# 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: 4294 from seqnotcut_memechip_out/seqs-centered (Mon Oct 21 17:02:21 PDT 2019) # negatives: 4294 from seqnotcut_memechip_out/seqs-shuffled (Mon Oct 21 17:02:21 PDT 2019) # host: surya.stanford.edu # when: Mon Oct 21 17:15:46 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 0.265 C 0.236 G 0.233 T 0.265 MOTIF CATRABAA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST CATRABAA TTVTYATG 1187 95 1.8e-276 7.8e-272 # CATAACAA TTGTTATG 422 14 1.8e-110 7.9e-106 # CATGACAA TTGTCATG 363 21 4.6e-085 2.0e-080 # CATAAGAA TTCTTATG 141 8 2.6e-033 1.1e-028 # CATGATAA TTATCATG 92 12 6.7e-017 2.9e-012 # CATAATAA TTATTATG 90 14 3.3e-015 1.4e-010 # CATGAGAA TTCTCATG 103 26 1.7e-012 7.4e-008 letter-probability matrix: alength= 4 w= 8 nsites= 1218 E= 7.8e-272 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.540230 0.000000 0.459770 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.648604 0.201970 0.149425 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ATGYADAT DREME-2 # Word RC Word Pos Neg P-value E-value # BEST ATGYADAT ATHTRCAT 696 98 3.8e-122 1.6e-117 # ATGCAAAT ATTTGCAT 317 31 2.6e-063 1.1e-058 # ATGTAAAT ATTTACAT 145 18 1.5e-026 6.3e-022 # ATGCAGAT ATCTGCAT 122 20 1.3e-019 5.6e-015 # ATGCATAT ATATGCAT 94 18 4.8e-014 2.1e-009 # ATGTAGAT ATCTACAT 32 7 3.4e-005 1.5e+000 # ATGTATAT ATATACAT 26 5 9.4e-005 4.0e+000 letter-probability matrix: alength= 4 w= 8 nsites= 748 E= 1.6e-117 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 0.725936 0.000000 0.274064 1.000000 0.000000 0.000000 0.000000 0.629679 0.000000 0.209893 0.160428 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF ATGYWAA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST ATGYWAA TTWRCAT 630 246 5.2e-044 2.2e-039 # ATGCAAA TTTGCAT 259 97 3.7e-019 1.6e-014 # ATGCTAA TTAGCAT 181 71 7.2e-013 3.1e-008 # ATGTTAA TTAACAT 119 43 6.8e-010 2.9e-005 # ATGTAAA TTTACAT 97 40 5.0e-007 2.1e-002 letter-probability matrix: alength= 4 w= 7 nsites= 673 E= 2.2e-039 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 0.676077 0.000000 0.323923 0.548291 0.000000 0.000000 0.451709 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CCTGSDG DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CCTGSDG CHSCAGG 916 492 1.2e-035 5.0e-031 # CCTGCTG CAGCAGG 306 118 1.4e-021 6.1e-017 # CCTGGAG CTCCAGG 198 100 4.0e-009 1.7e-004 # CCTGGGG CCCCAGG 194 113 1.5e-006 6.3e-002 # CCTGCAG CTGCAGG 157 91 1.3e-005 5.4e-001 # CCTGGTG CACCAGG 111 75 4.6e-003 2.0e+002 # CCTGCGG CCGCAGG 49 26 5.1e-003 2.2e+002 letter-probability matrix: alength= 4 w= 7 nsites= 1051 E= 5.0e-031 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 1.000000 0.000000 0.000000 0.504282 0.495718 0.000000 0.349191 0.000000 0.240723 0.410086 0.000000 0.000000 1.000000 0.000000 MOTIF ATNACAAW DREME-5 # Word RC Word Pos Neg P-value E-value # BEST ATNACAAW WTTGTNAT 401 119 3.7e-039 1.6e-034 # ATAACAAA TTTGTTAT 85 15 1.8e-013 7.7e-009 # ATAACAAT ATTGTTAT 50 9 2.4e-008 1.0e-003 # ATCACAAA TTTGTGAT 62 20 1.7e-006 7.1e-002 # ATGACAAA TTTGTCAT 47 14 1.3e-005 5.4e-001 # ATGACAAT ATTGTCAT 42 13 5.4e-005 2.3e+000 # ATTACAAT ATTGTAAT 39 12 9.5e-005 4.0e+000 # ATTACAAA TTTGTAAT 46 18 2.9e-004 1.2e+001 # ATCACAAT ATTGTGAT 39 19 5.8e-003 2.5e+002 letter-probability matrix: alength= 4 w= 8 nsites= 417 E= 1.6e-034 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.330935 0.244604 0.215827 0.208633 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 0.587530 0.000000 0.000000 0.412470 MOTIF ATGCGCAT DREME-6 # Word RC Word Pos Neg P-value E-value # BEST ATGCGCAT ATGCGCAT 124 3 8.5e-034 3.6e-029 # ATGCGCAT ATGCGCAT 124 3 8.5e-034 3.6e-029 letter-probability matrix: alength= 4 w= 8 nsites= 124 E= 3.6e-029 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 GRGARR DREME-7 # Word RC Word Pos Neg P-value E-value # BEST GRGARR YYTCYC 2269 1765 6.6e-028 2.8e-023 # GGGAGG CCTCCC 570 347 3.3e-015 1.4e-010 # GAGAAA TTTCTC 468 309 1.2e-009 5.3e-005 # GGGAAG CTTCCC 450 315 1.8e-007 7.7e-003 # GAGAGA TCTCTC 360 248 1.4e-006 6.0e-002 # GGGAAA TTTCCC 433 319 7.8e-006 3.3e-001 # GGGAGA TCTCCC 410 322 3.8e-004 1.6e+001 # GAGAGG CCTCTC 396 320 1.7e-003 7.2e+001 # GAGAAG CTTCTC 348 290 9.5e-003 4.0e+002 letter-probability matrix: alength= 4 w= 6 nsites= 3319 E= 2.8e-023 0.000000 0.000000 1.000000 0.000000 0.441097 0.000000 0.558903 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.511600 0.000000 0.488400 0.000000 0.464598 0.000000 0.535402 0.000000 MOTIF AAAGRVA DREME-8 # Word RC Word Pos Neg P-value E-value # BEST AAAGRVA TBYCTTT 869 536 1.2e-022 5.0e-018 # AAAGAAA TTTCTTT 257 139 6.7e-010 2.8e-005 # AAAGAGA TCTCTTT 126 61 8.9e-007 3.7e-002 # AAAGGAA TTCCTTT 182 109 8.0e-006 3.3e-001 # AAAGGGA TCCCTTT 101 59 5.0e-004 2.1e+001 # AAAGACA TGTCTTT 130 90 3.8e-003 1.6e+002 # AAAGGCA TGCCTTT 169 128 9.0e-003 3.7e+002 letter-probability matrix: alength= 4 w= 7 nsites= 970 E= 5.0e-018 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 0.530928 0.000000 0.469072 0.000000 0.454639 0.311340 0.234021 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CTGTGD DREME-9 # Word RC Word Pos Neg P-value E-value # BEST CTGTGD HCACAG 993 705 3.3e-015 1.4e-010 # CTGTGG CCACAG 379 247 2.4e-008 1.0e-003 # CTGTGA TCACAG 353 243 1.7e-006 7.2e-002 # CTGTGT ACACAG 336 247 7.8e-005 3.2e+000 letter-probability matrix: alength= 4 w= 6 nsites= 1109 E= 1.4e-010 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 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.335437 0.000000 0.355275 0.309288 MOTIF ATGAATAW DREME-10 # Word RC Word Pos Neg P-value E-value # BEST ATGAATAW WTATTCAT 103 26 1.7e-012 7.0e-008 # ATGAATAT ATATTCAT 62 12 1.2e-009 5.1e-005 # ATGAATAA TTATTCAT 41 14 1.7e-004 7.0e+000 letter-probability matrix: alength= 4 w= 8 nsites= 107 E= 7.0e-008 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 0.392523 0.000000 0.000000 0.607477 MOTIF ACAAAGV DREME-11 # Word RC Word Pos Neg P-value E-value # BEST ACAAAGV BCTTTGT 350 197 7.0e-012 2.9e-007 # ACAAAGG CCTTTGT 127 60 4.1e-007 1.7e-002 # ACAAAGA TCTTTGT 112 64 1.6e-004 6.5e+000 # ACAAAGC GCTTTGT 120 78 1.6e-003 6.4e+001 letter-probability matrix: alength= 4 w= 7 nsites= 363 E= 2.9e-007 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.314050 0.336088 0.349862 0.000000 MOTIF GGGTTCGA DREME-12 # Word RC Word Pos Neg P-value E-value # BEST GGGTTCGA TCGAACCC 40 1 1.8e-011 7.2e-007 # GGGTTCGA TCGAACCC 40 1 1.8e-011 7.2e-007 letter-probability matrix: alength= 4 w= 8 nsites= 40 E= 7.2e-007 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 GGAATGY DREME-13 # Word RC Word Pos Neg P-value E-value # BEST GGAATGY RCATTCC 192 89 2.0e-010 8.2e-006 # GGAATGT ACATTCC 100 38 5.1e-008 2.1e-003 # GGAATGC GCATTCC 94 51 2.0e-004 8.2e+000 letter-probability matrix: alength= 4 w= 7 nsites= 198 E= 8.2e-006 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 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.479798 0.000000 0.520202 MOTIF CAWATGAA DREME-14 # Word RC Word Pos Neg P-value E-value # BEST CAWATGAA TTCATWTG 98 30 4.9e-010 2.0e-005 # CATATGAA TTCATATG 53 10 1.5e-008 6.2e-004 # CAAATGAA TTCATTTG 45 20 1.3e-003 5.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 100 E= 2.0e-005 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.450000 0.000000 0.000000 0.550000 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 MOTIF GAAATGYA DREME-15 # Word RC Word Pos Neg P-value E-value # BEST GAAATGYA TRCATTTC 79 20 7.3e-010 3.0e-005 # GAAATGCA TGCATTTC 56 15 4.7e-007 1.9e-002 # GAAATGTA TACATTTC 23 5 4.5e-004 1.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 79 E= 3.0e-005 0.000000 0.000000 1.000000 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 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.708861 0.000000 0.291139 1.000000 0.000000 0.000000 0.000000 MOTIF TKTAAATR DREME-16 # Word RC Word Pos Neg P-value E-value # BEST TKTAAATR YATTTAMA 112 41 3.1e-009 1.3e-004 # TTTAAATG CATTTAAA 47 19 3.6e-004 1.5e+001 # TGTAAATG CATTTACA 28 8 5.8e-004 2.4e+001 # TGTAAATA TATTTACA 15 2 1.2e-003 4.8e+001 # TTTAAATA TATTTAAA 31 14 7.9e-003 3.2e+002 letter-probability matrix: alength= 4 w= 8 nsites= 115 E= 1.3e-004 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.373913 0.626087 0.000000 0.000000 0.000000 1.000000 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 0.000000 0.000000 1.000000 0.373913 0.000000 0.626087 0.000000 MOTIF ATTAVCA DREME-17 # Word RC Word Pos Neg P-value E-value # BEST ATTAVCA TGBTAAT 202 104 6.3e-009 2.6e-004 # ATTAGCA TGCTAAT 89 38 3.0e-006 1.2e-001 # ATTAACA TGTTAAT 66 36 1.8e-003 7.5e+001 # ATTACCA TGGTAAT 55 30 4.3e-003 1.7e+002 letter-probability matrix: alength= 4 w= 7 nsites= 210 E= 2.6e-004 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.323810 0.257143 0.419048 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CACACSTG DREME-18 # Word RC Word Pos Neg P-value E-value # BEST CACACSTG CASGTGTG 54 11 2.7e-008 1.1e-003 # CACACCTG CAGGTGTG 38 10 2.9e-005 1.2e+000 # CACACGTG CACGTGTG 16 1 1.4e-004 5.5e+000 letter-probability matrix: alength= 4 w= 8 nsites= 54 E= 1.1e-003 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 0.000000 1.000000 0.000000 0.000000 0.000000 0.703704 0.296296 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 MOTIF CCAGGYAC DREME-19 # Word RC Word Pos Neg P-value E-value # BEST CCAGGYAC GTRCCTGG 41 6 8.3e-008 3.4e-003 # CCAGGCAC GTGCCTGG 25 4 5.1e-005 2.1e+000 # CCAGGTAC GTACCTGG 16 2 6.5e-004 2.6e+001 letter-probability matrix: alength= 4 w= 8 nsites= 44 E= 3.4e-003 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 0.000000 1.000000 0.000000 0.000000 0.568182 0.000000 0.431818 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CMCCACC DREME-20 # Word RC Word Pos Neg P-value E-value # BEST CMCCACC GGTGGKG 194 106 1.3e-007 5.4e-003 # CCCCACC GGTGGGG 122 67 3.2e-005 1.3e+000 # CACCACC GGTGGTG 77 42 7.9e-004 3.2e+001 letter-probability matrix: alength= 4 w= 7 nsites= 197 E= 5.4e-003 0.000000 1.000000 0.000000 0.000000 0.375635 0.624365 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 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CCKGGCTC DREME-21 # Word RC Word Pos Neg P-value E-value # BEST CCKGGCTC GAGCCMGG 64 19 3.3e-007 1.3e-002 # CCTGGCTC GAGCCAGG 49 15 1.1e-005 4.6e-001 # CCGGGCTC GAGCCCGG 16 4 5.9e-003 2.4e+002 letter-probability matrix: alength= 4 w= 8 nsites= 66 E= 1.3e-002 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.242424 0.757576 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 1.000000 0.000000 0.000000 MOTIF AGAAACTG DREME-22 # Word RC Word Pos Neg P-value E-value # BEST AGAAACTG CAGTTTCT 36 5 3.7e-007 1.5e-002 # AGAAACTG CAGTTTCT 36 5 3.7e-007 1.5e-002 letter-probability matrix: alength= 4 w= 8 nsites= 37 E= 1.5e-002 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 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 1.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 573.42 seconds