# DREME 4.12.0 # command: dreme -v 1 -oc /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Lamp5_reproduciblePeaks_enhancerShort.MemeChipResults/dreme_out -png -dna -p /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Lamp5_reproduciblePeaks_enhancerShort.MemeChipResults/seqs-centered -n /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Lamp5_reproduciblePeaks_enhancerShort.MemeChipResults/control-centered # positives: 33841 from /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Lamp5_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_Lamp5_reproduciblePeaks_enhancerShort.MemeChipResults/control-centered (Wed Jan 13 22:28:09 EST 2021) # host: compute-1-39.local # when: Thu Jan 14 01:09:49 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 GCCRR DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GCCRR YYGGC 18520 91359 1.8e-232 8.3e-228 # GCCAA TTGGC 9425 42492 4.5e-166 2.1e-161 # GCCAG CTGGC 10789 54233 3.9e-081 1.8e-076 # GCCGG CCGGC 1411 5986 3.9e-030 1.8e-025 # GCCGA TCGGC 1461 6289 6.8e-029 3.1e-024 letter-probability matrix: alength= 4 w= 5 nsites= 26942 E= 8.3e-228 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.890357 0.000000 0.109643 0.000000 0.460693 0.000000 0.539307 0.000000 MOTIF TAATWR DREME-2 # Word RC Word Pos Neg P-value E-value # BEST TAATWR YWATTA 5994 22958 1.3e-218 5.6e-214 # TAATAA TTATTA 1972 6481 1.0e-111 4.7e-107 # TAATTA TAATTA 1687 6093 1.1e-070 5.0e-066 # TAATAG CTATTA 1369 5039 1.2e-053 5.5e-049 # TAATTG CAATTA 1826 7431 1.6e-047 7.1e-043 letter-probability matrix: alength= 4 w= 6 nsites= 6928 E= 5.6e-214 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 0.478926 0.000000 0.000000 0.521074 0.533632 0.000000 0.466368 0.000000 MOTIF CGVR DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CGVR YBCG 19681 100472 5.9e-184 2.6e-179 # CGCA TGCG 5952 27707 2.5e-076 1.1e-071 # CGCG CGCG 1166 3668 3.1e-074 1.4e-069 # CGGG CCCG 5371 25603 1.3e-056 5.8e-052 # CGGA TCCG 5129 24913 6.4e-046 2.9e-041 # CGAG CTCG 5560 27721 2.6e-039 1.2e-034 # CGAA TTCG 4009 20509 4.5e-021 2.0e-016 letter-probability matrix: alength= 4 w= 4 nsites= 26596 E= 2.6e-179 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.335426 0.273274 0.391299 0.000000 0.551023 0.000000 0.448977 0.000000 MOTIF CGB DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CGB VCG 13011 66134 8.7e-094 3.1e-089 # CGC GCG 6863 32463 8.5e-080 3.1e-075 # CGG CCG 4957 23599 2.5e-052 8.9e-048 # CGT ACG 9710 50863 1.0e-042 3.7e-038 letter-probability matrix: alength= 4 w= 3 nsites= 18031 E= 3.1e-089 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.320060 0.187954 0.491986 MOTIF RACAAW DREME-5 # Word RC Word Pos Neg P-value E-value # BEST RACAAW WTTGTY 7623 36255 1.2e-086 3.4e-082 # AACAAA TTTGTT 3412 15432 1.1e-050 3.2e-046 # AACAAT ATTGTT 1758 7465 3.4e-037 9.7e-033 # GACAAT ATTGTC 1182 5594 3.1e-013 9.0e-009 # GACAAA TTTGTC 2045 10791 9.0e-008 2.6e-003 letter-probability matrix: alength= 4 w= 6 nsites= 8769 E= 3.4e-082 0.623332 0.000000 0.376668 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 0.658342 0.000000 0.000000 0.341658 MOTIF AWTRG DREME-6 # Word RC Word Pos Neg P-value E-value # BEST AWTRG CYAWT 15113 80626 1.3e-061 3.6e-057 # ATTAG CTAAT 3834 18469 4.7e-036 1.3e-031 # AATGG CCATT 6348 33432 8.4e-024 2.4e-019 # AATAG CTATT 5610 29426 5.5e-022 1.6e-017 # ATTGG CCAAT 3300 17496 3.8e-011 1.1e-006 letter-probability matrix: alength= 4 w= 5 nsites= 20114 E= 3.6e-057 1.000000 0.000000 0.000000 0.000000 0.640499 0.000000 0.000000 0.359501 0.000000 0.000000 0.000000 1.000000 0.501790 0.000000 0.498210 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF ATTAWT DREME-7 # Word RC Word Pos Neg P-value E-value # BEST ATTAWT AWTAAT 1527 6558 1.6e-030 4.2e-026 # ATTATT AATAAT 1129 5052 3.3e-018 8.8e-014 # ATTAAT ATTAAT 418 1562 1.8e-016 4.9e-012 letter-probability matrix: alength= 4 w= 6 nsites= 1574 E= 4.2e-026 1.000000 0.000000 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 0.268107 0.000000 0.000000 0.731893 0.000000 0.000000 0.000000 1.000000 MOTIF CCCCYY DREME-8 # Word RC Word Pos Neg P-value E-value # BEST CCCCYY RRGGGG 3851 19619 3.5e-021 9.3e-017 # CCCCCT AGGGGG 1642 7884 4.8e-016 1.3e-011 # CCCCCC GGGGGG 827 3658 1.2e-014 3.2e-010 # CCCCTC GAGGGG 1691 8720 1.3e-008 3.4e-004 # CCCCTT AAGGGG 1301 6816 6.9e-006 1.9e-001 letter-probability matrix: alength= 4 w= 6 nsites= 4458 E= 9.3e-017 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 0.399058 0.000000 0.600942 0.000000 0.514581 0.000000 0.485419 MOTIF WTCCAR DREME-9 # Word RC Word Pos Neg P-value E-value # BEST WTCCAR YTGGAW 8915 48942 2.1e-017 5.7e-013 # TTCCAA TTGGAA 2610 13854 7.1e-009 1.9e-004 # TTCCAG CTGGAA 3715 20231 2.9e-008 7.8e-004 # ATCCAA TTGGAT 1453 7777 5.5e-005 1.4e+000 # ATCCAG CTGGAT 2151 11939 6.6e-004 1.8e+001 letter-probability matrix: alength= 4 w= 6 nsites= 10337 E= 5.7e-013 0.357938 0.000000 0.000000 0.642062 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.406404 0.000000 0.593596 0.000000 MOTIF CTGGGM DREME-10 # Word RC Word Pos Neg P-value E-value # BEST CTGGGM KCCCAG 5875 31601 7.2e-016 1.9e-011 # CTGGGC GCCCAG 2482 12622 4.5e-014 1.2e-009 # CTGGGA TCCCAG 3698 20431 2.3e-006 6.1e-002 letter-probability matrix: alength= 4 w= 6 nsites= 6544 E= 1.9e-011 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.602995 0.397005 0.000000 0.000000 MOTIF CCACTAGR DREME-11 # Word RC Word Pos Neg P-value E-value # BEST CCACTAGR YCTAGTGG 419 1619 1.2e-014 3.2e-010 # CCACTAGA TCTAGTGG 245 948 3.5e-009 9.3e-005 # CCACTAGG CCTAGTGG 174 674 6.1e-007 1.6e-002 letter-probability matrix: alength= 4 w= 8 nsites= 421 E= 3.2e-010 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 0.586698 0.000000 0.413302 0.000000 MOTIF ACAAW DREME-12 # Word RC Word Pos Neg P-value E-value # BEST ACAAW WTTGT 6857 37550 1.4e-013 3.6e-009 # ACAAA TTTGT 4726 25966 8.8e-009 2.3e-004 # ACAAT ATTGT 2527 13444 2.3e-008 5.9e-004 letter-probability matrix: alength= 4 w= 5 nsites= 7765 E= 3.6e-009 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 0.662460 0.000000 0.000000 0.337540 MOTIF CAGGC DREME-13 # Word RC Word Pos Neg P-value E-value # BEST CAGGC GCCTG 6894 37813 3.0e-013 7.8e-009 # CAGGC GCCTG 6894 37813 3.0e-013 7.8e-009 letter-probability matrix: alength= 4 w= 5 nsites= 7795 E= 7.8e-009 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 0.000000 1.000000 0.000000 0.000000 MOTIF AWTGMTG DREME-14 # Word RC Word Pos Neg P-value E-value # BEST AWTGMTG CAKCAWT 1913 9716 3.1e-011 7.9e-007 # AATGCTG CAGCATT 676 3429 6.2e-005 1.6e+000 # ATTGATG CATCAAT 262 1246 5.6e-004 1.4e+001 # ATTGCTG CAGCAAT 525 2705 1.1e-003 2.8e+001 # AATGATG CATCATT 495 2580 3.1e-003 7.8e+001 letter-probability matrix: alength= 4 w= 7 nsites= 1950 E= 7.9e-007 1.000000 0.000000 0.000000 0.000000 0.601026 0.000000 0.000000 0.398974 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.386154 0.613846 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 MOTIF CGA DREME-15 # Word RC Word Pos Neg P-value E-value # BEST CGA TCG 512 2319 1.7e-008 4.3e-004 # CGA TCG 512 2319 1.7e-008 4.3e-004 letter-probability matrix: alength= 4 w= 3 nsites= 515 E= 4.3e-004 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 KATAAATA DREME-16 # Word RC Word Pos Neg P-value E-value # BEST KATAAATA TATTTATM 461 2063 2.5e-008 6.2e-004 # TATAAATA TATTTATA 375 1706 1.7e-006 4.3e-002 # GATAAATA TATTTATC 89 363 1.1e-003 2.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 467 E= 6.2e-004 0.000000 0.000000 0.190578 0.809422 1.000000 0.000000 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CARCAGAG DREME-17 # Word RC Word Pos Neg P-value E-value # BEST CARCAGAG CTCTGYTG 782 3810 1.5e-007 3.8e-003 # CAACAGAG CTCTGTTG 247 1115 5.8e-005 1.5e+000 # CAGCAGAG CTCTGCTG 539 2716 1.9e-004 4.7e+000 letter-probability matrix: alength= 4 w= 8 nsites= 795 E= 3.8e-003 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.313208 0.000000 0.686792 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF CTGATR DREME-18 # Word RC Word Pos Neg P-value E-value # BEST CTGATR YATCAG 3295 17929 1.5e-007 3.8e-003 # CTGATA TATCAG 1152 5885 6.5e-007 1.6e-002 # CTGATG CATCAG 2212 12406 2.5e-003 6.3e+001 letter-probability matrix: alength= 4 w= 6 nsites= 3487 E= 3.8e-003 0.000000 1.000000 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 0.000000 0.000000 0.000000 1.000000 0.340407 0.000000 0.659593 0.000000 MOTIF GGCTGCTR DREME-19 # Word RC Word Pos Neg P-value E-value # BEST GGCTGCTR YAGCAGCC 349 1547 5.4e-007 1.3e-002 # GGCTGCTA TAGCAGCC 136 551 5.5e-005 1.4e+000 # GGCTGCTG CAGCAGCC 214 997 7.0e-004 1.7e+001 letter-probability matrix: alength= 4 w= 8 nsites= 356 E= 1.3e-002 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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.384831 0.000000 0.615169 0.000000 MOTIF TAATSA DREME-20 # Word RC Word Pos Neg P-value E-value # BEST TAATSA TSATTA 1942 10332 1.0e-006 2.5e-002 # TAATGA TCATTA 1051 5607 3.8e-004 9.5e+000 # TAATCA TGATTA 930 4948 6.2e-004 1.5e+001 letter-probability matrix: alength= 4 w= 6 nsites= 2012 E= 2.5e-002 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 0.466700 0.533300 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 23977.18 seconds