# DREME 4.12.0 # command: dreme -v 1 -oc /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Vip_reproduciblePeaks_enhancerShort.MemeChipResults/dreme_out -png -dna -p /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Vip_reproduciblePeaks_enhancerShort.MemeChipResults/seqs-centered -n /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Vip_reproduciblePeaks_enhancerShort.MemeChipResults/control-centered # positives: 32460 from /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Vip_reproduciblePeaks_enhancerShort.MemeChipResults/seqs-centered (Wed Jan 13 22:28:01 EST 2021) # negatives: 202202 from /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Vip_reproduciblePeaks_enhancerShort.MemeChipResults/control-centered (Wed Jan 13 22:28:05 EST 2021) # host: compute-1-39.local # when: Thu Jan 14 00:06:53 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 BGNCC DREME-1 # Word RC Word Pos Neg P-value E-value # BEST BGNCC GGNCV 22287 106831 1.5e-634 6.9e-630 # TGGCC GGCCA 6446 24896 6.5e-274 3.1e-269 # TGCCC GGGCA 7347 32476 5.5e-177 2.6e-172 # GGCCC GGGCC 4416 17446 7.9e-164 3.7e-159 # TGTCC GGACA 7188 32127 1.9e-162 9.0e-158 # TGACC GGTCA 3826 15667 4.9e-121 2.3e-116 # CGGCC GGCCG 1669 5250 1.4e-119 6.5e-115 # GGACC GGTCC 3330 15071 6.4e-064 3.0e-059 # CGTCC GGACG 1342 5684 1.3e-035 6.4e-031 # CGCCC GGGCG 1939 9056 1.4e-030 6.7e-026 # CGACC GGTCG 653 2517 5.8e-026 2.7e-021 letter-probability matrix: alength= 4 w= 5 nsites= 39501 E= 6.9e-630 0.000000 0.137591 0.184021 0.678388 0.000000 0.000000 1.000000 0.000000 0.165388 0.293461 0.254829 0.286322 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CAGCBG DREME-2 # Word RC Word Pos Neg P-value E-value # BEST CAGCBG CVGCTG 6533 23078 3.7e-375 1.6e-370 # CAGCTG CAGCTG 5316 17887 1.0e-341 4.4e-337 # CAGCCG CGGCTG 917 3458 9.0e-039 3.9e-034 # CAGCGG CCGCTG 593 2559 3.5e-015 1.5e-010 letter-probability matrix: alength= 4 w= 6 nsites= 7250 E= 1.6e-370 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 0.000000 0.126759 0.080138 0.793103 0.000000 0.000000 1.000000 0.000000 MOTIF BBGGC DREME-3 # Word RC Word Pos Neg P-value E-value # BEST BBGGC GCCVV 20714 108530 1.0e-258 4.3e-254 # CTGGC GCCAG 8959 43219 7.7e-133 3.3e-128 # TTGGC GCCAA 7122 36938 3.2e-054 1.4e-049 # GTGGC GCCAC 5669 28938 2.1e-048 8.9e-044 # GCGGC GCCGC 1015 3818 3.6e-043 1.6e-038 # CCGGC GCCGG 860 3200 4.1e-038 1.8e-033 # TGGGC GCCCA 3099 15149 4.4e-036 1.9e-031 # CGGGC GCCCG 681 2466 3.2e-033 1.4e-028 # GGGGC GCCCC 1736 7898 5.7e-032 2.5e-027 # TCGGC GCCGA 940 4219 3.8e-019 1.7e-014 letter-probability matrix: alength= 4 w= 5 nsites= 33200 E= 4.3e-254 0.000000 0.360271 0.271596 0.368133 0.000000 0.086265 0.170813 0.742922 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 YAATNR DREME-4 # Word RC Word Pos Neg P-value E-value # BEST YAATNR YNATTR 13402 64803 2.3e-229 9.1e-225 # CAATTA TAATTG 1755 6962 3.3e-061 1.3e-056 # TAATGA TCATTA 2185 9316 3.8e-056 1.5e-051 # TAATAA TTATTA 1525 6481 9.6e-040 3.9e-035 # TAATTA TAATTA 1440 6093 2.6e-038 1.0e-033 # TAATCA TGATTA 1716 7960 2.9e-028 1.2e-023 # TAATGG CCATTA 1090 4656 5.3e-028 2.1e-023 # CAATGG CCATTG 1229 5415 4.4e-027 1.8e-022 # TAATAG CTATTA 1109 4880 1.0e-024 4.2e-020 # CAATAG CTATTG 1047 4733 2.2e-020 8.9e-016 # CAATCA TGATTG 1530 7374 7.1e-020 2.9e-015 # CAATGA TCATTG 1684 8333 4.6e-018 1.9e-013 # CAATTG CAATTG 516 2125 2.6e-016 1.0e-011 # CAATAA TTATTG 1135 5802 7.8e-010 3.1e-005 # TAATCG CGATTA 175 694 2.0e-007 7.9e-003 # CAATCG CGATTG 169 806 1.2e-003 4.8e+001 letter-probability matrix: alength= 4 w= 6 nsites= 18246 E= 9.1e-225 0.000000 0.451935 0.000000 0.548065 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.254631 0.197413 0.341774 0.206182 0.660528 0.000000 0.339472 0.000000 MOTIF GSSC DREME-5 # Word RC Word Pos Neg P-value E-value # BEST GSSC GSSC 5898 26389 6.5e-128 2.6e-123 # GCGC GCGC 2135 9069 8.5e-056 3.3e-051 # GCCC GGGC 2915 13325 1.6e-052 6.4e-048 # GGCC GGCC 1218 5343 1.9e-027 7.5e-023 letter-probability matrix: alength= 4 w= 4 nsites= 6804 E= 2.6e-123 0.000000 0.000000 1.000000 0.000000 0.000000 0.591711 0.408289 0.000000 0.000000 0.410494 0.589506 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF SCAGS DREME-6 # Word RC Word Pos Neg P-value E-value # BEST SCAGS SCTGS 16864 93980 2.9e-075 1.1e-070 # GCAGC GCTGC 6432 34739 1.6e-030 6.1e-026 # GCAGG CCTGC 6481 35061 3.7e-030 1.4e-025 # CCAGC GCTGG 5236 27922 2.8e-028 1.0e-023 # CCAGG CCTGG 4485 25646 1.0e-008 3.8e-004 letter-probability matrix: alength= 4 w= 5 nsites= 23911 E= 1.1e-070 0.000000 0.426122 0.573878 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 0.516290 0.483710 0.000000 MOTIF CGS DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CGS SCG 13140 71938 1.1e-064 3.9e-060 # CGG CCG 9175 48384 2.2e-062 8.0e-058 # CGC GCG 7815 42052 3.0e-040 1.1e-035 letter-probability matrix: alength= 4 w= 3 nsites= 18665 E= 3.9e-060 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.452505 0.547495 0.000000 MOTIF RACAAW DREME-8 # Word RC Word Pos Neg P-value E-value # BEST RACAAW WTTGTY 5751 29888 2.0e-041 5.7e-037 # AACAAA TTTGTT 3113 15496 1.5e-031 4.5e-027 # AACAAT ATTGTT 973 4746 4.0e-012 1.2e-007 # GACAAT ATTGTC 546 2751 4.6e-006 1.3e-001 # GACAAA TTTGTC 1550 8736 1.3e-004 3.7e+000 letter-probability matrix: alength= 4 w= 6 nsites= 6480 E= 5.7e-037 0.670833 0.000000 0.329167 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 0.762654 0.000000 0.000000 0.237346 MOTIF GWCCM DREME-9 # Word RC Word Pos Neg P-value E-value # BEST GWCCM KGGWC 4577 23263 1.0e-039 3.0e-035 # GTCCA TGGAC 1474 6782 1.4e-025 4.1e-021 # GACCA TGGTC 1371 7320 8.1e-008 2.3e-003 # GTCCC GGGAC 1244 6610 1.4e-007 4.2e-003 # GACCC GGGTC 722 3645 2.0e-007 5.6e-003 letter-probability matrix: alength= 4 w= 5 nsites= 4942 E= 3.0e-035 0.000000 0.000000 1.000000 0.000000 0.435654 0.000000 0.000000 0.564346 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.594091 0.405909 0.000000 0.000000 MOTIF GCC DREME-10 # Word RC Word Pos Neg P-value E-value # BEST GCC GGC 16922 98913 3.1e-027 8.8e-023 # GCC GGC 16922 98913 3.1e-027 8.8e-023 letter-probability matrix: alength= 4 w= 3 nsites= 23597 E= 8.8e-023 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF ATYWGCA DREME-11 # Word RC Word Pos Neg P-value E-value # BEST ATYWGCA TGCWRAT 2613 13607 7.7e-018 2.0e-013 # ATTAGCA TGCTAAT 350 1598 1.8e-007 4.8e-003 # ATTTGCA TGCAAAT 987 5189 6.3e-007 1.7e-002 # ATCTGCA TGCAGAT 807 4218 3.2e-006 8.5e-002 # ATCAGCA TGCTGAT 611 3122 5.4e-006 1.4e-001 letter-probability matrix: alength= 4 w= 7 nsites= 2784 E= 2.0e-013 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.509698 0.000000 0.490302 0.348779 0.000000 0.000000 0.651221 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 ATTRRT DREME-12 # Word RC Word Pos Neg P-value E-value # BEST ATTRRT AYYAAT 1758 8970 9.6e-015 2.5e-010 # ATTAAT ATTAAT 246 1013 1.3e-008 3.4e-004 # ATTGAT ATCAAT 518 2674 6.1e-005 1.6e+000 # ATTAGT ACTAAT 569 3015 2.5e-004 6.5e+000 # ATTGGT ACCAAT 461 2416 4.3e-004 1.1e+001 letter-probability matrix: alength= 4 w= 6 nsites= 1815 E= 2.5e-010 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.455096 0.000000 0.544904 0.000000 0.424793 0.000000 0.575207 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF ACAATRC DREME-13 # Word RC Word Pos Neg P-value E-value # BEST ACAATRC GYATTGT 320 1299 2.6e-011 6.9e-007 # ACAATGC GCATTGT 187 740 6.8e-008 1.8e-003 # ACAATAC GTATTGT 135 562 3.2e-005 8.3e-001 letter-probability matrix: alength= 4 w= 7 nsites= 322 E= 6.9e-007 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 0.000000 0.000000 0.000000 1.000000 0.419255 0.000000 0.580745 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF GCWS DREME-14 # Word RC Word Pos Neg P-value E-value # BEST GCWS SWGC 24154 147118 2.0e-010 5.4e-006 # GCTC GAGC 12708 75786 4.6e-009 1.2e-004 # GCAG CTGC 10245 61711 8.3e-005 2.2e+000 # GCTG CAGC 10178 61537 4.3e-004 1.1e+001 # GCAC GTGC 10393 62898 5.3e-004 1.4e+001 letter-probability matrix: alength= 4 w= 4 nsites= 43295 E= 5.4e-006 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.467467 0.000000 0.000000 0.532533 0.000000 0.541356 0.458644 0.000000 MOTIF CCCCYCC DREME-15 # Word RC Word Pos Neg P-value E-value # BEST CCCCYCC GGRGGGG 737 3552 2.7e-010 6.5e-006 # CCCCTCC GGAGGGG 532 2593 2.4e-007 5.8e-003 # CCCCCCC GGGGGGG 246 1099 2.9e-006 6.9e-002 letter-probability matrix: alength= 4 w= 7 nsites= 796 E= 6.5e-006 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 0.316583 0.000000 0.683417 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CYATTCA DREME-16 # Word RC Word Pos Neg P-value E-value # BEST CYATTCA TGAATRG 771 3751 4.4e-010 1.1e-005 # CTATTCA TGAATAG 418 1982 4.2e-007 1.0e-002 # CCATTCA TGAATGG 357 1793 1.5e-004 3.5e+000 letter-probability matrix: alength= 4 w= 7 nsites= 778 E= 1.1e-005 0.000000 1.000000 0.000000 0.000000 0.000000 0.461440 0.000000 0.538560 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 MOTIF AATACAAW DREME-17 # Word RC Word Pos Neg P-value E-value # BEST AATACAAW WTTGTATT 260 1106 5.6e-008 1.3e-003 # AATACAAA TTTGTATT 205 887 3.3e-006 7.9e-002 # AATACAAT ATTGTATT 57 219 1.2e-003 2.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 264 E= 1.3e-003 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.784091 0.000000 0.000000 0.215909 MOTIF CTAGTGGW DREME-18 # Word RC Word Pos Neg P-value E-value # BEST CTAGTGGW WCCACTAG 186 743 1.3e-007 3.0e-003 # CTAGTGGA TCCACTAG 87 340 1.3e-004 3.1e+000 # CTAGTGGT ACCACTAG 99 405 1.9e-004 4.6e+000 letter-probability matrix: alength= 4 w= 8 nsites= 186 E= 3.0e-003 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 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.467742 0.000000 0.000000 0.532258 MOTIF CCCAG DREME-19 # Word RC Word Pos Neg P-value E-value # BEST CCCAG CTGGG 3224 18299 2.2e-007 5.2e-003 # CCCAG CTGGG 3224 18299 2.2e-007 5.2e-003 letter-probability matrix: alength= 4 w= 5 nsites= 3364 E= 5.2e-003 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 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF ACAAARG DREME-20 # Word RC Word Pos Neg P-value E-value # BEST ACAAARG CYTTTGT 418 1975 3.1e-007 7.3e-003 # ACAAAAG CTTTTGT 254 1209 8.2e-005 1.9e+000 # ACAAAGG CCTTTGT 164 768 7.2e-004 1.7e+001 letter-probability matrix: alength= 4 w= 7 nsites= 418 E= 7.3e-003 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 1.000000 0.000000 0.000000 0.000000 0.607656 0.000000 0.392344 0.000000 0.000000 0.000000 1.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 11572.17 seconds