# DREME 4.12.0 # command: dreme -v 1 -oc /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_L6.IT_reproduciblePeaks_enhancerShort.MemeChipResults/dreme_out -png -dna -p /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_L6.IT_reproduciblePeaks_enhancerShort.MemeChipResults/seqs-centered -n /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_L6.IT_reproduciblePeaks_enhancerShort.MemeChipResults/control-centered # positives: 71275 from /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_L6.IT_reproduciblePeaks_enhancerShort.MemeChipResults/seqs-centered (Wed Jan 13 22:28:03 EST 2021) # negatives: 202202 from /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_L6.IT_reproduciblePeaks_enhancerShort.MemeChipResults/control-centered (Wed Jan 13 22:28:12 EST 2021) # host: compute-1-39.local # when: Thu Jan 14 01:02:45 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 CCSMC DREME-1 # Word RC Word Pos Neg P-value E-value # BEST CCSMC GKSGG 31939 71159 1.0e-447 4.8e-443 # CCCAC GTGGG 24260 51457 2.2e-413 1.0e-408 # CCGCC GGCGG 4559 9453 5.5e-069 2.6e-064 # CCCCC GGGGG 9005 20812 4.0e-065 1.9e-060 # CCGAC GTCGG 1674 4376 2.2e-003 1.0e+002 letter-probability matrix: alength= 4 w= 5 nsites= 43717 E= 4.8e-443 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.854359 0.145641 0.000000 0.688291 0.311709 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF TGACTMA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST TGACTMA TKAGTCA 8406 15434 2.0e-237 9.0e-233 # TGACTCA TGAGTCA 6679 11801 3.2e-215 1.4e-210 # TGACTAA TTAGTCA 1887 3880 3.5e-030 1.6e-025 letter-probability matrix: alength= 4 w= 7 nsites= 8932 E= 9.0e-233 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 0.000000 0.000000 1.000000 0.214734 0.785266 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CDCCTMC DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CDCCTMC GKAGGHG 8311 17616 8.0e-114 3.6e-109 # CTCCTCC GGAGGAG 3451 7540 1.5e-037 6.8e-033 # CACCTCC GGAGGTG 1890 3799 4.9e-034 2.2e-029 # CTCCTAC GTAGGAG 1915 3859 5.0e-034 2.2e-029 # CACCTAC GTAGGTG 1183 2505 1.4e-016 6.3e-012 # CGCCTAC GTAGGCG 222 380 3.4e-009 1.5e-004 # CGCCTCC GGAGGCG 396 809 8.4e-008 3.7e-003 letter-probability matrix: alength= 4 w= 7 nsites= 9221 E= 3.6e-109 0.000000 1.000000 0.000000 0.000000 0.326646 0.000000 0.065828 0.607526 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.354625 0.645375 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF GTGWSA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST GTGWSA TSWCAC 18619 44966 1.6e-097 7.2e-093 # GTGTGA TCACAC 7050 15952 5.6e-060 2.5e-055 # GTGAGA TCTCAC 6130 14553 1.4e-033 6.0e-029 # GTGACA TGTCAC 5404 13033 4.6e-025 2.0e-020 # GTGTCA TGACAC 3997 10206 4.6e-009 2.0e-004 letter-probability matrix: alength= 4 w= 6 nsites= 21713 E= 7.2e-093 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.507668 0.000000 0.000000 0.492332 0.000000 0.394602 0.605398 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CGCS DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CGCS SGCG 8287 19344 2.5e-054 1.1e-049 # CGCC GGCG 7264 16982 1.5e-046 6.5e-042 # CGCG CGCG 1667 3543 3.1e-022 1.3e-017 letter-probability matrix: alength= 4 w= 4 nsites= 9862 E= 1.1e-049 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 0.812107 0.187893 0.000000 MOTIF CTGYCD DREME-6 # Word RC Word Pos Neg P-value E-value # BEST CTGYCD HGRCAG 28864 76070 4.3e-042 1.8e-037 # CTGTCA TGACAG 5366 13180 3.7e-020 1.5e-015 # CTGCCA TGGCAG 9507 24521 3.0e-017 1.2e-012 # CTGTCT AGACAG 8662 22993 1.2e-008 5.0e-004 # CTGCCT AGGCAG 9676 25978 3.9e-007 1.6e-002 # CTGTCG CGACAG 625 1495 2.1e-004 8.5e+000 # CTGCCG CGGCAG 1194 3039 7.8e-004 3.2e+001 letter-probability matrix: alength= 4 w= 6 nsites= 36998 E= 1.8e-037 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 0.588086 0.000000 0.411914 0.000000 1.000000 0.000000 0.000000 0.421807 0.000000 0.049354 0.528839 MOTIF BSGTG DREME-7 # Word RC Word Pos Neg P-value E-value # BEST BSGTG CACSV 27866 74030 2.8e-032 1.2e-027 # TGGTG CACCA 14397 38217 2.6e-014 1.0e-009 # GGGTG CACCC 8349 21616 4.1e-014 1.6e-009 # TCGTG CACGA 2873 7259 5.7e-008 2.3e-003 # GCGTG CACGC 2386 5962 7.1e-008 2.9e-003 # CCGTG CACGG 3485 9379 3.4e-003 1.4e+002 # CGGTG CACCG 2271 6035 3.8e-003 1.5e+002 letter-probability matrix: alength= 4 w= 5 nsites= 35658 E= 1.2e-027 0.000000 0.155000 0.314768 0.530232 0.000000 0.245162 0.754838 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 MOTIF TGATTCAB DREME-8 # Word RC Word Pos Neg P-value E-value # BEST TGATTCAB VTGAATCA 1818 3816 5.9e-026 2.3e-021 # TGATTCAT ATGAATCA 907 1825 5.0e-017 1.9e-012 # TGATTCAG CTGAATCA 598 1308 1.1e-007 4.4e-003 # TGATTCAC GTGAATCA 335 707 6.6e-006 2.6e-001 letter-probability matrix: alength= 4 w= 8 nsites= 1855 E= 2.3e-021 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 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.182210 0.323989 0.493801 MOTIF CCACTAGR DREME-9 # Word RC Word Pos Neg P-value E-value # BEST CCACTAGR YCTAGTGG 663 1119 2.6e-025 9.9e-021 # CCACTAGA TCTAGTGG 435 695 3.5e-020 1.4e-015 # CCACTAGG CCTAGTGG 228 425 3.4e-007 1.3e-002 letter-probability matrix: alength= 4 w= 8 nsites= 664 E= 9.9e-021 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 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.655120 0.000000 0.344880 0.000000 MOTIF CATATGBY DREME-10 # Word RC Word Pos Neg P-value E-value # BEST CATATGBY RVCATATG 2375 5293 9.5e-023 3.7e-018 # CATATGTT AACATATG 731 1499 8.3e-013 3.2e-008 # CATATGCT AGCATATG 717 1586 2.6e-008 1.0e-003 # CATATGGT ACCATATG 505 1082 1.6e-007 6.4e-003 # CATATGTC GACATATG 371 808 1.9e-005 7.2e-001 # CATATGCC GGCATATG 345 797 9.0e-004 3.5e+001 # CATATGGC GCCATATG 427 1018 1.5e-003 5.9e+001 letter-probability matrix: alength= 4 w= 8 nsites= 2417 E= 3.7e-018 0.000000 1.000000 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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.354986 0.285892 0.359123 0.000000 0.365329 0.000000 0.634671 MOTIF CTCCHTC DREME-11 # Word RC Word Pos Neg P-value E-value # BEST CTCCHTC GADGGAG 5778 14334 4.1e-019 1.6e-014 # CTCCCTC GAGGGAG 2501 5964 1.4e-013 5.3e-009 # CTCCTTC GAAGGAG 1959 4887 7.4e-007 2.9e-002 # CTCCATC GATGGAG 1588 4125 1.4e-003 5.5e+001 letter-probability matrix: alength= 4 w= 7 nsites= 6373 E= 1.6e-014 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 0.251059 0.438569 0.000000 0.310372 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 MOTIF ACAST DREME-12 # Word RC Word Pos Neg P-value E-value # BEST ACAST ASTGT 25690 69222 1.6e-018 6.2e-014 # ACACT AGTGT 14909 39627 2.2e-014 8.5e-010 # ACAGT ACTGT 14599 39392 4.4e-009 1.7e-004 letter-probability matrix: alength= 4 w= 5 nsites= 31660 E= 6.2e-014 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 0.506128 0.493872 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF TTATRYAA DREME-13 # Word RC Word Pos Neg P-value E-value # BEST TTATRYAA TTRYATAA 2238 5189 8.0e-016 3.0e-011 # TTATGTAA TTACATAA 963 2117 4.8e-011 1.8e-006 # TTATATAA TTATATAA 431 952 1.2e-005 4.5e-001 # TTATGCAA TTGCATAA 580 1453 6.3e-003 2.4e+002 # TTATACAA TTGTATAA 307 739 9.0e-003 3.4e+002 letter-probability matrix: alength= 4 w= 8 nsites= 2299 E= 3.0e-011 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.322749 0.000000 0.677251 0.000000 0.000000 0.388430 0.000000 0.611570 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CGC DREME-14 # Word RC Word Pos Neg P-value E-value # BEST CGC GCG 15590 41422 2.9e-015 1.1e-010 # CGC GCG 15590 41422 2.9e-015 1.1e-010 letter-probability matrix: alength= 4 w= 3 nsites= 19147 E= 1.1e-010 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CTYCWC DREME-15 # Word RC Word Pos Neg P-value E-value # BEST CTYCWC GWGRAG 14254 38019 1.8e-012 6.2e-008 # CTCCTC GAGGAG 3914 10232 4.6e-006 1.6e-001 # CTTCAC GTGAAG 2786 7220 2.1e-005 7.3e-001 # CTCCAC GTGGAG 3158 8388 6.9e-004 2.4e+001 # CTTCTC GAGAAG 5756 15724 5.5e-003 1.9e+002 letter-probability matrix: alength= 4 w= 6 nsites= 15903 E= 6.2e-008 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.449915 0.000000 0.550085 0.000000 1.000000 0.000000 0.000000 0.376281 0.000000 0.000000 0.623719 0.000000 1.000000 0.000000 0.000000 MOTIF AAATGTCA DREME-16 # Word RC Word Pos Neg P-value E-value # BEST AAATGTCA TGACATTT 596 1233 2.7e-010 9.4e-006 # AAATGTCA TGACATTT 596 1233 2.7e-010 9.4e-006 letter-probability matrix: alength= 4 w= 8 nsites= 598 E= 9.4e-006 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 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 CWTCCTAC DREME-17 # Word RC Word Pos Neg P-value E-value # BEST CWTCCTAC GTAGGAWG 676 1475 1.4e-008 4.7e-004 # CTTCCTAC GTAGGAAG 423 927 8.1e-006 2.8e-001 # CATCCTAC GTAGGATG 254 550 2.6e-004 8.9e+000 letter-probability matrix: alength= 4 w= 8 nsites= 682 E= 4.7e-004 0.000000 1.000000 0.000000 0.000000 0.373900 0.000000 0.000000 0.626100 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 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF GTTGCYA DREME-18 # Word RC Word Pos Neg P-value E-value # BEST GTTGCYA TRGCAAC 2283 5706 1.4e-007 4.8e-003 # GTTGCTA TAGCAAC 1085 2654 2.2e-005 7.6e-001 # GTTGCCA TGGCAAC 1233 3117 3.2e-004 1.1e+001 letter-probability matrix: alength= 4 w= 7 nsites= 2377 E= 4.8e-003 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 0.000000 0.530921 0.000000 0.469079 1.000000 0.000000 0.000000 0.000000 MOTIF ATGWGTAA DREME-19 # Word RC Word Pos Neg P-value E-value # BEST ATGWGTAA TTACWCAT 815 1864 2.1e-007 7.1e-003 # ATGAGTAA TTACTCAT 447 977 3.8e-006 1.3e-001 # ATGTGTAA TTACACAT 370 890 4.4e-003 1.5e+002 letter-probability matrix: alength= 4 w= 8 nsites= 824 E= 7.1e-003 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.548544 0.000000 0.000000 0.451456 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 MOTIF AGCCTMC DREME-20 # Word RC Word Pos Neg P-value E-value # BEST AGCCTMC GKAGGCT 1943 4830 4.3e-007 1.5e-002 # AGCCTAC GTAGGCT 779 1822 4.2e-006 1.5e-001 # AGCCTCC GGAGGCT 1184 3039 1.8e-003 6.2e+001 letter-probability matrix: alength= 4 w= 7 nsites= 1986 E= 1.5e-002 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 0.000000 0.000000 0.000000 1.000000 0.395770 0.604230 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 28203.01 seconds