# DREME 4.12.0 # command: dreme -v 1 -oc aa_memeout/dreme_out -png -dna -p aa_memeout/seqs-centered -n aa_memeout/seqs-shuffled # positives: 866 from aa_memeout/seqs-centered (Sat Nov 23 15:55:28 PST 2019) # negatives: 866 from aa_memeout/seqs-shuffled (Sat Nov 23 15:55:28 PST 2019) # host: kali.stanford.edu # when: Sat Nov 23 16:13:35 PST 2019 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 0.316 C 0.183 G 0.183 T 0.318 MOTIF TGTAYGGR DREME-1 # Word RC Word Pos Neg P-value E-value # BEST TGTAYGGR YCCRTACA 87 5 1.4e-021 4.5e-017 # TGTACGGA TCCGTACA 34 0 4.2e-011 1.4e-006 # TGTATGGG CCCATACA 39 3 1.9e-009 6.3e-005 # TGTATGGA TCCATACA 14 1 4.7e-004 1.5e+001 # TGTACGGG CCCGTACA 11 1 3.1e-003 1.0e+002 letter-probability matrix: alength= 4 w= 8 nsites= 101 E= 4.5e-017 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 0.465347 0.000000 0.534653 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.504950 0.000000 0.495050 0.000000 MOTIF AGTGGTW DREME-2 # Word RC Word Pos Neg P-value E-value # BEST AGTGGTW WACCACT 104 12 6.9e-021 2.3e-016 # AGTGGTT AACCACT 79 4 3.7e-020 1.2e-015 # AGTGGTA TACCACT 39 8 2.1e-006 6.8e-002 letter-probability matrix: alength= 4 w= 7 nsites= 123 E= 2.3e-016 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 0.325203 0.000000 0.000000 0.674797 MOTIF GGTTCGA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST GGTTCGA TCGAACC 73 3 2.3e-019 7.3e-015 # GGTTCGA TCGAACC 73 3 2.3e-019 7.3e-015 letter-probability matrix: alength= 4 w= 7 nsites= 73 E= 7.3e-015 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 MOTIF CAACTKGG DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CAACTKGG CCMAGTTG 47 1 9.4e-014 3.0e-009 # CAACTTGG CCAAGTTG 37 1 9.8e-011 3.2e-006 # CAACTGGG CCCAGTTG 10 0 9.5e-004 3.1e+001 letter-probability matrix: alength= 4 w= 8 nsites= 47 E= 3.0e-009 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 0.000000 1.000000 0.000000 0.000000 0.212766 0.787234 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF GCKCTACC DREME-5 # Word RC Word Pos Neg P-value E-value # BEST GCKCTACC GGTAGMGC 40 0 5.7e-013 1.8e-008 # GCGCTACC GGTAGCGC 27 0 6.1e-009 2.0e-004 # GCTCTACC GGTAGAGC 13 0 1.2e-004 3.8e+000 letter-probability matrix: alength= 4 w= 8 nsites= 40 E= 1.8e-008 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.675000 0.325000 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 AAGGCGM DREME-6 # Word RC Word Pos Neg P-value E-value # BEST AAGGCGM KCGCCTT 54 5 4.7e-012 1.5e-007 # AAGGCGC GCGCCTT 32 2 2.7e-008 8.6e-004 # AAGGCGA TCGCCTT 24 3 2.2e-005 7.0e-001 letter-probability matrix: alength= 4 w= 7 nsites= 56 E= 1.5e-007 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 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.428571 0.571429 0.000000 0.000000 MOTIF AGRAAA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST AGRAAA TTTYCT 280 161 3.1e-011 9.9e-007 # AGAAAA TTTTCT 222 124 2.3e-009 7.4e-005 # AGGAAA TTTCCT 82 45 4.2e-004 1.4e+001 letter-probability matrix: alength= 4 w= 6 nsites= 349 E= 9.9e-007 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.765043 0.000000 0.234957 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 MOTIF ACCCANAC DREME-8 # Word RC Word Pos Neg P-value E-value # BEST ACCCANAC GTNTGGGT 68 13 7.7e-011 2.4e-006 # ACCCACAC GTGTGGGT 37 8 6.0e-006 1.9e-001 # ACCCATAC GTATGGGT 9 0 1.9e-003 6.1e+001 # ACCCAGAC GTCTGGGT 12 2 6.3e-003 2.0e+002 # ACCCAAAC GTTTGGGT 15 4 9.3e-003 2.9e+002 letter-probability matrix: alength= 4 w= 8 nsites= 122 E= 2.4e-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 0.122951 0.696721 0.098361 0.081967 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF GCCWTAAC DREME-9 # Word RC Word Pos Neg P-value E-value # BEST GCCWTAAC GTTAWGGC 34 2 7.2e-009 2.3e-004 # GCCTTAAC GTTAAGGC 22 2 1.6e-005 5.1e-001 # GCCATAAC GTTATGGC 12 0 2.3e-004 7.4e+000 letter-probability matrix: alength= 4 w= 8 nsites= 34 E= 2.3e-004 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.352941 0.000000 0.000000 0.647059 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 MOTIF GTGATAGY DREME-10 # Word RC Word Pos Neg P-value E-value # BEST GTGATAGY RCTATCAC 26 0 1.2e-008 3.9e-004 # GTGATAGC GCTATCAC 15 0 2.9e-005 9.0e-001 # GTGATAGT ACTATCAC 11 0 4.7e-004 1.5e+001 letter-probability matrix: alength= 4 w= 8 nsites= 26 E= 3.9e-004 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 0.576923 0.000000 0.423077 MOTIF AYTGCGCC DREME-11 # Word RC Word Pos Neg P-value E-value # BEST AYTGCGCC GGCGCART 23 0 1.0e-007 3.2e-003 # ATTGCGCC GGCGCAAT 14 0 5.8e-005 1.8e+000 # ACTGCGCC GGCGCAGT 9 0 1.9e-003 6.0e+001 letter-probability matrix: alength= 4 w= 8 nsites= 23 E= 3.2e-003 1.000000 0.000000 0.000000 0.000000 0.000000 0.391304 0.000000 0.608696 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 TCTCCACR DREME-12 # Word RC Word Pos Neg P-value E-value # BEST TCTCCACR YGTGGAGA 23 0 1.0e-007 3.2e-003 # TCTCCACA TGTGGAGA 12 0 2.3e-004 7.4e+000 # TCTCCACG CGTGGAGA 11 0 4.7e-004 1.5e+001 letter-probability matrix: alength= 4 w= 8 nsites= 23 E= 3.2e-003 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 0.000000 1.000000 0.000000 0.000000 0.521739 0.000000 0.478261 0.000000 MOTIF CTWGACC DREME-13 # Word RC Word Pos Neg P-value E-value # BEST CTWGACC GGTCWAG 37 5 1.6e-007 5.2e-003 # CTAGACC GGTCTAG 19 1 1.8e-005 5.7e-001 # CTTGACC GGTCAAG 18 4 2.1e-003 6.5e+001 letter-probability matrix: alength= 4 w= 7 nsites= 37 E= 5.2e-003 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.513514 0.000000 0.000000 0.486486 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 1.000000 0.000000 0.000000 MOTIF CATATATW DREME-14 # Word RC Word Pos Neg P-value E-value # BEST CATATATW WATATATG 36 5 3.0e-007 9.3e-003 # CATATATA TATATATG 24 3 2.2e-005 6.8e-001 # CATATATT AATATATG 12 2 6.3e-003 2.0e+002 letter-probability matrix: alength= 4 w= 8 nsites= 38 E= 9.3e-003 0.000000 1.000000 0.000000 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 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.684211 0.000000 0.000000 0.315789 MOTIF CCRTGC DREME-15 # Word RC Word Pos Neg P-value E-value # BEST CCRTGC GCAYGG 63 20 7.0e-007 2.2e-002 # CCGTGC GCACGG 33 10 2.6e-004 8.1e+000 # CCATGC GCATGG 30 10 9.9e-004 3.1e+001 letter-probability matrix: alength= 4 w= 6 nsites= 64 E= 2.2e-002 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.484375 0.000000 0.515625 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF TGGCGTAR DREME-16 # Word RC Word Pos Neg P-value E-value # BEST TGGCGTAR YTACGCCA 20 0 8.5e-007 2.7e-002 # TGGCGTAA TTACGCCA 11 0 4.7e-004 1.5e+001 # TGGCGTAG CTACGCCA 9 0 1.9e-003 6.0e+001 letter-probability matrix: alength= 4 w= 8 nsites= 20 E= 2.7e-002 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 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.550000 0.000000 0.450000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 120.29 seconds