# DREME 4.12.0 # command: dreme -v 1 -oc seqnotcut_memechip_out/dreme_out -png -dna -p seqnotcut_memechip_out/seqs-centered -n seqnotcut_memechip_out/seqs-shuffled # positives: 3639 from seqnotcut_memechip_out/seqs-centered (Mon Oct 21 19:03:05 PDT 2019) # negatives: 3639 from seqnotcut_memechip_out/seqs-shuffled (Mon Oct 21 19:03:05 PDT 2019) # host: surya.stanford.edu # when: Mon Oct 21 19:15:54 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 0.262 C 0.238 G 0.237 T 0.263 MOTIF CATRABAA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST CATRABAA TTVTYATG 990 86 1.9e-224 8.2e-220 # CATAACAA TTGTTATG 348 9 2.1e-094 8.9e-090 # CATGACAA TTGTCATG 318 26 5.5e-068 2.4e-063 # CATAAGAA TTCTTATG 112 16 1.7e-019 7.2e-015 # CATGATAA TTATCATG 80 10 3.8e-015 1.6e-010 # CATGAGAA TTCTCATG 90 18 3.7e-013 1.6e-008 # CATAATAA TTATTATG 63 7 9.2e-013 3.9e-008 letter-probability matrix: alength= 4 w= 8 nsites= 1018 E= 8.2e-220 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.517682 0.000000 0.482318 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.659136 0.200393 0.140472 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ATKCANAT DREME-2 # Word RC Word Pos Neg P-value E-value # BEST ATKCANAT ATNTGMAT 606 130 4.4e-082 1.9e-077 # ATGCAAAT ATTTGCAT 240 24 9.8e-048 4.2e-043 # ATGCAGAT ATCTGCAT 109 14 5.6e-020 2.4e-015 # ATGCATAT ATATGCAT 76 13 2.1e-012 8.8e-008 # ATTCATAT ATATGAAT 75 17 2.9e-010 1.2e-005 # ATTCAAAT ATTTGAAT 76 33 2.0e-005 8.7e-001 # ATGCACAT ATGTGCAT 43 13 3.4e-005 1.5e+000 # ATTCACAT ATGTGAAT 29 9 8.1e-004 3.4e+001 # ATTCAGAT ATCTGAAT 34 13 1.5e-003 6.3e+001 letter-probability matrix: alength= 4 w= 8 nsites= 649 E= 1.9e-077 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.696456 0.303544 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.471495 0.104777 0.208012 0.215716 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF ATNACAAW DREME-3 # Word RC Word Pos Neg P-value E-value # BEST ATNACAAW WTTGTNAT 390 99 7.2e-045 3.0e-040 # ATAACAAT ATTGTTAT 42 3 3.9e-010 1.6e-005 # ATAACAAA TTTGTTAT 67 14 7.8e-010 3.3e-005 # ATCACAAA TTTGTGAT 66 19 1.3e-007 5.5e-003 # ATCACAAT ATTGTGAT 49 11 3.4e-007 1.4e-002 # ATTACAAT ATTGTAAT 51 13 8.5e-007 3.6e-002 # ATGACAAT ATTGTCAT 36 7 4.2e-006 1.8e-001 # ATTACAAA TTTGTAAT 51 19 7.7e-005 3.3e+000 # ATGACAAA TTTGTCAT 37 14 8.5e-004 3.6e+001 letter-probability matrix: alength= 4 w= 8 nsites= 406 E= 3.0e-040 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.275862 0.285714 0.182266 0.256158 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 0.556650 0.000000 0.000000 0.443350 MOTIF ATGCGCAT DREME-4 # Word RC Word Pos Neg P-value E-value # BEST ATGCGCAT ATGCGCAT 92 0 1.1e-028 4.7e-024 # ATGCGCAT ATGCGCAT 92 0 1.1e-028 4.7e-024 letter-probability matrix: alength= 4 w= 8 nsites= 92 E= 4.7e-024 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 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF ATGYWAA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST ATGYWAA TTWRCAT 500 225 1.1e-027 4.4e-023 # ATGTAAA TTTACAT 162 46 4.7e-017 2.0e-012 # ATGCAAA TTTGCAT 172 88 6.3e-008 2.6e-003 # ATGCTAA TTAGCAT 111 54 4.3e-006 1.8e-001 # ATGTTAA TTAACAT 81 50 4.0e-003 1.7e+002 letter-probability matrix: alength= 4 w= 7 nsites= 531 E= 4.4e-023 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 0.536723 0.000000 0.463277 0.644068 0.000000 0.000000 0.355932 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CMCAGS DREME-6 # Word RC Word Pos Neg P-value E-value # BEST CMCAGS SCTGKG 1399 1001 1.8e-023 7.5e-019 # CCCAGG CCTGGG 470 315 2.7e-009 1.1e-004 # CACAGC GCTGTG 380 241 3.1e-009 1.3e-004 # CCCAGC GCTGGG 467 331 1.9e-007 8.1e-003 # CACAGG CCTGTG 351 259 5.8e-005 2.4e+000 letter-probability matrix: alength= 4 w= 6 nsites= 1794 E= 7.5e-019 0.000000 1.000000 0.000000 0.000000 0.428651 0.571349 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 0.510033 0.489967 0.000000 MOTIF CCTTTSW DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CCTTTSW WSAAAGG 558 312 2.7e-019 1.1e-014 # CCTTTGT ACAAAGG 144 55 6.4e-011 2.6e-006 # CCTTTCT AGAAAGG 157 83 6.9e-007 2.9e-002 # CCTTTGA TCAAAGG 151 92 7.2e-005 3.0e+000 # CCTTTCA TGAAAGG 140 93 1.1e-003 4.4e+001 letter-probability matrix: alength= 4 w= 7 nsites= 602 E= 1.1e-014 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 0.000000 0.000000 0.000000 1.000000 0.000000 0.500000 0.500000 0.000000 0.493355 0.000000 0.000000 0.506645 MOTIF CCCDCCCC DREME-8 # Word RC Word Pos Neg P-value E-value # BEST CCCDCCCC GGGGHGGG 181 58 1.1e-016 4.6e-012 # CCCTCCCC GGGGAGGG 95 26 7.2e-011 3.0e-006 # CCCACCCC GGGGTGGG 58 18 2.1e-006 8.7e-002 # CCCGCCCC GGGGCGGG 36 16 3.8e-003 1.6e+002 letter-probability matrix: alength= 4 w= 8 nsites= 188 E= 4.6e-012 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.292553 0.000000 0.202128 0.505319 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 MOTIF RCATTCCW DREME-9 # Word RC Word Pos Neg P-value E-value # BEST RCATTCCW WGGAATGY 142 41 7.5e-015 3.1e-010 # GCATTCCT AGGAATGC 43 10 2.6e-006 1.1e-001 # ACATTCCA TGGAATGT 33 7 2.0e-005 8.4e-001 # ACATTCCT AGGAATGT 35 9 5.1e-005 2.1e+000 # GCATTCCA TGGAATGC 33 15 6.5e-003 2.7e+002 letter-probability matrix: alength= 4 w= 8 nsites= 147 E= 3.1e-010 0.476190 0.000000 0.523810 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 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.462585 0.000000 0.000000 0.537415 MOTIF GGAGR DREME-10 # Word RC Word Pos Neg P-value E-value # BEST GGAGR YCTCC 1700 1394 2.3e-013 9.5e-009 # GGAGA TCTCC 964 755 4.6e-009 1.9e-004 # GGAGG CCTCC 1032 833 5.2e-008 2.1e-003 letter-probability matrix: alength= 4 w= 5 nsites= 2358 E= 9.5e-009 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 0.471586 0.000000 0.528414 0.000000 MOTIF AAAGARA DREME-11 # Word RC Word Pos Neg P-value E-value # BEST AAAGARA TYTCTTT 345 199 4.1e-011 1.6e-006 # AAAGAAA TTTCTTT 198 117 1.8e-006 7.4e-002 # AAAGAGA TCTCTTT 155 91 2.0e-005 8.1e-001 letter-probability matrix: alength= 4 w= 7 nsites= 365 E= 1.6e-006 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.564384 0.000000 0.435616 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CAGYAGG DREME-12 # Word RC Word Pos Neg P-value E-value # BEST CAGYAGG CCTRCTG 225 110 6.1e-011 2.5e-006 # CAGCAGG CCTGCTG 168 81 1.1e-008 4.3e-004 # CAGTAGG CCTACTG 57 32 5.0e-003 2.0e+002 letter-probability matrix: alength= 4 w= 7 nsites= 229 E= 2.5e-006 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 0.746725 0.000000 0.253275 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF CACWGWG DREME-13 # Word RC Word Pos Neg P-value E-value # BEST CACWGWG CWCWGTG 288 157 7.6e-011 3.1e-006 # CACAGAG CTCTGTG 123 59 9.0e-007 3.6e-002 # CACAGTG CACTGTG 95 52 2.1e-004 8.7e+000 # CACTGAG CTCAGTG 76 48 7.1e-003 2.9e+002 letter-probability matrix: alength= 4 w= 7 nsites= 295 E= 3.1e-006 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.532203 0.000000 0.000000 0.467797 0.000000 0.000000 1.000000 0.000000 0.674576 0.000000 0.000000 0.325424 0.000000 0.000000 1.000000 0.000000 MOTIF MATGAATA DREME-14 # Word RC Word Pos Neg P-value E-value # BEST MATGAATA TATTCATK 75 18 7.7e-010 3.1e-005 # CATGAATA TATTCATG 47 8 3.6e-008 1.5e-003 # AATGAATA TATTCATT 30 10 1.1e-003 4.4e+001 letter-probability matrix: alength= 4 w= 8 nsites= 75 E= 3.1e-005 0.386667 0.613333 0.000000 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 1.000000 0.000000 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 MOTIF GGGTTCGA DREME-15 # Word RC Word Pos Neg P-value E-value # BEST GGGTTCGA TCGAACCC 35 2 4.8e-009 1.9e-004 # GGGTTCGA TCGAACCC 35 2 4.8e-009 1.9e-004 letter-probability matrix: alength= 4 w= 8 nsites= 35 E= 1.9e-004 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 0.000000 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 CATTTAM DREME-16 # Word RC Word Pos Neg P-value E-value # BEST CATTTAM KTAAATG 150 72 5.8e-008 2.3e-003 # CATTTAC GTAAATG 65 19 2.1e-007 8.3e-003 # CATTTAA TTAAATG 87 53 2.3e-003 9.4e+001 letter-probability matrix: alength= 4 w= 7 nsites= 152 E= 2.3e-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 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.572368 0.427632 0.000000 0.000000 MOTIF CCTRSAG DREME-17 # Word RC Word Pos Neg P-value E-value # BEST CCTRSAG CTSYAGG 298 184 4.4e-008 1.8e-003 # CCTGGAG CTCCAGG 69 36 7.7e-004 3.1e+001 # CCTAGAG CTCTAGG 68 39 3.1e-003 1.2e+002 # CCTACAG CTGTAGG 51 28 6.2e-003 2.5e+002 # CCTGCAG CTGCAGG 119 84 7.7e-003 3.1e+002 letter-probability matrix: alength= 4 w= 7 nsites= 316 E= 1.8e-003 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.382911 0.000000 0.617089 0.000000 0.000000 0.560127 0.439873 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF AARACAA DREME-18 # Word RC Word Pos Neg P-value E-value # BEST AARACAA TTGTYTT 250 155 6.9e-007 2.8e-002 # AAAACAA TTGTTTT 147 94 3.1e-004 1.3e+001 # AAGACAA TTGTCTT 108 67 1.1e-003 4.3e+001 letter-probability matrix: alength= 4 w= 7 nsites= 262 E= 2.8e-002 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.576336 0.000000 0.423664 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 # Stopping reason: E-value threshold exceeded # Running time: 339.37 seconds