# DREME 4.12.0 # command: dreme -v 1 -oc cutrun_memechip_out/dreme_out -png -dna -p cutrun_memechip_out/seqs-centered -n cutrun_memechip_out/seqs-shuffled # positives: 4040 from cutrun_memechip_out/seqs-centered (Mon Oct 21 17:11:29 PDT 2019) # negatives: 4040 from cutrun_memechip_out/seqs-shuffled (Mon Oct 21 17:11:29 PDT 2019) # host: surya.stanford.edu # when: Mon Oct 21 17:26:14 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 0.284 C 0.216 G 0.216 T 0.284 MOTIF ATGYWAAT DREME-1 # Word RC Word Pos Neg P-value E-value # BEST ATGYWAAT ATTWRCAT 681 98 1.2e-118 5.2e-114 # ATGCAAAT ATTTGCAT 318 27 7.0e-067 3.0e-062 # ATGTAAAT ATTTACAT 161 21 9.3e-029 4.0e-024 # ATGCTAAT ATTAGCAT 158 21 5.4e-028 2.3e-023 # ATGTTAAT ATTAACAT 101 29 5.7e-011 2.4e-006 letter-probability matrix: alength= 4 w= 8 nsites= 765 E= 5.2e-114 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 0.647059 0.000000 0.352941 0.653595 0.000000 0.000000 0.346405 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF GGTVCTGA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST GGTVCTGA TCAGBACC 244 31 9.1e-044 3.8e-039 # GGTGCTGA TCAGCACC 166 15 2.6e-034 1.1e-029 # GGTCCTGA TCAGGACC 53 11 4.5e-008 1.9e-003 # GGTACTGA TCAGTACC 25 5 1.6e-004 6.7e+000 letter-probability matrix: alength= 4 w= 8 nsites= 254 E= 3.8e-039 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.098425 0.212598 0.688976 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 1.000000 0.000000 0.000000 0.000000 MOTIF TRCATAW DREME-3 # Word RC Word Pos Neg P-value E-value # BEST TRCATAW WTATGYA 553 213 2.2e-039 9.2e-035 # TGCATAT ATATGCA 189 63 1.5e-016 6.4e-012 # TGCATAA TTATGCA 189 71 3.1e-014 1.3e-009 # TACATAA TTATGTA 130 46 5.7e-011 2.4e-006 # TACATAT ATATGTA 89 45 8.0e-005 3.4e+000 letter-probability matrix: alength= 4 w= 7 nsites= 622 E= 9.2e-035 0.000000 0.000000 0.000000 1.000000 0.372990 0.000000 0.627010 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 1.000000 0.000000 0.000000 0.000000 0.530547 0.000000 0.000000 0.469453 MOTIF GGACAGCD DREME-4 # Word RC Word Pos Neg P-value E-value # BEST GGACAGCD HGCTGTCC 200 32 5.7e-032 2.4e-027 # GGACAGCG CGCTGTCC 69 2 8.2e-019 3.5e-014 # GGACAGCT AGCTGTCC 71 17 2.2e-009 9.0e-005 # GGACAGCA TGCTGTCC 62 13 3.6e-009 1.5e-004 letter-probability matrix: alength= 4 w= 8 nsites= 205 E= 2.4e-027 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 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 0.302439 0.000000 0.346341 0.351220 MOTIF TTYCTB DREME-5 # Word RC Word Pos Neg P-value E-value # BEST TTYCTB VAGRAA 2265 1784 5.5e-027 2.3e-022 # TTCCTG CAGGAA 454 282 1.6e-011 6.7e-007 # TTCCTT AAGGAA 590 404 1.7e-010 7.0e-006 # TTCCTC GAGGAA 401 282 1.1e-006 4.7e-002 # TTTCTT AAGAAA 765 606 1.4e-006 5.8e-002 # TTTCTC GAGAAA 498 369 2.0e-006 8.5e-002 # TTTCTG CAGAAA 475 362 2.1e-005 8.9e-001 letter-probability matrix: alength= 4 w= 6 nsites= 3373 E= 2.3e-022 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.450637 0.000000 0.549363 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.280166 0.293804 0.426030 MOTIF GGGYGGGR DREME-6 # Word RC Word Pos Neg P-value E-value # BEST GGGYGGGR YCCCRCCC 187 58 9.0e-018 3.7e-013 # GGGCGGGG CCCCGCCC 70 13 5.5e-011 2.3e-006 # GGGTGGGG CCCCACCC 62 20 1.7e-006 6.9e-002 # GGGTGGGA TCCCACCC 43 16 2.8e-004 1.2e+001 # GGGCGGGA TCCCGCCC 25 10 8.2e-003 3.4e+002 letter-probability matrix: alength= 4 w= 8 nsites= 206 E= 3.7e-013 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 0.475728 0.000000 0.524272 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.330097 0.000000 0.669903 0.000000 MOTIF ACAAADG DREME-7 # Word RC Word Pos Neg P-value E-value # BEST ACAAADG CHTTTGT 417 235 5.1e-014 2.1e-009 # ACAAAAG CTTTTGT 187 102 2.0e-007 8.4e-003 # ACAAAGG CCTTTGT 126 62 1.4e-006 5.6e-002 # ACAAATG CATTTGT 121 79 1.6e-003 6.7e+001 letter-probability matrix: alength= 4 w= 7 nsites= 443 E= 2.1e-009 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 0.435666 0.000000 0.288939 0.275395 0.000000 0.000000 1.000000 0.000000 MOTIF DTATGCGC DREME-8 # Word RC Word Pos Neg P-value E-value # BEST DTATGCGC GCGCATAH 48 2 1.0e-012 4.1e-008 # ATATGCGC GCGCATAT 21 0 4.6e-007 1.9e-002 # GTATGCGC GCGCATAC 13 0 1.2e-004 5.0e+000 # TTATGCGC GCGCATAA 17 2 3.6e-004 1.5e+001 letter-probability matrix: alength= 4 w= 8 nsites= 48 E= 4.1e-008 0.437500 0.000000 0.250000 0.312500 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 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF TATTYA DREME-9 # Word RC Word Pos Neg P-value E-value # BEST TATTYA TRAATA 725 508 1.1e-011 4.4e-007 # TATTCA TGAATA 395 259 1.7e-008 6.8e-004 # TATTTA TAAATA 370 276 6.7e-005 2.7e+000 letter-probability matrix: alength= 4 w= 6 nsites= 810 E= 4.4e-007 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 0.512346 0.000000 0.487654 1.000000 0.000000 0.000000 0.000000 MOTIF BTACCTGG DREME-10 # Word RC Word Pos Neg P-value E-value # BEST BTACCTGG CCAGGTAV 72 14 5.9e-011 2.4e-006 # CTACCTGG CCAGGTAG 32 6 1.2e-005 4.8e-001 # TTACCTGG CCAGGTAA 24 4 8.8e-005 3.6e+000 # GTACCTGG CCAGGTAC 19 4 1.3e-003 5.3e+001 letter-probability matrix: alength= 4 w= 8 nsites= 76 E= 2.4e-006 0.000000 0.421053 0.263158 0.315789 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 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF ATGCADA DREME-11 # Word RC Word Pos Neg P-value E-value # BEST ATGCADA THTGCAT 263 143 5.3e-010 2.2e-005 # ATGCAGA TCTGCAT 115 53 7.6e-007 3.1e-002 # ATGCAAA TTTGCAT 118 75 1.1e-003 4.4e+001 # ATGCATA TATGCAT 39 19 5.8e-003 2.4e+002 letter-probability matrix: alength= 4 w= 7 nsites= 274 E= 2.2e-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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.430657 0.000000 0.423358 0.145985 1.000000 0.000000 0.000000 0.000000 MOTIF AGGCDG DREME-12 # Word RC Word Pos Neg P-value E-value # BEST AGGCDG CHGCCT 722 528 1.4e-009 5.6e-005 # AGGCGG CCGCCT 134 74 1.5e-005 6.2e-001 # AGGCTG CAGCCT 338 259 4.5e-004 1.8e+001 # AGGCAG CTGCCT 317 248 1.5e-003 6.1e+001 letter-probability matrix: alength= 4 w= 6 nsites= 820 E= 5.6e-005 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 0.404878 0.000000 0.175610 0.419512 0.000000 0.000000 1.000000 0.000000 MOTIF AMATTCC DREME-13 # Word RC Word Pos Neg P-value E-value # BEST AMATTCC GGAATKT 187 93 5.7e-009 2.3e-004 # ACATTCC GGAATGT 96 33 9.9e-009 4.0e-004 # AAATTCC GGAATTT 92 60 5.5e-003 2.2e+002 letter-probability matrix: alength= 4 w= 7 nsites= 190 E= 2.3e-004 1.000000 0.000000 0.000000 0.000000 0.489474 0.510526 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 MOTIF AYGGACAG DREME-14 # Word RC Word Pos Neg P-value E-value # BEST AYGGACAG CTGTCCRT 41 5 2.0e-008 8.3e-004 # ATGGACAG CTGTCCAT 30 4 3.0e-006 1.2e-001 # ACGGACAG CTGTCCGT 11 1 3.2e-003 1.3e+002 letter-probability matrix: alength= 4 w= 8 nsites= 42 E= 8.3e-004 1.000000 0.000000 0.000000 0.000000 0.000000 0.261905 0.000000 0.738095 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 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF GGARA DREME-15 # Word RC Word Pos Neg P-value E-value # BEST GGARA TYTCC 1624 1394 6.9e-008 2.8e-003 # GGAAA TTTCC 915 768 3.1e-005 1.3e+000 # GGAGA TCTCC 891 764 2.6e-004 1.0e+001 letter-probability matrix: alength= 4 w= 5 nsites= 2098 E= 2.8e-003 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.499523 0.000000 0.500477 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CACACSTG DREME-16 # Word RC Word Pos Neg P-value E-value # BEST CACACSTG CASGTGTG 54 12 7.6e-008 3.0e-003 # CACACCTG CAGGTGTG 42 12 2.5e-005 9.8e-001 # CACACGTG CACGTGTG 12 0 2.4e-004 9.7e+000 letter-probability matrix: alength= 4 w= 8 nsites= 54 E= 3.0e-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 0.777778 0.222222 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: 405.78 seconds