# DREME 4.12.0 # command: dreme -v 1 -oc /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Pv_reproduciblePeaks_enhancerShort.MemeChipResults/dreme_out -png -dna -p /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Pv_reproduciblePeaks_enhancerShort.MemeChipResults/seqs-centered -n /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Pv_reproduciblePeaks_enhancerShort.MemeChipResults/control-centered # positives: 44974 from /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Pv_reproduciblePeaks_enhancerShort.MemeChipResults/seqs-centered (Wed Jan 13 22:28:02 EST 2021) # negatives: 202202 from /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Pv_reproduciblePeaks_enhancerShort.MemeChipResults/control-centered (Wed Jan 13 22:28:10 EST 2021) # host: compute-1-39.local # when: Thu Jan 14 01:02:21 EST 2021 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 0.273 C 0.228 G 0.227 T 0.272 MOTIF GNCCB DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GNCCB VGGNC 31088 115766 5.5e-482 2.6e-477 # GCCCT AGGGC 9604 31213 7.7e-195 3.6e-190 # GACCT AGGTC 5505 17839 4.7e-105 2.2e-100 # GCCCG CGGGC 2488 7019 6.2e-086 2.9e-081 # GGCCG CGGCC 1975 5250 5.9e-084 2.8e-079 # GGCCT AGGCC 6802 23958 1.2e-077 5.6e-073 # GCCCC GGGGC 6097 21186 6.5e-076 3.1e-071 # GTCCT AGGAC 8681 32038 1.8e-069 8.3e-065 # GGCCC GGGCC 4889 17446 4.8e-049 2.3e-044 # GACCG CGGTC 1407 4008 7.5e-047 3.5e-042 # GACCC GGGTC 3411 11833 1.4e-041 6.6e-037 # GTCCC GGGAC 6223 23424 2.2e-039 1.0e-034 # GTCCG CGGAC 1050 3209 1.9e-026 8.9e-022 letter-probability matrix: alength= 4 w= 5 nsites= 54830 E= 2.6e-477 0.000000 0.000000 1.000000 0.000000 0.181817 0.338592 0.176144 0.303447 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.329455 0.109648 0.560897 MOTIF GCBGM DREME-2 # Word RC Word Pos Neg P-value E-value # BEST GCBGM KCVGC 26305 96285 1.0e-381 4.4e-377 # GCTGC GCAGC 15447 53460 4.0e-243 1.7e-238 # GCTGA TCAGC 14715 52859 1.3e-171 5.8e-167 # GCCGC GCGGC 2147 5659 6.2e-094 2.7e-089 # GCGGA TCCGC 1766 5531 5.9e-039 2.6e-034 # GCCGA TCGGC 1602 4924 1.1e-038 4.6e-034 letter-probability matrix: alength= 4 w= 5 nsites= 41318 E= 4.4e-377 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.060143 0.068179 0.871678 0.000000 0.000000 1.000000 0.000000 0.495305 0.504695 0.000000 0.000000 MOTIF CGS DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CGS SCG 21499 80020 8.0e-224 3.3e-219 # CGG CCG 13522 48091 1.1e-165 4.5e-161 # CGC GCG 14191 51804 2.3e-142 9.6e-138 letter-probability matrix: alength= 4 w= 3 nsites= 33596 E= 3.3e-219 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.535570 0.464430 0.000000 MOTIF CWGCWS DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CWGCWS SWGCWG 15052 58022 3.4e-088 1.1e-083 # CTGCAG CTGCAG 2004 6771 4.0e-029 1.3e-024 # CAGCAG CTGCTG 2943 10515 6.8e-029 2.1e-024 # CAGCTG CAGCTG 1623 5391 2.7e-026 8.4e-022 # CTGCAC GTGCAG 2672 10189 9.6e-015 3.0e-010 # CTGCTC GAGCAG 3652 14324 2.3e-014 7.1e-010 # CAGCTC GAGCTG 2747 10941 4.0e-009 1.3e-004 # CAGCAC GTGCTG 2287 9510 3.4e-004 1.1e+001 letter-probability matrix: alength= 4 w= 6 nsites= 18538 E= 1.1e-083 0.000000 1.000000 0.000000 0.000000 0.450534 0.000000 0.000000 0.549466 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.465638 0.000000 0.000000 0.534362 0.000000 0.638634 0.361366 0.000000 MOTIF GASC DREME-5 # Word RC Word Pos Neg P-value E-value # BEST GASC GSTC 23151 94393 7.0e-076 2.2e-071 # GAGC GCTC 20807 84174 3.0e-072 9.4e-068 # GACC GGTC 3979 16740 4.8e-005 1.5e+000 letter-probability matrix: alength= 4 w= 4 nsites= 31999 E= 2.2e-071 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.131348 0.868652 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF ACTAGRKG DREME-6 # Word RC Word Pos Neg P-value E-value # BEST ACTAGRKG CMYCTAGT 793 1881 1.1e-047 3.3e-043 # ACTAGATG CATCTAGT 339 744 1.4e-025 4.0e-021 # ACTAGGTG CACCTAGT 255 534 1.0e-021 3.0e-017 # ACTAGAGG CCTCTAGT 144 443 7.5e-005 2.2e+000 # ACTAGGGG CCCCTAGT 59 164 1.4e-003 4.3e+001 letter-probability matrix: alength= 4 w= 8 nsites= 800 E= 3.3e-043 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.605000 0.000000 0.395000 0.000000 0.000000 0.000000 0.257500 0.742500 0.000000 0.000000 1.000000 0.000000 MOTIF SYAATCA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST SYAATCA TGATTRS 2050 6357 2.4e-047 7.1e-043 # GCAATCA TGATTGC 646 1829 9.2e-023 2.7e-018 # GTAATCA TGATTAC 492 1518 1.0e-012 3.1e-008 # CTAATCA TGATTAG 446 1348 1.1e-012 3.2e-008 # CCAATCA TGATTGG 511 1760 1.1e-007 3.4e-003 letter-probability matrix: alength= 4 w= 7 nsites= 2119 E= 7.1e-043 0.000000 0.459651 0.540349 0.000000 0.000000 0.554979 0.000000 0.445021 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GMCTS DREME-8 # Word RC Word Pos Neg P-value E-value # BEST GMCTS SAGKC 21099 88441 9.9e-035 2.9e-030 # GCCTG CAGGC 6810 27245 2.1e-020 6.4e-016 # GCCTC GAGGC 5901 23919 2.6e-014 7.6e-010 # GACTC GAGTC 7215 29721 3.8e-013 1.1e-008 # GACTG CAGTC 6479 27909 4.4e-004 1.3e+001 letter-probability matrix: alength= 4 w= 5 nsites= 28325 E= 2.9e-030 0.000000 0.000000 1.000000 0.000000 0.520530 0.479470 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.500300 0.499700 0.000000 MOTIF CGW DREME-9 # Word RC Word Pos Neg P-value E-value # BEST CGW WCG 10649 42706 1.6e-032 4.6e-028 # CGT ACG 8937 35649 9.3e-029 2.7e-024 # CGA TCG 6670 27231 2.5e-014 7.2e-010 letter-probability matrix: alength= 4 w= 3 nsites= 12475 E= 4.6e-028 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.388056 0.000000 0.000000 0.611944 MOTIF STAATTR DREME-10 # Word RC Word Pos Neg P-value E-value # BEST STAATTR YAATTAS 1872 6567 2.5e-021 6.0e-017 # CTAATTA TAATTAG 634 2115 6.3e-011 1.5e-006 # GTAATTA TAATTAC 653 2189 6.5e-011 1.6e-006 # CTAATTG CAATTAG 393 1446 2.8e-004 6.8e+000 # GTAATTG CAATTAC 385 1456 1.6e-003 3.7e+001 letter-probability matrix: alength= 4 w= 7 nsites= 1932 E= 6.0e-017 0.000000 0.494824 0.505176 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 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.594720 0.000000 0.405280 0.000000 MOTIF CTRGTGGM DREME-11 # Word RC Word Pos Neg P-value E-value # BEST CTRGTGGM KCCACYAG 576 1747 1.1e-015 2.5e-011 # CTGGTGGC GCCACCAG 200 570 5.5e-008 1.3e-003 # CTAGTGGA TCCACTAG 110 318 7.2e-005 1.7e+000 # CTAGTGGC GCCACTAG 91 261 2.3e-004 5.4e+000 # CTGGTGGA TCCACCAG 177 601 7.7e-004 1.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 578 E= 2.5e-011 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.347751 0.000000 0.652249 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 1.000000 0.000000 0.496540 0.503460 0.000000 0.000000 MOTIF CWGC DREME-12 # Word RC Word Pos Neg P-value E-value # BEST CWGC GCWG 24029 103989 8.2e-015 2.0e-010 # CAGC GCTG 13181 56554 6.6e-009 1.6e-004 # CTGC GCAG 15075 65300 2.9e-007 6.8e-003 letter-probability matrix: alength= 4 w= 4 nsites= 34032 E= 2.0e-010 0.000000 1.000000 0.000000 0.000000 0.464240 0.000000 0.000000 0.535760 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF TGATGTMA DREME-13 # Word RC Word Pos Neg P-value E-value # BEST TGATGTMA TKACATCA 550 1770 1.4e-011 3.2e-007 # TGATGTCA TGACATCA 352 1053 8.9e-011 2.0e-006 # TGATGTAA TTACATCA 202 722 2.6e-003 6.0e+001 letter-probability matrix: alength= 4 w= 8 nsites= 556 E= 3.2e-007 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 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.363309 0.636691 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AGGS DREME-14 # Word RC Word Pos Neg P-value E-value # BEST AGGS SCCT 21522 93529 4.1e-010 9.3e-006 # AGGG CCCT 16342 71105 1.4e-006 3.2e-002 # AGGC GCCT 7892 33730 5.0e-006 1.1e-001 letter-probability matrix: alength= 4 w= 4 nsites= 30699 E= 9.3e-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 0.281833 0.718167 0.000000 MOTIF GCTATTTW DREME-15 # Word RC Word Pos Neg P-value E-value # BEST GCTATTTW WAAATAGC 526 1810 6.8e-008 1.5e-003 # GCTATTTA TAAATAGC 186 580 1.5e-005 3.2e-001 # GCTATTTT AAAATAGC 341 1234 2.7e-004 5.8e+000 letter-probability matrix: alength= 4 w= 8 nsites= 528 E= 1.5e-003 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.352273 0.000000 0.000000 0.647727 MOTIF SAAGGTTA DREME-16 # Word RC Word Pos Neg P-value E-value # BEST SAAGGTTA TAACCTTS 183 521 1.8e-007 3.9e-003 # GAAGGTTA TAACCTTC 89 243 6.8e-005 1.5e+000 # CAAGGTTA TAACCTTG 94 278 4.2e-004 9.0e+000 letter-probability matrix: alength= 4 w= 8 nsites= 183 E= 3.9e-003 0.000000 0.513661 0.486339 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 0.000000 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 CATGTGAY DREME-17 # Word RC Word Pos Neg P-value E-value # BEST CATGTGAY RTCACATG 350 1152 3.6e-007 7.7e-003 # CATGTGAC GTCACATG 144 417 6.9e-006 1.5e-001 # CATGTGAT ATCACATG 206 738 2.6e-003 5.6e+001 letter-probability matrix: alength= 4 w= 8 nsites= 354 E= 7.7e-003 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 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 0.415254 0.000000 0.584746 MOTIF TGATKA DREME-18 # Word RC Word Pos Neg P-value E-value # BEST TGATKA TMATCA 3207 13125 5.1e-007 1.1e-002 # TGATGA TCATCA 2221 9086 2.7e-005 5.8e-001 # TGATTA TAATCA 1063 4318 1.6e-003 3.4e+001 letter-probability matrix: alength= 4 w= 6 nsites= 3372 E= 1.1e-002 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 0.000000 0.000000 1.000000 0.000000 0.000000 0.679715 0.320285 1.000000 0.000000 0.000000 0.000000 MOTIF ACMAGGTG DREME-19 # Word RC Word Pos Neg P-value E-value # BEST ACMAGGTG CACCTKGT 257 815 1.2e-006 2.6e-002 # ACCAGGTG CACCTGGT 114 341 1.6e-004 3.5e+000 # ACAAGGTG CACCTTGT 143 475 1.1e-003 2.4e+001 letter-probability matrix: alength= 4 w= 8 nsites= 259 E= 2.6e-002 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.559846 0.440154 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 0.000000 0.000000 1.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 19930.33 seconds