# 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: 4326 from seqnotcut_memechip_out/seqs-centered (Mon Oct 21 16:54:29 PDT 2019) # negatives: 4326 from seqnotcut_memechip_out/seqs-shuffled (Mon Oct 21 16:54:29 PDT 2019) # host: surya.stanford.edu # when: Mon Oct 21 17:06:58 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 0.266 C 0.235 G 0.233 T 0.266 MOTIF CATRABAA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST CATRABAA TTVTYATG 1190 111 1.8e-263 7.8e-259 # CATAACAA TTGTTATG 427 25 3.8e-100 1.7e-095 # CATGACAA TTGTCATG 365 17 1.1e-089 4.8e-085 # CATAAGAA TTCTTATG 141 16 7.3e-027 3.2e-022 # CATGATAA TTATCATG 94 13 8.8e-017 3.8e-012 # CATAATAA TTATTATG 86 15 1.1e-013 4.6e-009 # CATGAGAA TTCTCATG 101 26 4.5e-012 1.9e-007 letter-probability matrix: alength= 4 w= 8 nsites= 1221 E= 7.8e-259 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.539722 0.000000 0.460278 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.652744 0.199836 0.147420 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 694 98 1.7e-121 7.1e-117 # ATGCAAAT ATTTGCAT 317 19 1.8e-073 7.8e-069 # ATGTAAAT ATTTACAT 147 17 9.6e-028 4.1e-023 # ATGCAGAT ATCTGCAT 119 22 7.7e-018 3.3e-013 # ATGCATAT ATATGCAT 93 27 4.3e-010 1.8e-005 # ATGTAGAT ATCTACAT 31 8 1.4e-004 6.1e+000 # ATGTATAT ATATACAT 26 8 1.4e-003 6.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 743 E= 7.1e-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 0.724092 0.000000 0.275908 1.000000 0.000000 0.000000 0.000000 0.635262 0.000000 0.204576 0.160162 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF AATRACAA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST AATRACAA TTGTYATT 238 30 9.0e-043 3.8e-038 # AATAACAA TTGTTATT 144 12 1.2e-030 5.1e-026 # AATGACAA TTGTCATT 95 18 2.8e-014 1.2e-009 letter-probability matrix: alength= 4 w= 8 nsites= 241 E= 3.8e-038 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.597510 0.000000 0.402490 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 MOTIF ATGYWAA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST ATGYWAA TTWRCAT 637 261 2.9e-041 1.2e-036 # ATGCAAA TTTGCAT 264 105 6.9e-018 2.9e-013 # ATGCTAA TTAGCAT 182 72 8.9e-013 3.8e-008 # ATGTTAA TTAACAT 122 54 1.2e-007 5.1e-003 # ATGTAAA TTTACAT 96 39 4.2e-007 1.8e-002 letter-probability matrix: alength= 4 w= 7 nsites= 681 E= 1.2e-036 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 0.676946 0.000000 0.323054 0.549192 0.000000 0.000000 0.450808 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ATGCGCAT DREME-5 # Word RC Word Pos Neg P-value E-value # BEST ATGCGCAT ATGCGCAT 124 3 8.6e-034 3.6e-029 # ATGCGCAT ATGCGCAT 124 3 8.6e-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 CAGSWGG DREME-6 # Word RC Word Pos Neg P-value E-value # BEST CAGSWGG CCWSCTG 731 373 2.2e-031 9.4e-027 # CAGCAGG CCTGCTG 310 126 3.5e-020 1.5e-015 # CAGGAGG CCTCCTG 196 102 1.6e-008 7.0e-004 # CAGGTGG CCACCTG 136 75 1.3e-005 5.5e-001 # CAGCTGG CCAGCTG 149 95 2.8e-004 1.2e+001 letter-probability matrix: alength= 4 w= 7 nsites= 798 E= 9.4e-027 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 0.583960 0.416040 0.000000 0.631579 0.000000 0.000000 0.368421 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF ACAAWGS DREME-7 # Word RC Word Pos Neg P-value E-value # BEST ACAAWGS SCWTTGT 541 246 5.4e-029 2.3e-024 # ACAAAGG CCTTTGT 203 70 6.0e-017 2.5e-012 # ACAATGG CCATTGT 140 62 1.4e-008 6.1e-004 # ACAAAGC GCTTTGT 141 71 6.5e-007 2.8e-002 # ACAATGC GCATTGT 81 47 1.6e-003 6.7e+001 letter-probability matrix: alength= 4 w= 7 nsites= 580 E= 2.3e-024 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 0.613793 0.000000 0.000000 0.386207 0.000000 0.000000 1.000000 0.000000 0.000000 0.393103 0.606897 0.000000 MOTIF ARAGAVA DREME-8 # Word RC Word Pos Neg P-value E-value # BEST ARAGAVA TBTCTYT 900 564 2.7e-022 1.1e-017 # AAAGAAA TTTCTTT 280 150 6.5e-011 2.7e-006 # AAAGAGA TCTCTTT 194 114 2.0e-006 8.6e-002 # AGAGAGA TCTCTCT 168 98 7.8e-006 3.3e-001 # AAAGACA TGTCTTT 151 87 1.6e-005 6.6e-001 # AGAGAAA TTTCTCT 178 127 1.7e-003 7.4e+001 # AGAGACA TGTCTCT 110 75 5.7e-003 2.4e+002 letter-probability matrix: alength= 4 w= 7 nsites= 1033 E= 1.1e-017 1.000000 0.000000 0.000000 0.000000 0.581801 0.000000 0.418199 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 0.433688 0.237173 0.329138 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CCWCCCCC DREME-9 # Word RC Word Pos Neg P-value E-value # BEST CCWCCCCC GGGGGWGG 174 48 1.1e-018 4.7e-014 # CCTCCCCC GGGGGAGG 116 30 1.3e-013 5.3e-009 # CCACCCCC GGGGGTGG 62 18 3.6e-007 1.5e-002 letter-probability matrix: alength= 4 w= 8 nsites= 179 E= 4.7e-014 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.340782 0.000000 0.000000 0.659218 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 0.000000 1.000000 0.000000 0.000000 MOTIF ATGAATAW DREME-10 # Word RC Word Pos Neg P-value E-value # BEST ATGAATAW WTATTCAT 109 18 1.4e-017 5.9e-013 # ATGAATAT ATATTCAT 65 5 9.0e-015 3.8e-010 # ATGAATAA TTATTCAT 44 13 2.2e-005 9.3e-001 letter-probability matrix: alength= 4 w= 8 nsites= 114 E= 5.9e-013 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 0.403509 0.000000 0.000000 0.596491 MOTIF CMCAGS DREME-11 # Word RC Word Pos Neg P-value E-value # BEST CMCAGS SCTGKG 1446 1094 5.4e-017 2.3e-012 # CCCAGG CCTGGG 494 360 7.8e-007 3.3e-002 # CACAGG CCTGTG 388 269 7.9e-007 3.3e-002 # CCCAGC GCTGGG 440 321 3.6e-006 1.5e-001 # CACAGC GCTGTG 348 278 2.1e-003 8.7e+001 letter-probability matrix: alength= 4 w= 6 nsites= 1778 E= 2.3e-012 0.000000 1.000000 0.000000 0.000000 0.434758 0.565242 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 0.470754 0.529246 0.000000 MOTIF SAGGAA DREME-12 # Word RC Word Pos Neg P-value E-value # BEST SAGGAA TTCCTS 776 557 3.9e-011 1.6e-006 # GAGGAA TTCCTC 397 279 1.3e-006 5.5e-002 # CAGGAA TTCCTG 418 306 7.9e-006 3.3e-001 letter-probability matrix: alength= 4 w= 6 nsites= 861 E= 1.6e-006 0.000000 0.513357 0.486643 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CVTTTC DREME-13 # Word RC Word Pos Neg P-value E-value # BEST CVTTTC GAAABG 780 576 9.1e-010 3.8e-005 # CCTTTC GAAAGG 443 321 2.2e-006 9.0e-002 # CGTTTC GAAACG 70 34 2.5e-004 1.0e+001 # CATTTC GAAATG 312 238 6.4e-004 2.6e+001 letter-probability matrix: alength= 4 w= 6 nsites= 866 E= 3.8e-005 0.000000 1.000000 0.000000 0.000000 0.372979 0.542725 0.084296 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 1.000000 0.000000 0.000000 MOTIF ATTCAWAT DREME-14 # Word RC Word Pos Neg P-value E-value # BEST ATTCAWAT ATWTGAAT 94 33 2.3e-008 9.4e-004 # ATTCAAAT ATTTGAAT 56 21 3.8e-005 1.6e+000 # ATTCATAT ATATGAAT 38 12 1.5e-004 6.0e+000 letter-probability matrix: alength= 4 w= 8 nsites= 96 E= 9.4e-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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.583333 0.000000 0.000000 0.416667 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF AAAAYAAA DREME-15 # Word RC Word Pos Neg P-value E-value # BEST AAAAYAAA TTTRTTTT 112 46 6.0e-008 2.5e-003 # AAAACAAA TTTGTTTT 71 32 7.0e-005 2.9e+000 # AAAATAAA TTTATTTT 42 14 1.1e-004 4.6e+000 letter-probability matrix: alength= 4 w= 8 nsites= 115 E= 2.5e-003 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 0.000000 0.000000 0.634783 0.000000 0.365217 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CCTGBAG DREME-16 # Word RC Word Pos Neg P-value E-value # BEST CCTGBAG CTVCAGG 327 208 6.2e-008 2.6e-003 # CCTGGAG CTCCAGG 153 91 3.4e-005 1.4e+000 # CCTGCAG CTGCAGG 125 85 3.2e-003 1.3e+002 # CCTGTAG CTACAGG 57 34 1.0e-002 4.1e+002 letter-probability matrix: alength= 4 w= 7 nsites= 344 E= 2.6e-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 0.377907 0.456395 0.165698 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF GTAMTTA DREME-17 # Word RC Word Pos Neg P-value E-value # BEST GTAMTTA TAAKTAC 91 32 4.0e-008 1.6e-003 # GTAATTA TAATTAC 51 13 8.7e-007 3.5e-002 # GTACTTA TAAGTAC 40 19 4.2e-003 1.7e+002 letter-probability matrix: alength= 4 w= 7 nsites= 91 E= 1.6e-003 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.560440 0.439560 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 MOTIF CMCCACC DREME-18 # Word RC Word Pos Neg P-value E-value # BEST CMCCACC GGTGGKG 187 99 6.8e-008 2.8e-003 # CCCCACC GGTGGGG 120 62 8.4e-006 3.4e-001 # CACCACC GGTGGTG 71 41 2.8e-003 1.1e+002 letter-probability matrix: alength= 4 w= 7 nsites= 188 E= 2.8e-003 0.000000 1.000000 0.000000 0.000000 0.367021 0.632979 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 TTTAAA DREME-19 # Word RC Word Pos Neg P-value E-value # BEST TTTAAA TTTAAA 252 151 1.5e-007 6.1e-003 # TTTAAA TTTAAA 252 151 1.5e-007 6.1e-003 letter-probability matrix: alength= 4 w= 6 nsites= 262 E= 6.1e-003 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GGGTTCGA DREME-20 # Word RC Word Pos Neg P-value E-value # BEST GGGTTCGA TCGAACCC 35 4 1.6e-007 6.5e-003 # GGGTTCGA TCGAACCC 35 4 1.6e-007 6.5e-003 letter-probability matrix: alength= 4 w= 8 nsites= 35 E= 6.5e-003 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 ASAATAG DREME-21 # Word RC Word Pos Neg P-value E-value # BEST ASAATAG CTATTST 153 79 4.9e-007 2.0e-002 # AGAATAG CTATTCT 72 34 1.3e-004 5.3e+000 # ACAATAG CTATTGT 81 47 1.6e-003 6.4e+001 letter-probability matrix: alength= 4 w= 7 nsites= 161 E= 2.0e-002 1.000000 0.000000 0.000000 0.000000 0.000000 0.534161 0.465839 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 0.000000 0.000000 1.000000 0.000000 MOTIF CCKCCC DREME-22 # Word RC Word Pos Neg P-value E-value # BEST CCKCCC GGGMGG 487 354 8.0e-007 3.3e-002 # CCTCCC GGGAGG 355 262 5.9e-005 2.4e+000 # CCGCCC GGGCGG 165 107 2.1e-004 8.7e+000 letter-probability matrix: alength= 4 w= 6 nsites= 561 E= 3.3e-002 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.322638 0.677362 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 618.99 seconds