# DREME 4.12.0 # command: dreme -v 1 -oc memechip_out/dreme_out -png -dna -p memechip_out/seqs-centered -n memechip_out/seqs-shuffled # positives: 4843 from memechip_out/seqs-centered (Mon Oct 21 03:35:52 PDT 2019) # negatives: 4843 from memechip_out/seqs-shuffled (Mon Oct 21 03:35:52 PDT 2019) # host: surya.stanford.edu # when: Mon Oct 21 03:48:08 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 0.268 C 0.233 G 0.231 T 0.268 MOTIF CATRABAA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST CATRABAA TTVTYATG 1337 114 5.4e-305 2.3e-300 # CATAACAA TTGTTATG 488 17 1.1e-126 4.8e-122 # CATGACAA TTGTCATG 389 21 2.4e-092 1.0e-087 # CATAAGAA TTCTTATG 153 22 4.9e-026 2.2e-021 # CATAATAA TTATTATG 118 17 2.5e-020 1.1e-015 # CATGATAA TTATCATG 105 17 3.8e-017 1.7e-012 # CATGAGAA TTCTCATG 114 25 2.9e-015 1.3e-010 letter-probability matrix: alength= 4 w= 8 nsites= 1374 E= 2.3e-300 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.556041 0.000000 0.443959 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.641921 0.195779 0.162300 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ATGYWAAT DREME-2 # Word RC Word Pos Neg P-value E-value # BEST ATGYWAAT ATTWRCAT 807 96 1.6e-153 6.9e-149 # ATGCAAAT ATTTGCAT 410 46 1.7e-077 7.2e-073 # ATGTAAAT ATTTACAT 190 19 1.2e-037 5.4e-033 # ATGCTAAT ATTAGCAT 162 13 1.0e-034 4.5e-030 # ATGTTAAT ATTAACAT 89 19 2.0e-012 8.6e-008 letter-probability matrix: alength= 4 w= 8 nsites= 864 E= 6.9e-149 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 0.678241 0.000000 0.321759 0.710648 0.000000 0.000000 0.289352 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 AWATGCR DREME-3 # Word RC Word Pos Neg P-value E-value # BEST AWATGCR YGCATWT 712 224 4.6e-066 2.0e-061 # ATATGCA TGCATAT 333 68 5.6e-045 2.4e-040 # ATATGCG CGCATAT 89 10 2.0e-017 8.6e-013 # AAATGCA TGCATTT 277 136 5.9e-013 2.5e-008 # AAATGCG CGCATTT 59 14 4.6e-008 2.0e-003 letter-probability matrix: alength= 4 w= 7 nsites= 770 E= 2.0e-061 1.000000 0.000000 0.000000 0.000000 0.440260 0.000000 0.000000 0.559740 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 0.815584 0.000000 0.184416 0.000000 MOTIF AATRASAA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST AATRASAA TTSTYATT 379 93 3.2e-044 1.4e-039 # AATAACAA TTGTTATT 179 27 1.6e-029 6.7e-025 # AATGACAA TTGTCATT 106 20 8.3e-016 3.6e-011 # AATGAGAA TTCTCATT 57 25 2.5e-004 1.1e+001 # AATAAGAA TTCTTATT 44 21 2.9e-003 1.2e+002 letter-probability matrix: alength= 4 w= 8 nsites= 387 E= 1.4e-039 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.573643 0.000000 0.426357 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.739018 0.260982 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CCWCCY DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CCWCCY RGGWGG 1644 1120 2.1e-032 8.9e-028 # CCTCCC GGGAGG 637 378 4.0e-018 1.7e-013 # CCTCCT AGGAGG 572 352 1.4e-014 6.0e-010 # CCACCT AGGTGG 439 294 1.4e-008 6.2e-004 # CCACCC GGGTGG 379 269 4.5e-006 1.9e-001 letter-probability matrix: alength= 4 w= 6 nsites= 2103 E= 8.9e-028 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.394199 0.000000 0.000000 0.605801 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.506419 0.000000 0.493581 MOTIF AAAGRVA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST AAAGRVA TBYCTTT 1190 749 1.8e-029 7.5e-025 # AAAGAAA TTTCTTT 328 176 1.7e-012 7.3e-008 # AAAGGAA TTCCTTT 238 132 1.1e-008 4.5e-004 # AAAGAGA TCTCTTT 217 125 2.4e-007 9.9e-003 # AAAGGGA TCCCTTT 190 124 9.2e-005 3.9e+000 # AAAGGCA TGCCTTT 210 142 1.3e-004 5.6e+000 # AAAGACA TGTCTTT 179 126 1.2e-003 5.1e+001 letter-probability matrix: alength= 4 w= 7 nsites= 1376 E= 7.5e-025 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 0.529797 0.000000 0.470203 0.000000 0.413517 0.287791 0.298692 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CAGCRGG DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CAGCRGG CCYGCTG 371 149 2.4e-024 1.0e-019 # CAGCAGG CCTGCTG 310 125 2.5e-020 1.1e-015 # CAGCGGG CCCGCTG 64 26 3.5e-005 1.5e+000 letter-probability matrix: alength= 4 w= 7 nsites= 387 E= 1.0e-019 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 0.832041 0.000000 0.167959 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF CATYACAA DREME-8 # Word RC Word Pos Neg P-value E-value # BEST CATYACAA TTGTRATG 181 43 4.5e-022 1.9e-017 # CATTACAA TTGTAATG 84 14 9.5e-014 4.0e-009 # CATCACAA TTGTGATG 98 29 2.3e-010 9.8e-006 letter-probability matrix: alength= 4 w= 8 nsites= 184 E= 1.9e-017 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 0.532609 0.000000 0.467391 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 TATGYARA DREME-9 # Word RC Word Pos Neg P-value E-value # BEST TATGYARA TYTRCATA 142 33 7.0e-018 2.9e-013 # TATGTAAA TTTACATA 39 4 1.5e-008 6.1e-004 # TATGCAAA TTTGCATA 44 13 2.2e-005 9.4e-001 # TATGCAGA TCTGCATA 39 11 4.3e-005 1.8e+000 # TATGTAGA TCTACATA 21 5 1.2e-003 5.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 148 E= 2.9e-013 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 0.594595 0.000000 0.405405 1.000000 0.000000 0.000000 0.000000 0.581081 0.000000 0.418919 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CMCAGS DREME-10 # Word RC Word Pos Neg P-value E-value # BEST CMCAGS SCTGKG 1546 1185 2.0e-016 8.4e-012 # CCCAGG CCTGGG 494 355 3.4e-007 1.4e-002 # CACAGG CCTGTG 418 293 6.4e-007 2.7e-002 # CCCAGC GCTGGG 488 363 4.1e-006 1.7e-001 # CACAGC GCTGTG 384 302 6.6e-004 2.8e+001 letter-probability matrix: alength= 4 w= 6 nsites= 1874 E= 8.4e-012 0.000000 1.000000 0.000000 0.000000 0.442903 0.557097 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 0.489861 0.510139 0.000000 MOTIF ATGCGCAT DREME-11 # Word RC Word Pos Neg P-value E-value # BEST ATGCGCAT ATGCGCAT 56 2 5.1e-015 2.1e-010 # ATGCGCAT ATGCGCAT 56 2 5.1e-015 2.1e-010 letter-probability matrix: alength= 4 w= 8 nsites= 56 E= 2.1e-010 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 ACAAWGG DREME-12 # Word RC Word Pos Neg P-value E-value # BEST ACAAWGG CCWTTGT 278 135 2.8e-013 1.2e-008 # ACAAAGG CCTTTGT 141 68 1.8e-007 7.7e-003 # ACAATGG CCATTGT 140 68 2.5e-007 1.1e-002 letter-probability matrix: alength= 4 w= 7 nsites= 282 E= 1.2e-008 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 0.500000 0.000000 0.000000 0.500000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF RGAGA DREME-13 # Word RC Word Pos Neg P-value E-value # BEST RGAGA TCTCY 2043 1707 1.4e-012 5.6e-008 # GGAGA TCTCC 1201 960 2.3e-009 9.5e-005 # AGAGA TCTCT 1207 1019 3.1e-006 1.3e-001 letter-probability matrix: alength= 4 w= 5 nsites= 2687 E= 5.6e-008 0.510234 0.000000 0.489766 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 1.000000 0.000000 0.000000 0.000000 MOTIF ATGAATAW DREME-14 # Word RC Word Pos Neg P-value E-value # BEST ATGAATAW WTATTCAT 104 27 2.7e-012 1.1e-007 # ATGAATAT ATATTCAT 59 9 1.7e-010 7.0e-006 # ATGAATAA TTATTCAT 45 18 4.3e-004 1.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 107 E= 1.1e-007 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 0.439252 0.000000 0.000000 0.560748 MOTIF GTAWTTM DREME-15 # Word RC Word Pos Neg P-value E-value # BEST GTAWTTM KAAWTAC 223 105 1.6e-011 6.3e-007 # GTATTTA TAAATAC 68 28 2.5e-005 1.0e+000 # GTAATTC GAATTAC 52 22 3.1e-004 1.3e+001 # GTATTTC GAAATAC 55 26 8.1e-004 3.3e+001 # GTAATTA TAATTAC 52 30 9.7e-003 3.9e+002 letter-probability matrix: alength= 4 w= 7 nsites= 229 E= 6.3e-007 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.462882 0.000000 0.000000 0.537118 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.524017 0.475983 0.000000 0.000000 MOTIF RCATTCCW DREME-16 # Word RC Word Pos Neg P-value E-value # BEST RCATTCCW WGGAATGY 182 79 4.5e-011 1.8e-006 # ACATTCCA TGGAATGT 48 16 3.7e-005 1.5e+000 # ACATTCCT AGGAATGT 44 16 1.9e-004 7.7e+000 # GCATTCCT AGGAATGC 49 24 2.2e-003 9.1e+001 # GCATTCCA TGGAATGC 43 23 9.1e-003 3.7e+002 letter-probability matrix: alength= 4 w= 8 nsites= 189 E= 1.8e-006 0.492063 0.000000 0.507937 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 0.486772 0.000000 0.000000 0.513228 MOTIF CACSTGS DREME-17 # Word RC Word Pos Neg P-value E-value # BEST CACSTGS SCASGTG 198 93 2.0e-010 8.1e-006 # CACGTGG CCACGTG 38 11 6.8e-005 2.8e+000 # CACCTGG CCAGGTG 74 37 2.7e-004 1.1e+001 # CACCTGC GCAGGTG 76 42 1.1e-003 4.3e+001 # CACGTGC GCACGTG 20 5 2.0e-003 8.2e+001 letter-probability matrix: alength= 4 w= 7 nsites= 207 E= 8.1e-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 0.000000 0.739130 0.260870 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.458937 0.541063 0.000000 MOTIF GGTTCGA DREME-18 # Word RC Word Pos Neg P-value E-value # BEST GGTTCGA TCGAACC 50 6 4.6e-010 1.9e-005 # GGTTCGA TCGAACC 50 6 4.6e-010 1.9e-005 letter-probability matrix: alength= 4 w= 7 nsites= 50 E= 1.9e-005 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 GAGTCAC DREME-19 # Word RC Word Pos Neg P-value E-value # BEST GAGTCAC GTGACTC 74 19 3.3e-009 1.3e-004 # GAGTCAC GTGACTC 74 19 3.3e-009 1.3e-004 letter-probability matrix: alength= 4 w= 7 nsites= 74 E= 1.3e-004 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 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CCACWGWG DREME-20 # Word RC Word Pos Neg P-value E-value # BEST CCACWGWG CWCWGTGG 126 52 1.1e-008 4.3e-004 # CCACTGAG CTCAGTGG 33 9 1.3e-004 5.3e+000 # CCACAGTG CACTGTGG 37 12 2.3e-004 9.2e+000 # CCACAGAG CTCTGTGG 30 13 6.8e-003 2.7e+002 # CCACTGTG CACAGTGG 42 22 8.3e-003 3.3e+002 letter-probability matrix: alength= 4 w= 8 nsites= 127 E= 4.3e-004 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 0.488189 0.000000 0.000000 0.511811 0.000000 0.000000 1.000000 0.000000 0.496063 0.000000 0.000000 0.503937 0.000000 0.000000 1.000000 0.000000 MOTIF CATTAKAA DREME-21 # Word RC Word Pos Neg P-value E-value # BEST CATTAKAA TTMTAATG 76 22 1.7e-008 6.8e-004 # CATTAGAA TTCTAATG 51 16 1.0e-005 4.1e-001 # CATTATAA TTATAATG 25 6 4.3e-004 1.7e+001 letter-probability matrix: alength= 4 w= 8 nsites= 81 E= 6.8e-004 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.691358 0.308642 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF KCCAGGTA DREME-22 # Word RC Word Pos Neg P-value E-value # BEST KCCAGGTA TACCTGGM 72 21 4.5e-008 1.8e-003 # GCCAGGTA TACCTGGC 44 10 1.6e-006 6.5e-002 # TCCAGGTA TACCTGGA 34 11 4.0e-004 1.6e+001 letter-probability matrix: alength= 4 w= 8 nsites= 78 E= 1.8e-003 0.000000 0.000000 0.564103 0.435897 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 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ATATGWAT DREME-23 # Word RC Word Pos Neg P-value E-value # BEST ATATGWAT ATWCATAT 62 17 1.6e-007 6.5e-003 # ATATGAAT ATTCATAT 38 11 6.8e-005 2.8e+000 # ATATGTAT ATACATAT 25 6 4.3e-004 1.7e+001 letter-probability matrix: alength= 4 w= 8 nsites= 62 E= 6.5e-003 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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.612903 0.000000 0.000000 0.387097 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF CTAAYGAG DREME-24 # Word RC Word Pos Neg P-value E-value # BEST CTAAYGAG CTCRTTAG 39 7 8.7e-007 3.5e-002 # CTAATGAG CTCATTAG 32 7 3.4e-005 1.4e+000 # CTAACGAG CTCGTTAG 7 0 7.8e-003 3.2e+002 letter-probability matrix: alength= 4 w= 8 nsites= 40 E= 3.5e-002 0.000000 1.000000 0.000000 0.000000 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 0.175000 0.000000 0.825000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF GCTCTGSA DREME-25 # Word RC Word Pos Neg P-value E-value # BEST GCTCTGSA TSCAGAGC 84 33 1.2e-006 4.7e-002 # GCTCTGGA TCCAGAGC 42 15 2.2e-004 9.0e+000 # GCTCTGCA TGCAGAGC 42 18 1.3e-003 5.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 84 E= 4.7e-002 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 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.500000 0.500000 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 648.57 seconds