# DREME 4.12.0 # command: dreme -v 1 -oc intersection_memechip_out/dreme_out -png -dna -p intersection_memechip_out/seqs-centered -n intersection_memechip_out/seqs-shuffled # positives: 1510 from intersection_memechip_out/seqs-centered (Mon Oct 21 17:03:42 PDT 2019) # negatives: 1510 from intersection_memechip_out/seqs-shuffled (Mon Oct 21 17:03:43 PDT 2019) # host: surya.stanford.edu # when: Mon Oct 21 17:17:24 PDT 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 0.283 C 0.217 G 0.218 T 0.282 MOTIF ATGYWAA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST ATGYWAA TTWRCAT 743 126 2.3e-146 8.7e-142 # ATGCAAA TTTGCAT 378 44 5.9e-077 2.2e-072 # ATGTAAA TTTACAT 181 17 3.7e-038 1.4e-033 # ATGCTAA TTAGCAT 181 46 7.7e-022 2.9e-017 # ATGTTAA TTAACAT 101 25 9.3e-013 3.5e-008 letter-probability matrix: alength= 4 w= 7 nsites= 900 E= 8.7e-142 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 0.670000 0.000000 0.330000 0.676667 0.000000 0.000000 0.323333 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF MATRACAA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST MATRACAA TTGTYATK 247 36 1.1e-043 4.0e-039 # CATAACAA TTGTTATG 94 7 2.0e-021 7.5e-017 # AATAACAA TTGTTATT 74 14 1.4e-011 5.1e-007 # CATGACAA TTGTCATG 58 10 8.0e-010 3.0e-005 # AATGACAA TTGTCATT 27 5 5.2e-005 1.9e+000 letter-probability matrix: alength= 4 w= 8 nsites= 255 E= 4.0e-039 0.400000 0.600000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.662745 0.000000 0.337255 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 WTATGCR DREME-3 # Word RC Word Pos Neg P-value E-value # BEST WTATGCR YGCATAW 244 77 6.5e-024 2.4e-019 # ATATGCA TGCATAT 95 29 5.2e-010 1.9e-005 # TTATGCA TGCATAA 103 38 9.8e-009 3.6e-004 # ATATGCG CGCATAT 37 9 1.8e-005 6.5e-001 # TTATGCG CGCATAA 28 6 9.0e-005 3.3e+000 letter-probability matrix: alength= 4 w= 7 nsites= 267 E= 2.4e-019 0.509363 0.000000 0.000000 0.490637 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.775281 0.000000 0.224719 0.000000 MOTIF AGGWA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST AGGWA TWCCT 738 505 4.1e-018 1.5e-013 # AGGAA TTCCT 554 348 1.5e-016 5.3e-012 # AGGTA TACCT 279 199 4.0e-005 1.5e+000 letter-probability matrix: alength= 4 w= 5 nsites= 1003 E= 1.5e-013 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.685942 0.000000 0.000000 0.314058 1.000000 0.000000 0.000000 0.000000 MOTIF GRGAR DREME-5 # Word RC Word Pos Neg P-value E-value # BEST GRGAR YTCYC 995 817 2.3e-011 8.2e-007 # GGGAG CTCCC 355 243 1.9e-007 6.7e-003 # GAGAA TTCTC 426 317 2.5e-006 8.7e-002 # GAGAG CTCTC 343 254 2.8e-005 1.0e+000 # GGGAA TTCCC 409 315 3.6e-005 1.3e+000 letter-probability matrix: alength= 4 w= 5 nsites= 1686 E= 8.2e-007 0.000000 0.000000 1.000000 0.000000 0.485172 0.000000 0.514828 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.548043 0.000000 0.451957 0.000000 MOTIF CASGTGK DREME-6 # Word RC Word Pos Neg P-value E-value # BEST CASGTGK MCACSTG 107 35 2.3e-010 7.7e-006 # CAGGTGT ACACCTG 50 11 1.8e-007 6.0e-003 # CACGTGG CCACGTG 15 2 1.1e-003 3.9e+001 # CAGGTGG CCACCTG 41 19 2.9e-003 9.7e+001 # CACGTGT ACACGTG 15 4 9.4e-003 3.2e+002 letter-probability matrix: alength= 4 w= 7 nsites= 115 E= 7.7e-006 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.800000 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 0.486957 0.513043 MOTIF AWTATTCA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST AWTATTCA TGAATAWT 58 12 7.9e-009 2.7e-004 # ATTATTCA TGAATAAT 32 3 1.8e-007 6.1e-003 # AATATTCA TGAATATT 27 9 1.9e-003 6.3e+001 letter-probability matrix: alength= 4 w= 8 nsites= 61 E= 2.7e-004 1.000000 0.000000 0.000000 0.000000 0.459016 0.000000 0.000000 0.540984 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ATCTRCAT DREME-8 # Word RC Word Pos Neg P-value E-value # BEST ATCTRCAT ATGYAGAT 55 11 1.3e-008 4.4e-004 # ATCTGCAT ATGCAGAT 31 7 5.3e-005 1.8e+000 # ATCTACAT ATGTAGAT 24 4 8.4e-005 2.8e+000 letter-probability matrix: alength= 4 w= 8 nsites= 56 E= 4.4e-004 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 0.446429 0.000000 0.553571 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 MOTIF GAGGCTKC DREME-9 # Word RC Word Pos Neg P-value E-value # BEST GAGGCTKC GMAGCCTC 34 3 5.3e-008 1.8e-003 # GAGGCTTC GAAGCCTC 20 1 9.9e-006 3.3e-001 # GAGGCTGC GCAGCCTC 14 2 2.0e-003 6.9e+001 letter-probability matrix: alength= 4 w= 8 nsites= 34 E= 1.8e-003 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 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.411765 0.588235 0.000000 1.000000 0.000000 0.000000 MOTIF TTTCTTW DREME-10 # Word RC Word Pos Neg P-value E-value # BEST TTTCTTW WAAGAAA 167 86 6.0e-008 2.0e-003 # TTTCTTT AAAGAAA 121 61 2.7e-006 9.1e-002 # TTTCTTA TAAGAAA 50 27 5.3e-003 1.8e+002 letter-probability matrix: alength= 4 w= 7 nsites= 176 E= 2.0e-003 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.284091 0.000000 0.000000 0.715909 MOTIF ACCDCGG DREME-11 # Word RC Word Pos Neg P-value E-value # BEST ACCDCGG CCGHGGT 27 1 9.7e-008 3.2e-003 # ACCGCGG CCGCGGT 9 0 1.9e-003 6.5e+001 # ACCACGG CCGTGGT 11 1 3.1e-003 1.0e+002 # ACCTCGG CCGAGGT 7 0 7.8e-003 2.6e+002 letter-probability matrix: alength= 4 w= 7 nsites= 28 E= 3.2e-003 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.392857 0.000000 0.357143 0.250000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF CMTTTCA DREME-12 # Word RC Word Pos Neg P-value E-value # BEST CMTTTCA TGAAAKG 122 59 8.1e-007 2.7e-002 # CCTTTCA TGAAAGG 72 33 6.9e-005 2.3e+000 # CATTTCA TGAAATG 50 26 3.6e-003 1.2e+002 letter-probability matrix: alength= 4 w= 7 nsites= 125 E= 2.7e-002 0.000000 1.000000 0.000000 0.000000 0.416000 0.584000 0.000000 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ACAGCWGG DREME-13 # Word RC Word Pos Neg P-value E-value # BEST ACAGCWGG CCWGCTGT 38 7 1.3e-006 4.4e-002 # ACAGCAGG CCTGCTGT 24 5 2.6e-004 8.6e+000 # ACAGCTGG CCAGCTGT 14 2 2.0e-003 6.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 39 E= 4.4e-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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.641026 0.000000 0.000000 0.358974 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 136.23 seconds