# 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: 486 from aa_memeout/seqs-centered (Sat Nov 23 15:53:00 PST 2019) # negatives: 486 from aa_memeout/seqs-shuffled (Sat Nov 23 15:53:00 PST 2019) # host: kali.stanford.edu # when: Sat Nov 23 16:02:53 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 0.292 C 0.208 G 0.210 T 0.290 MOTIF GRNTCGAA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GRNTCGAA TTCGANYC 150 4 2.3e-045 6.0e-041 # GAATCGAA TTCGATTC 29 0 1.2e-009 3.2e-005 # GGATCGAA TTCGATCC 35 2 2.9e-009 7.7e-005 # GAGTCGAA TTCGACTC 23 0 9.1e-008 2.4e-003 # GGTTCGAA TTCGAACC 19 0 1.6e-006 4.2e-002 # GGGTCGAA TTCGACCC 13 0 1.1e-004 3.0e+000 # GATTCGAA TTCGAATC 16 1 1.2e-004 3.2e+000 # GACTCGAA TTCGAGTC 11 0 4.6e-004 1.2e+001 # GGCTCGAA TTCGAGCC 12 1 1.6e-003 4.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 150 E= 6.0e-041 0.000000 0.000000 1.000000 0.000000 0.500000 0.000000 0.500000 0.000000 0.426667 0.153333 0.240000 0.180000 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 MOTIF CCRTRCA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST CCRTRCA TGYAYGG 102 14 6.3e-020 1.6e-015 # CCATACA TGTATGG 48 5 1.3e-010 3.4e-006 # CCGTACA TGTACGG 44 6 7.5e-009 2.0e-004 # CCGTGCA TGCACGG 13 1 8.5e-004 2.2e+001 # CCATGCA TGCATGG 14 2 1.9e-003 5.1e+001 letter-probability matrix: alength= 4 w= 7 nsites= 128 E= 1.6e-015 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.539062 0.000000 0.460938 0.000000 0.000000 0.000000 0.000000 1.000000 0.789062 0.000000 0.210938 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AARAAAWA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST AARAAAWA TWTTTYTT 132 40 2.8e-015 7.2e-011 # AAGAAAAA TTTTTCTT 43 8 1.8e-007 4.6e-003 # AAAAAAAA TTTTTTTT 69 27 3.9e-006 1.0e-001 # AAAAAATA TATTTTTT 40 11 1.8e-005 4.6e-001 # AAGAAATA TATTTCTT 14 3 6.0e-003 1.5e+002 letter-probability matrix: alength= 4 w= 8 nsites= 156 E= 7.2e-011 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.685897 0.000000 0.314103 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 0.692308 0.000000 0.000000 0.307692 1.000000 0.000000 0.000000 0.000000 MOTIF CCYTAACC DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CCYTAACC GGTTARGG 46 0 4.6e-015 1.2e-010 # CCTTAACC GGTTAAGG 33 0 6.6e-011 1.7e-006 # CCCTAACC GGTTAGGG 13 0 1.1e-004 2.9e+000 letter-probability matrix: alength= 4 w= 8 nsites= 46 E= 1.2e-010 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.282609 0.000000 0.717391 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 ACTBGGCC DREME-5 # Word RC Word Pos Neg P-value E-value # BEST ACTBGGCC GGCCVAGT 48 1 2.8e-014 7.0e-010 # ACTCGGCC GGCCGAGT 23 0 9.1e-008 2.3e-003 # ACTTGGCC GGCCAAGT 21 1 4.5e-006 1.1e-001 # ACTGGGCC GGCCCAGT 10 0 9.3e-004 2.4e+001 letter-probability matrix: alength= 4 w= 8 nsites= 48 E= 7.0e-010 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 0.416667 0.208333 0.375000 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 MOTIF ACCAYTA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST ACCAYTA TARTGGT 72 11 2.5e-013 6.2e-009 # ACCACTA TAGTGGT 49 8 5.5e-009 1.4e-004 # ACCATTA TAATGGT 24 3 2.0e-005 5.0e-001 letter-probability matrix: alength= 4 w= 7 nsites= 74 E= 6.2e-009 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 0.662162 0.000000 0.337838 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF BGCGC DREME-7 # Word RC Word Pos Neg P-value E-value # BEST BGCGC GCGCV 157 69 1.3e-011 3.2e-007 # CGCGC GCGCG 71 30 1.0e-005 2.6e-001 # TGCGC GCGCA 86 41 1.2e-005 3.0e-001 # GGCGC GCGCC 80 38 2.4e-005 6.1e-001 letter-probability matrix: alength= 4 w= 5 nsites= 204 E= 3.2e-007 0.000000 0.289216 0.343137 0.367647 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 MOTIF AGAYCGGG DREME-8 # Word RC Word Pos Neg P-value E-value # BEST AGAYCGGG CCCGRTCT 37 1 7.2e-011 1.8e-006 # AGATCGGG CCCGATCT 23 1 1.2e-006 2.8e-002 # AGACCGGG CCCGGTCT 14 0 5.6e-005 1.3e+000 letter-probability matrix: alength= 4 w= 8 nsites= 37 E= 1.8e-006 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 0.378378 0.000000 0.621622 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 MOTIF GTGATAGY DREME-9 # Word RC Word Pos Neg P-value E-value # BEST GTGATAGY RCTATCAC 31 0 2.8e-010 6.9e-006 # GTGATAGT ACTATCAC 16 0 1.3e-005 3.3e-001 # GTGATAGC GCTATCAC 15 0 2.7e-005 6.6e-001 letter-probability matrix: alength= 4 w= 8 nsites= 31 E= 6.9e-006 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 0.483871 0.000000 0.516129 MOTIF ATGGCAWC DREME-10 # Word RC Word Pos Neg P-value E-value # BEST ATGGCAWC GWTGCCAT 33 1 1.2e-009 2.9e-005 # ATGGCAAC GTTGCCAT 23 1 1.2e-006 2.8e-002 # ATGGCATC GATGCCAT 10 0 9.3e-004 2.3e+001 letter-probability matrix: alength= 4 w= 8 nsites= 33 E= 2.9e-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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.696970 0.000000 0.000000 0.303030 0.000000 1.000000 0.000000 0.000000 MOTIF GAWTTGAA DREME-11 # Word RC Word Pos Neg P-value E-value # BEST GAWTTGAA TTCAAWTC 38 3 2.8e-009 6.7e-005 # GAATTGAA TTCAATTC 24 1 5.9e-007 1.4e-002 # GATTTGAA TTCAAATC 14 2 1.9e-003 4.7e+001 letter-probability matrix: alength= 4 w= 8 nsites= 38 E= 6.7e-005 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.631579 0.000000 0.000000 0.368421 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ACCGTGS DREME-12 # Word RC Word Pos Neg P-value E-value # BEST ACCGTGS SCACGGT 27 0 5.1e-009 1.2e-004 # ACCGTGG CCACGGT 15 0 2.7e-005 6.6e-001 # ACCGTGC GCACGGT 12 0 2.3e-004 5.5e+000 letter-probability matrix: alength= 4 w= 7 nsites= 27 E= 1.2e-004 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 0.444444 0.555556 0.000000 MOTIF GATYAGAA DREME-13 # Word RC Word Pos Neg P-value E-value # BEST GATYAGAA TTCTRATC 25 0 2.2e-008 5.2e-004 # GATTAGAA TTCTAATC 17 0 6.6e-006 1.6e-001 # GATCAGAA TTCTGATC 8 0 3.8e-003 9.1e+001 letter-probability matrix: alength= 4 w= 8 nsites= 25 E= 5.2e-004 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 0.320000 0.000000 0.680000 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 0.000000 MOTIF ACTSACG DREME-14 # Word RC Word Pos Neg P-value E-value # BEST ACTSACG CGTSAGT 34 3 3.7e-008 9.0e-004 # ACTCACG CGTGAGT 22 1 2.3e-006 5.5e-002 # ACTGACG CGTCAGT 12 2 6.2e-003 1.5e+002 letter-probability matrix: alength= 4 w= 7 nsites= 34 E= 9.0e-004 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 0.647059 0.352941 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 MOTIF CASACGC DREME-15 # Word RC Word Pos Neg P-value E-value # BEST CASACGC GCGTSTG 34 3 3.7e-008 9.0e-004 # CAGACGC GCGTCTG 15 0 2.7e-005 6.5e-001 # CACACGC GCGTGTG 19 3 3.8e-004 9.0e+000 letter-probability matrix: alength= 4 w= 7 nsites= 34 E= 9.0e-004 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.558824 0.441176 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 KTAGCTCA DREME-16 # Word RC Word Pos Neg P-value E-value # BEST KTAGCTCA TGAGCTAM 21 0 3.8e-007 9.1e-003 # TTAGCTCA TGAGCTAA 14 0 5.6e-005 1.3e+000 # GTAGCTCA TGAGCTAC 7 0 7.6e-003 1.8e+002 letter-probability matrix: alength= 4 w= 8 nsites= 21 E= 9.1e-003 0.000000 0.000000 0.333333 0.666667 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ACACSCA DREME-17 # Word RC Word Pos Neg P-value E-value # BEST ACACSCA TGSGTGT 47 11 5.0e-007 1.2e-002 # ACACCCA TGGGTGT 34 9 6.1e-005 1.5e+000 # ACACGCA TGCGTGT 13 2 3.5e-003 8.3e+001 letter-probability matrix: alength= 4 w= 7 nsites= 49 E= 1.2e-002 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 0.734694 0.265306 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF TCKCCCA DREME-18 # Word RC Word Pos Neg P-value E-value # BEST TCKCCCA TGGGMGA 34 5 7.8e-007 1.9e-002 # TCTCCCA TGGGAGA 18 2 1.8e-004 4.2e+000 # TCGCCCA TGGGCGA 16 3 2.0e-003 4.8e+001 letter-probability matrix: alength= 4 w= 7 nsites= 34 E= 1.9e-002 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.470588 0.529412 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 MOTIF ATCYCCGC DREME-19 # Word RC Word Pos Neg P-value E-value # BEST ATCYCCGC GCGGRGAT 19 0 1.6e-006 3.8e-002 # ATCCCCGC GCGGGGAT 10 0 9.3e-004 2.2e+001 # ATCTCCGC GCGGAGAT 9 0 1.9e-003 4.4e+001 letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 3.8e-002 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 0.526316 0.000000 0.473684 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 # Stopping reason: E-value threshold exceeded # Running time: 63.63 seconds