan 18 14:45:18 PST 2020) # host: kali.stanford.edu # when: Sat Jan 18 14:58:47 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 0.296 C 0.203 G 0.202 T 0.300 MOTIF GGTTCGAB DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGTTCGAB VTCGAACC 69 3 3.6e-018 1.2e-013 # GGTTCGAT ATCGAACC 27 1 8.9e-008 3.1e-003 # GGTTCGAG CTCGAACC 23 1 1.3e-006 4.5e-002 # GGTTCGAC GTCGAACC 19 1 1.8e-005 6.4e-001 letter-probability matrix: alength= 4 w= 8 nsites= 69 E= 1.2e-013 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 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.275362 0.333333 0.391304 MOTIF TTCTTB DREME-2 # Word RC Word Pos Neg P-value E-value # BEST TTCTTB VAAGAA 384 243 9.9e-013 3.4e-008 # TTCTTC GAAGAA 149 78 2.6e-007 8.9e-003 # TTCTTG CAAGAA 144 85 1.8e-005 6.1e-001 # TTCTTT AAAGAA 166 118 1.1e-003 3.9e+001 letter-probability matrix: alength= 4 w= 6 nsites= 497 E= 3.4e-008 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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.317907 0.301811 0.380282 MOTIF CTBGGCCA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CTBGGCCA TGGCCVAG 47 3 1.1e-011 3.6e-007 # CTCGGCCA TGGCCGAG 22 2 1.6e-005 5.5e-001 # CTTGGCCA TGGCCAAG 14 0 5.8e-005 2.0e+000 # CTGGGCCA TGGCCCAG 11 1 3.1e-003 1.1e+002 letter-probability matrix: alength= 4 w= 8 nsites= 47 E= 3.6e-007 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.468085 0.234043 0.297872 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CCWTAACC DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CCWTAACC GGTTAWGG 42 3 2.8e-010 9.5e-006 # CCTTAACC GGTTAAGG 31 2 5.1e-008 1.7e-003 # CCATAACC GGTTATGG 11 1 3.1e-003 1.1e+002 letter-probability matrix: alength= 4 w= 8 nsites= 42 E= 9.5e-006 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.261905 0.000000 0.000000 0.738095 0.000000 0.000000 0.000000 1.000000 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 MOTIF ATGTAYGG DREME-5 # Word RC Word Pos Neg P-value E-value # BEST ATGTAYGG CCRTACAT 41 3 5.3e-010 1.8e-005 # ATGTACGG CCGTACAT 21 0 4.2e-007 1.4e-002 # ATGTATGG CCATACAT 22 3 7.1e-005 2.4e+000 letter-probability matrix: alength= 4 w= 8 nsites= 46 E= 1.8e-005 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 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.478261 0.000000 0.521739 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF GCKCTACC DREME-6 # Word RC Word Pos Neg P-value E-value # BEST GCKCTACC GGTAGMGC 33 1 1.5e-009 5.2e-005 # GCGCTACC GGTAGCGC 19 1 1.8e-005 6.2e-001 # GCTCTACC GGTAGAGC 14 0 5.8e-005 2.0e+000 letter-probability matrix: alength= 4 w= 8 nsites= 33 E= 5.2e-005 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.575758 0.424242 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 0.000000 1.000000 0.000000 0.000000 MOTIF ATAGTGTA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST ATAGTGTA TACACTAT 27 0 6.1e-009 2.1e-004 # ATAGTGTA TACACTAT 27 0 6.1e-009 2.1e-004 letter-probability matrix: alength= 4 w= 8 nsites= 27 E= 2.1e-004 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 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 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GCTAASA DREME-8 # Word RC Word Pos Neg P-value E-value # BEST GCTAASA TSTTAGC 42 6 3.4e-008 1.2e-003 # GCTAACA TGTTAGC 23 3 3.9e-005 1.3e+000 # GCTAAGA TCTTAGC 19 3 4.0e-004 1.3e+001 letter-probability matrix: alength= 4 w= 7 nsites= 42 E= 1.2e-003 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 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 0.000000 0.547619 0.452381 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GTGATAGY DREME-9 # Word RC Word Pos Neg P-value E-value # BEST GTGATAGY RCTATCAC 26 1 1.7e-007 5.9e-003 # GTGATAGC GCTATCAC 15 0 2.9e-005 9.7e-001 # GTGATAGT ACTATCAC 12 1 1.7e-003 5.6e+001 letter-probability matrix: alength= 4 w= 8 nsites= 27 E= 5.9e-003 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.555556 0.000000 0.444444 MOTIF GRATGTA DREME-10 # Word RC Word Pos Neg P-value E-value # BEST GRATGTA TACATYC 36 5 3.0e-007 1.0e-002 # GAATGTA TACATTC 23 3 3.9e-005 1.3e+000 # GGATGTA TACATCC 13 2 3.6e-003 1.2e+002 letter-probability matrix: alength= 4 w= 7 nsites= 37 E= 1.0e-002 0.000000 0.000000 1.000000 0.000000 0.648649 0.000000 0.351351 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 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF TACCWCTA DREME-11 # Word RC Word Pos Neg P-value E-value # BEST TACCWCTA TAGWGGTA 25 1 3.4e-007 1.2e-002 # TACCACTA TAGTGGTA 17 1 6.8e-005 2.3e+000 # TACCTCTA TAGAGGTA 8 0 3.8e-003 1.3e+002 letter-probability matrix: alength= 4 w= 8 nsites= 25 E= 1.2e-002 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 0.680000 0.000000 0.000000 0.320000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CAACAARG DREME-12 # Word RC Word Pos Neg P-value E-value # BEST CAACAARG CYTTGTTG 28 2 3.6e-007 1.2e-002 # CAACAAGG CCTTGTTG 19 2 1.0e-004 3.4e+000 # CAACAAAG CTTTGTTG 9 0 1.9e-003 6.4e+001 letter-probability matrix: alength= 4 w= 8 nsites= 28 E= 1.2e-002 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.321429 0.000000 0.678571 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF GRTCTCCA DREME-13 # Word RC Word Pos Neg P-value E-value # BEST GRTCTCCA TGGAGAYC 21 0 4.2e-007 1.4e-002 # GGTCTCCA TGGAGACC 14 0 5.8e-005 1.9e+000 # GATCTCCA TGGAGATC 7 0 7.7e-003 2.6e+002 letter-probability matrix: alength= 4 w= 8 nsites= 21 E= 1.4e-002 0.000000 0.000000 1.000000 0.000000 0.333333 0.000000 0.666667 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ACGCSACA DREME-14 # Word RC Word Pos Neg P-value E-value # BEST ACGCSACA TGTSGCGT 20 0 8.5e-007 2.9e-002 # ACGCGACA TGTCGCGT 13 0 1.2e-004 3.9e+000 # ACGCCACA TGTGGCGT 7 0 7.7e-003 2.6e+002 letter-probability matrix: alength= 4 w= 8 nsites= 20 E= 2.9e-002 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 0.000000 0.350000 0.650000 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 # Stopping reason: E-value threshold exceeded # Running time: 77.51 seconds