# DREME 4.12.0 # command: dreme -v 1 -oc intersection_memechip_out/dreme_out -png -dna -p intersection_memechip_out/seqs-centered -n intersection_memechip_out/seqs-shuffled # positives: 1869 from intersection_memechip_out/seqs-centered (Mon Oct 21 17:09:22 PDT 2019) # negatives: 1869 from intersection_memechip_out/seqs-shuffled (Mon Oct 21 17:09:22 PDT 2019) # host: surya.stanford.edu # when: Mon Oct 21 17:23:34 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 0.282 C 0.216 G 0.218 T 0.284 MOTIF ATGYWAA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST ATGYWAA TTWRCAT 838 166 5.2e-145 2.0e-140 # ATGCAAA TTTGCAT 419 70 4.5e-070 1.7e-065 # ATGTAAA TTTACAT 206 34 2.5e-033 9.5e-029 # ATGCTAA TTAGCAT 200 43 3.2e-027 1.2e-022 # ATGTTAA TTAACAT 118 28 3.9e-015 1.5e-010 letter-probability matrix: alength= 4 w= 7 nsites= 1009 E= 2.0e-140 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 0.663033 0.000000 0.336967 0.676908 0.000000 0.000000 0.323092 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF MATRACAA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST MATRACAA TTGTYATK 287 35 1.1e-054 4.0e-050 # CATAACAA TTGTTATG 116 11 3.2e-024 1.2e-019 # AATAACAA TTGTTATT 81 5 2.2e-019 8.4e-015 # CATGACAA TTGTCATG 63 9 1.4e-011 5.4e-007 # AATGACAA TTGTCATT 33 10 2.8e-004 1.1e+001 letter-probability matrix: alength= 4 w= 8 nsites= 295 E= 4.0e-050 0.389831 0.610169 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.674576 0.000000 0.325424 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 WTATGCR DREME-3 # Word RC Word Pos Neg P-value E-value # BEST WTATGCR YGCATAW 290 67 1.1e-037 4.3e-033 # ATATGCA TGCATAT 114 22 5.6e-017 2.1e-012 # TTATGCA TGCATAA 121 38 5.3e-012 2.0e-007 # ATATGCG CGCATAT 43 3 1.9e-010 7.1e-006 # TTATGCG CGCATAA 34 7 1.1e-005 4.4e-001 letter-probability matrix: alength= 4 w= 7 nsites= 316 E= 4.3e-033 0.515823 0.000000 0.000000 0.484177 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 0.778481 0.000000 0.221519 0.000000 MOTIF RRGAA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST RRGAA TTCYY 1504 1291 5.7e-016 2.2e-011 # GAGAA TTCTC 546 381 2.4e-010 9.2e-006 # AGGAA TTCCT 689 523 3.9e-009 1.5e-004 # GGGAA TTCCC 521 423 1.3e-004 4.9e+000 # AAGAA TTCTT 677 597 3.2e-003 1.2e+002 letter-probability matrix: alength= 4 w= 5 nsites= 2854 E= 2.2e-011 0.573231 0.000000 0.426769 0.000000 0.503153 0.000000 0.496847 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 ACAAWGR DREME-5 # Word RC Word Pos Neg P-value E-value # BEST ACAAWGR YCWTTGT 223 109 2.8e-011 1.0e-006 # ACAAAGG CCTTTGT 77 34 2.1e-005 7.6e-001 # ACAAAGA TCTTTGT 48 16 3.4e-005 1.2e+000 # ACAATGA TCATTGT 57 33 6.8e-003 2.5e+002 # ACAATGG CCATTGT 52 30 9.3e-003 3.3e+002 letter-probability matrix: alength= 4 w= 7 nsites= 237 E= 1.0e-006 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 0.535865 0.000000 0.000000 0.464135 0.000000 0.000000 1.000000 0.000000 0.447257 0.000000 0.552743 0.000000 MOTIF BCCAGG DREME-6 # Word RC Word Pos Neg P-value E-value # BEST BCCAGG CCTGGV 416 269 3.0e-010 1.1e-005 # GCCAGG CCTGGC 161 85 3.1e-007 1.1e-002 # CCCAGG CCTGGG 141 96 1.5e-003 5.5e+001 # TCCAGG CCTGGA 151 106 2.2e-003 7.8e+001 letter-probability matrix: alength= 4 w= 6 nsites= 473 E= 1.1e-005 0.000000 0.317125 0.350951 0.331924 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 MOTIF CCTKTGA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CCTKTGA TCAMAGG 114 42 1.7e-009 6.1e-005 # CCTGTGA TCACAGG 43 10 2.4e-006 8.5e-002 # CCTTTGA TCAAAGG 74 32 2.2e-005 7.7e-001 letter-probability matrix: alength= 4 w= 7 nsites= 118 E= 6.1e-005 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 0.364407 0.635593 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 ATCTRCAT DREME-8 # Word RC Word Pos Neg P-value E-value # BEST ATCTRCAT ATGYAGAT 67 16 4.9e-009 1.7e-004 # ATCTACAT ATGTAGAT 29 5 1.8e-005 6.3e-001 # ATCTGCAT ATGCAGAT 38 11 6.4e-005 2.3e+000 letter-probability matrix: alength= 4 w= 8 nsites= 68 E= 1.7e-004 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 0.441176 0.000000 0.558824 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 TATTCATR DREME-9 # Word RC Word Pos Neg P-value E-value # BEST TATTCATR YATGAATA 47 8 3.3e-008 1.2e-003 # TATTCATG CATGAATA 35 5 6.1e-007 2.2e-002 # TATTCATA TATGAATA 18 3 7.2e-004 2.6e+001 letter-probability matrix: alength= 4 w= 8 nsites= 49 E= 1.2e-003 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.265306 0.000000 0.734694 0.000000 MOTIF CAGSACC DREME-10 # Word RC Word Pos Neg P-value E-value # BEST CAGSACC GGTSCTG 80 26 4.8e-008 1.7e-003 # CAGCACC GGTGCTG 56 17 2.1e-006 7.6e-002 # CAGGACC GGTCCTG 26 9 2.9e-003 1.0e+002 letter-probability matrix: alength= 4 w= 7 nsites= 83 E= 1.7e-003 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 0.686747 0.313253 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 GTGGRGA DREME-11 # Word RC Word Pos Neg P-value E-value # BEST GTGGRGA TCYCCAC 57 16 6.1e-007 2.1e-002 # GTGGGGA TCCCCAC 32 7 3.2e-005 1.1e+000 # GTGGAGA TCTCCAC 26 9 2.9e-003 1.0e+002 letter-probability matrix: alength= 4 w= 7 nsites= 58 E= 2.1e-002 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 1.000000 0.000000 0.448276 0.000000 0.551724 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GTTTCTAA DREME-12 # Word RC Word Pos Neg P-value E-value # BEST GTTTCTAA TTAGAAAC 30 3 6.4e-007 2.2e-002 # GTTTCTAA TTAGAAAC 30 3 6.4e-007 2.2e-002 letter-probability matrix: alength= 4 w= 8 nsites= 32 E= 2.2e-002 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 0.000000 1.000000 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 MOTIF CAGCAGG DREME-13 # Word RC Word Pos Neg P-value E-value # BEST CAGCAGG CCTGCTG 86 35 1.4e-006 4.9e-002 # CAGCAGG CCTGCTG 86 35 1.4e-006 4.9e-002 letter-probability matrix: alength= 4 w= 7 nsites= 89 E= 4.9e-002 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 139.37 seconds