# DREME 4.12.0 # command: dreme -v 1 -oc memeout_e2/dreme_out -png -dna -p memeout_e2/seqs-centered -n memeout_e2/seqs-shuffled # positives: 6008 from memeout_e2/seqs-centered (Thu Nov 05 02:59:56 PST 2020) # negatives: 6008 from memeout_e2/seqs-shuffled (Thu Nov 05 02:59:56 PST 2020) # host: surya.stanford.edu # when: Thu Nov 05 03:10:53 PST 2020 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 0.238 C 0.260 G 0.263 T 0.239 MOTIF TGACCB DREME-1 # Word RC Word Pos Neg P-value E-value # BEST TGACCB VGGTCA 4298 1054 3.1e-818 1.4e-813 # TGACCT AGGTCA 3175 527 3.6e-645 1.6e-640 # TGACCC GGGTCA 1694 480 7.2e-191 3.2e-186 # TGACCG CGGTCA 299 107 4.2e-023 1.9e-018 letter-probability matrix: alength= 4 w= 6 nsites= 6314 E= 1.4e-813 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.316123 0.048939 0.634938 MOTIF ATGTCA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST ATGTCA TGACAT 1138 366 8.6e-105 3.7e-100 # ATGTCA TGACAT 1138 366 8.6e-105 3.7e-100 letter-probability matrix: alength= 4 w= 6 nsites= 1266 E= 3.7e-100 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 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF MGGGCR DREME-3 # Word RC Word Pos Neg P-value E-value # BEST MGGGCR YGCCCK 1829 885 6.9e-096 2.9e-091 # AGGGCA TGCCCT 1426 633 5.4e-084 2.3e-079 # AGGGCG CGCCCT 269 114 2.6e-016 1.1e-011 # CGGGCA TGCCCG 205 135 7.0e-005 3.0e+000 # CGGGCG CGCCCG 85 49 1.1e-003 4.8e+001 letter-probability matrix: alength= 4 w= 6 nsites= 2236 E= 2.9e-091 0.863148 0.136852 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 0.000000 1.000000 0.000000 0.000000 0.832737 0.000000 0.167263 0.000000 MOTIF HGATAA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST HGATAA TTATCD 795 300 2.3e-057 9.8e-053 # AGATAA TTATCT 415 136 1.4e-035 5.9e-031 # TGATAA TTATCA 371 151 1.3e-023 5.5e-019 # CGATAA TTATCG 37 17 4.5e-003 1.9e+002 letter-probability matrix: alength= 4 w= 6 nsites= 840 E= 9.8e-053 0.509524 0.044048 0.000000 0.446429 0.000000 0.000000 1.000000 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 1.000000 0.000000 0.000000 0.000000 MOTIF RTAAAYA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST RTAAAYA TRTTTAY 348 85 2.0e-040 8.2e-036 # GTAAACA TGTTTAC 140 35 1.4e-016 5.9e-012 # GTAAATA TATTTAC 82 15 9.9e-013 4.1e-008 # ATAAACA TGTTTAT 90 27 1.8e-009 7.4e-005 # ATAAATA TATTTAT 44 9 5.8e-007 2.4e-002 letter-probability matrix: alength= 4 w= 7 nsites= 359 E= 8.2e-036 0.373259 0.000000 0.626741 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.646240 0.000000 0.353760 1.000000 0.000000 0.000000 0.000000 MOTIF AGGTCG DREME-6 # Word RC Word Pos Neg P-value E-value # BEST AGGTCG CGACCT 359 100 7.2e-037 3.0e-032 # AGGTCG CGACCT 359 100 7.2e-037 3.0e-032 letter-probability matrix: alength= 4 w= 6 nsites= 378 E= 3.0e-032 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 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF AGGTTA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST AGGTTA TAACCT 422 163 5.2e-029 2.2e-024 # AGGTTA TAACCT 422 163 5.2e-029 2.2e-024 letter-probability matrix: alength= 4 w= 6 nsites= 450 E= 2.2e-024 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 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CCTGGS DREME-8 # Word RC Word Pos Neg P-value E-value # BEST CCTGGS SCCAGG 1736 1249 4.4e-025 1.8e-020 # CCTGGG CCCAGG 1110 734 8.7e-022 3.6e-017 # CCTGGC GCCAGG 806 610 1.6e-008 6.8e-004 letter-probability matrix: alength= 4 w= 6 nsites= 2108 E= 1.8e-020 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 0.000000 0.411290 0.588710 0.000000 MOTIF TGACWCA DREME-9 # Word RC Word Pos Neg P-value E-value # BEST TGACWCA TGWGTCA 606 315 6.1e-024 2.5e-019 # TGACACA TGTGTCA 358 176 3.0e-016 1.2e-011 # TGACTCA TGAGTCA 263 144 1.0e-009 4.3e-005 letter-probability matrix: alength= 4 w= 7 nsites= 646 E= 2.5e-019 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.577399 0.000000 0.000000 0.422601 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AAAGMCCT DREME-10 # Word RC Word Pos Neg P-value E-value # BEST AAAGMCCT AGGKCTTT 146 25 1.5e-022 6.1e-018 # AAAGACCT AGGTCTTT 112 12 5.5e-022 2.3e-017 # AAAGCCCT AGGGCTTT 34 13 1.5e-003 6.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 149 E= 6.1e-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 0.765101 0.234899 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 MOTIF RCAAAYA DREME-11 # Word RC Word Pos Neg P-value E-value # BEST RCAAAYA TRTTTGY 517 270 3.1e-020 1.3e-015 # GCAAACA TGTTTGC 197 102 1.4e-008 5.9e-004 # GCAAATA TATTTGC 80 26 6.3e-008 2.6e-003 # ACAAACA TGTTTGT 192 113 2.7e-006 1.1e-001 # ACAAATA TATTTGT 81 35 1.1e-005 4.4e-001 letter-probability matrix: alength= 4 w= 7 nsites= 560 E= 1.3e-015 0.492857 0.000000 0.507143 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 0.716071 0.000000 0.283929 1.000000 0.000000 0.000000 0.000000 MOTIF ATCTMATC DREME-12 # Word RC Word Pos Neg P-value E-value # BEST ATCTMATC GATKAGAT 110 22 1.0e-015 4.2e-011 # ATCTCATC GATGAGAT 90 19 1.3e-012 5.2e-008 # ATCTAATC GATTAGAT 20 3 2.4e-004 9.9e+000 letter-probability matrix: alength= 4 w= 8 nsites= 110 E= 4.2e-011 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 0.181818 0.818182 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CBGTGAC DREME-13 # Word RC Word Pos Neg P-value E-value # BEST CBGTGAC GTCACVG 309 152 3.7e-014 1.5e-009 # CTGTGAC GTCACAG 232 125 4.8e-009 2.0e-004 # CGGTGAC GTCACCG 43 13 3.5e-005 1.4e+000 # CCGTGAC GTCACGG 38 15 1.1e-003 4.4e+001 letter-probability matrix: alength= 4 w= 7 nsites= 316 E= 1.5e-009 0.000000 1.000000 0.000000 0.000000 0.000000 0.120253 0.139241 0.740506 0.000000 0.000000 1.000000 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 0.000000 1.000000 0.000000 0.000000 MOTIF ACAARATA DREME-14 # Word RC Word Pos Neg P-value E-value # BEST ACAARATA TATYTTGT 82 14 3.0e-013 1.2e-008 # ACAAGATA TATCTTGT 58 8 8.1e-011 3.3e-006 # ACAAAATA TATTTTGT 24 6 7.1e-004 2.9e+001 letter-probability matrix: alength= 4 w= 8 nsites= 82 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 0.292683 0.000000 0.707317 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 AGGTTGCA DREME-15 # Word RC Word Pos Neg P-value E-value # BEST AGGTTGCA TGCAACCT 125 41 1.7e-011 6.8e-007 # AGGTTGCA TGCAACCT 125 41 1.7e-011 6.8e-007 letter-probability matrix: alength= 4 w= 8 nsites= 125 E= 6.8e-007 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 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 MOTIF GTAAAGAA DREME-16 # Word RC Word Pos Neg P-value E-value # BEST GTAAAGAA TTCTTTAC 66 11 4.6e-011 1.9e-006 # GTAAAGAA TTCTTTAC 66 11 4.6e-011 1.9e-006 letter-probability matrix: alength= 4 w= 8 nsites= 66 E= 1.9e-006 0.000000 0.000000 1.000000 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 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 MOTIF GGAATGCA DREME-17 # Word RC Word Pos Neg P-value E-value # BEST GGAATGCA TGCATTCC 80 18 7.1e-011 2.9e-006 # GGAATGCA TGCATTCC 80 18 7.1e-011 2.9e-006 letter-probability matrix: alength= 4 w= 8 nsites= 81 E= 2.9e-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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CHGGGGCA DREME-18 # Word RC Word Pos Neg P-value E-value # BEST CHGGGGCA TGCCCCDG 228 112 8.5e-011 3.5e-006 # CCGGGGCA TGCCCCGG 45 11 2.6e-006 1.0e-001 # CTGGGGCA TGCCCCAG 99 51 5.0e-005 2.0e+000 # CAGGGGCA TGCCCCTG 88 51 1.0e-003 4.1e+001 letter-probability matrix: alength= 4 w= 8 nsites= 237 E= 3.5e-006 0.000000 1.000000 0.000000 0.000000 0.383966 0.198312 0.000000 0.417722 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AGGTGACM DREME-19 # Word RC Word Pos Neg P-value E-value # BEST AGGTGACM KGTCACCT 114 38 2.0e-010 8.2e-006 # AGGTGACC GGTCACCT 42 10 4.3e-006 1.8e-001 # AGGTGACA TGTCACCT 72 28 5.8e-006 2.4e-001 letter-probability matrix: alength= 4 w= 8 nsites= 118 E= 8.2e-006 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 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.627119 0.372881 0.000000 0.000000 MOTIF CGTGTCM DREME-20 # Word RC Word Pos Neg P-value E-value # BEST CGTGTCM KGACACG 116 44 4.6e-009 1.9e-004 # CGTGTCA TGACACG 73 28 4.0e-006 1.6e-001 # CGTGTCC GGACACG 44 16 1.9e-004 7.8e+000 letter-probability matrix: alength= 4 w= 7 nsites= 117 E= 1.9e-004 0.000000 1.000000 0.000000 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 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.615385 0.384615 0.000000 0.000000 MOTIF CCTDAGGC DREME-21 # Word RC Word Pos Neg P-value E-value # BEST CCTDAGGC GCCTHAGG 169 81 9.8e-009 4.0e-004 # CCTGAGGC GCCTCAGG 121 59 1.9e-006 7.7e-002 # CCTAAGGC GCCTTAGG 31 13 4.7e-003 1.9e+002 # CCTTAGGC GCCTAAGG 27 11 6.9e-003 2.8e+002 letter-probability matrix: alength= 4 w= 8 nsites= 173 E= 4.0e-004 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.150289 0.000000 0.710983 0.138728 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 MOTIF GGTYA DREME-22 # Word RC Word Pos Neg P-value E-value # BEST GGTYA TRACC 1089 863 1.3e-008 5.2e-004 # GGTCA TGACC 709 533 7.5e-008 3.1e-003 # GGTTA TAACC 436 359 2.6e-003 1.1e+002 letter-probability matrix: alength= 4 w= 5 nsites= 1231 E= 5.2e-004 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 0.619821 0.000000 0.380179 1.000000 0.000000 0.000000 0.000000 MOTIF ARATA DREME-23 # Word RC Word Pos Neg P-value E-value # BEST ARATA TATYT 946 740 3.5e-008 1.4e-003 # AAATA TATTT 478 347 1.3e-006 5.3e-002 # AGATA TATCT 526 425 3.6e-004 1.5e+001 letter-probability matrix: alength= 4 w= 5 nsites= 1038 E= 1.4e-003 1.000000 0.000000 0.000000 0.000000 0.474952 0.000000 0.525048 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 CCTGCCTY DREME-24 # Word RC Word Pos Neg P-value E-value # BEST CCTGCCTY RAGGCAGG 171 86 4.6e-008 1.8e-003 # CCTGCCTT AAGGCAGG 87 34 7.0e-007 2.8e-002 # CCTGCCTC GAGGCAGG 85 52 2.9e-003 1.1e+002 letter-probability matrix: alength= 4 w= 8 nsites= 173 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 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.497110 0.000000 0.502890 MOTIF CTGTAMTC DREME-25 # Word RC Word Pos Neg P-value E-value # BEST CTGTAMTC GAKTACAG 60 16 1.8e-007 7.1e-003 # CTGTAATC GATTACAG 39 9 7.3e-006 2.9e-001 # CTGTACTC GAGTACAG 21 7 6.2e-003 2.5e+002 letter-probability matrix: alength= 4 w= 8 nsites= 61 E= 7.1e-003 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 1.000000 0.000000 0.000000 0.000000 0.639344 0.360656 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 644.09 seconds