******************************************************************************** STREME - Sensitive, Thorough, Rapid, Enriched Motif Elicitation ******************************************************************************** MEME version 5.4.1 (Release date: Sat Aug 21 19:23:23 2021 -0700) For further information on how to interpret these results please access https://meme-suite.org/meme. To get a copy of the MEME Suite software please access https://meme-suite.org. ******************************************************************************** ******************************************************************************** REFERENCE ******************************************************************************** If you use this program in your research, please cite: Timothy L. Bailey, "STREME: accurate and versatile sequence motif discovery", Bioinformatics, Mar. 24, 2021. ******************************************************************************** ALPHABET= ACGT strands: + - Background letter frequencies A 0.189 C 0.311 G 0.311 T 0.189 MOTIF 1-CCTGTAATCCCAGCWMYT STREME-1 letter-probability matrix: alength= 4 w= 18 nsites= 564 E= 1.7e-016 0.009843 0.929320 0.021625 0.039212 0.009843 0.952814 0.007919 0.029424 0.003969 0.009877 0.004004 0.982150 0.076418 0.007919 0.905820 0.009843 0.000053 0.025541 0.009877 0.964528 0.958654 0.007919 0.029457 0.003969 0.786231 0.007919 0.197965 0.007885 0.005927 0.019667 0.004004 0.970402 0.013759 0.921486 0.007919 0.056836 0.019633 0.915614 0.011836 0.052918 0.002011 0.937147 0.004004 0.056838 0.962570 0.007919 0.009877 0.019633 0.056838 0.015752 0.915610 0.011801 0.013759 0.921488 0.027499 0.037254 0.476657 0.025541 0.007919 0.489883 0.474220 0.457111 0.025541 0.043128 0.009843 0.472296 0.015751 0.502111 0.015717 0.047079 0.011835 0.925369 MOTIF 2-CCAGCCTGGSCAACA STREME-2 letter-probability matrix: alength= 4 w= 15 nsites= 489 E= 7.3e-016 0.012189 0.927019 0.017081 0.043710 0.009765 0.941568 0.009807 0.038861 0.980320 0.002533 0.009807 0.007340 0.021887 0.012231 0.866383 0.099499 0.007340 0.956113 0.007382 0.029165 0.002491 0.960966 0.004958 0.031585 0.012189 0.009807 0.009807 0.968197 0.029161 0.007382 0.956117 0.007340 0.099498 0.009807 0.883355 0.007340 0.029162 0.509636 0.434466 0.026736 0.012189 0.796000 0.012231 0.179580 0.837168 0.014656 0.140836 0.007340 0.956074 0.007382 0.026780 0.009764 0.021888 0.863980 0.029203 0.084929 0.922131 0.024354 0.043751 0.009764 MOTIF 3-WKTWGAGAYRGRGTYTCR STREME-3 letter-probability matrix: alength= 4 w= 18 nsites= 428 E= 4.7e-013 0.519657 0.010610 0.034217 0.435516 0.049910 0.002741 0.559049 0.388301 0.007941 0.028971 0.007987 0.955102 0.621956 0.002741 0.049957 0.325347 0.036794 0.010610 0.942032 0.010564 0.986578 0.000118 0.013233 0.000072 0.021056 0.005364 0.970886 0.002695 0.973463 0.002741 0.021102 0.002695 0.013187 0.619316 0.013234 0.354263 0.327974 0.013233 0.637738 0.021056 0.076140 0.010610 0.900063 0.013187 0.335840 0.000118 0.645610 0.018433 0.036794 0.002741 0.944655 0.015810 0.005318 0.010610 0.010610 0.973462 0.002695 0.359491 0.002741 0.635073 0.000072 0.010610 0.005364 0.983955 0.007941 0.797761 0.010610 0.183688 0.582613 0.042087 0.325390 0.049911 MOTIF 4-AGGCTGAGGCRGGAGRATC STREME-4 letter-probability matrix: alength= 4 w= 19 nsites= 511 E= 6.9e-013 0.988834 0.000098 0.008827 0.002242 0.039341 0.002280 0.956137 0.002242 0.041522 0.013191 0.945227 0.000060 0.004424 0.973596 0.004462 0.017517 0.008789 0.325268 0.004462 0.661481 0.172462 0.011009 0.816469 0.000060 0.991016 0.004462 0.004462 0.000060 0.034976 0.004462 0.951774 0.008788 0.067709 0.000098 0.932134 0.000060 0.024064 0.731358 0.008827 0.235751 0.591645 0.017556 0.362371 0.028428 0.048069 0.019738 0.903765 0.028428 0.067710 0.013191 0.910310 0.008788 0.558907 0.220515 0.017556 0.203022 0.161549 0.011009 0.816471 0.010971 0.412692 0.000098 0.580604 0.006606 0.969194 0.006644 0.021920 0.002242 0.019700 0.041560 0.008827 0.929914 0.026246 0.737888 0.065578 0.170288 MOTIF 5-AMCTCCTGRSYTCAAG STREME-5 letter-probability matrix: alength= 4 w= 16 nsites= 381 E= 3.4e-011 0.742916 0.000124 0.254125 0.002836 0.552439 0.381118 0.016685 0.049758 0.002836 0.966603 0.008404 0.022157 0.005596 0.013924 0.011164 0.969316 0.008356 0.958323 0.002884 0.030437 0.000075 0.963843 0.000124 0.035958 0.013876 0.240310 0.005644 0.740170 0.127073 0.002884 0.850646 0.019397 0.436471 0.000124 0.563330 0.000075 0.033197 0.408920 0.541246 0.016636 0.000075 0.610451 0.000124 0.389350 0.008356 0.008404 0.000124 0.983116 0.002836 0.958323 0.000124 0.038717 0.925153 0.027725 0.047046 0.000075 0.646147 0.041529 0.270847 0.041478 0.047000 0.000124 0.947280 0.005596 MOTIF 6-AAAAATTAGCYRGGCRTGGT STREME-6 letter-probability matrix: alength= 4 w= 20 nsites= 296 E= 8.5e-008 0.867064 0.068310 0.019097 0.045529 0.973059 0.003955 0.000170 0.022816 0.969274 0.019097 0.000170 0.011460 0.946561 0.019097 0.003955 0.030387 0.920062 0.022882 0.019097 0.037959 0.034173 0.030453 0.022882 0.912492 0.049315 0.034239 0.022882 0.893564 0.912492 0.011526 0.072094 0.003889 0.019031 0.007741 0.954198 0.019031 0.007674 0.946627 0.003955 0.041744 0.022816 0.556677 0.000170 0.420337 0.363529 0.007741 0.617271 0.011460 0.056886 0.011526 0.931485 0.000103 0.068242 0.015312 0.897415 0.019031 0.019031 0.692974 0.003955 0.284040 0.408973 0.022882 0.560470 0.007674 0.015245 0.064523 0.011526 0.908706 0.109882 0.007741 0.859561 0.022817 0.037958 0.011526 0.942841 0.007674 0.007674 0.041810 0.015312 0.935204 MOTIF 7-GCAGTGAGCYGAGAT STREME-7 letter-probability matrix: alength= 4 w= 15 nsites= 204 E= 7.0e-005 0.028853 0.000257 0.964994 0.005896 0.000157 0.959255 0.005996 0.034592 0.930457 0.005996 0.057651 0.005896 0.028853 0.000257 0.964994 0.005896 0.000157 0.005996 0.005996 0.987851 0.034592 0.005996 0.959255 0.000157 0.964894 0.000257 0.017475 0.017374 0.028853 0.005996 0.959255 0.005896 0.005896 0.930559 0.017475 0.046071 0.051814 0.528661 0.023214 0.396311 0.252798 0.000257 0.729571 0.017374 0.838627 0.005996 0.011735 0.143641 0.023113 0.011735 0.942038 0.023113 0.953414 0.011735 0.034693 0.000157 0.000157 0.034693 0.000257 0.964893 MOTIF 8-RTGAGCCACCGCGCCCGG STREME-8 letter-probability matrix: alength= 4 w= 18 nsites= 224 E= 1.9e-004 0.440835 0.015602 0.528050 0.015513 0.010388 0.010478 0.010478 0.968655 0.015513 0.015602 0.958497 0.010388 0.948158 0.036099 0.000230 0.015513 0.025761 0.010478 0.958497 0.005264 0.015513 0.963621 0.005354 0.015513 0.005264 0.973869 0.005354 0.015513 0.968655 0.010478 0.020727 0.000140 0.010388 0.938000 0.020727 0.030885 0.015513 0.717650 0.036099 0.230738 0.276857 0.015602 0.676656 0.030885 0.025761 0.661272 0.010478 0.302489 0.256356 0.041223 0.666411 0.036010 0.015513 0.943124 0.020727 0.020637 0.005264 0.953372 0.010478 0.030885 0.036010 0.656153 0.025851 0.281987 0.240986 0.020727 0.702278 0.036010 0.041134 0.010478 0.927751 0.020637 MOTIF 9-GCCTCAGYYTCC STREME-9 letter-probability matrix: alength= 4 w= 12 nsites= 1798 E= 5.0e-004 0.230853 0.063727 0.492128 0.213293 0.017376 0.870467 0.007638 0.104519 0.011973 0.700374 0.058077 0.229576 0.009246 0.068845 0.098687 0.823222 0.000021 0.999923 0.000035 0.000021 0.490971 0.130620 0.235091 0.143318 0.118476 0.072758 0.612798 0.195969 0.001570 0.656690 0.009938 0.331803 0.007609 0.434643 0.141800 0.415948 0.054276 0.183391 0.014287 0.748047 0.020223 0.896822 0.000809 0.082146 0.015392 0.793377 0.013931 0.177299 MOTIF 10-GCCGCCGCCGCCGCCGCCGC STREME-10 letter-probability matrix: alength= 4 w= 20 nsites= 322 E= 7.9e-004 0.042019 0.056055 0.901830 0.000095 0.000095 0.870387 0.049068 0.080449 0.045513 0.842436 0.017626 0.094424 0.028045 0.010637 0.940261 0.021057 0.017564 0.908818 0.010637 0.062981 0.007083 0.845931 0.035093 0.111894 0.042019 0.052561 0.884362 0.021057 0.003589 0.947248 0.014131 0.035032 0.014070 0.863399 0.017625 0.104906 0.000095 0.017625 0.954235 0.028045 0.045513 0.859907 0.003650 0.090930 0.028045 0.774609 0.077017 0.120330 0.101411 0.056055 0.793528 0.049007 0.000095 0.922792 0.000157 0.076956 0.024551 0.797020 0.014131 0.164298 0.076956 0.066536 0.695705 0.160803 0.035032 0.835451 0.038587 0.090930 0.045513 0.727082 0.104966 0.122439 0.024551 0.176289 0.708229 0.090931 0.045516 0.756841 0.110207 0.087437 MOTIF 11-CAGCCCCG STREME-11 letter-probability matrix: alength= 4 w= 8 nsites= 836 E= 8.6e-004 0.082942 0.886471 0.019356 0.011231 0.998461 0.000590 0.000590 0.000360 0.088123 0.021741 0.817594 0.072542 0.062972 0.903734 0.000590 0.032704 0.027706 0.778463 0.090997 0.102834 0.043970 0.891367 0.002120 0.062544 0.000360 0.998691 0.000590 0.000360 0.000360 0.000590 0.998691 0.000360 MOTIF 12-AGTGCAGTGGYRCR STREME-12 letter-probability matrix: alength= 4 w= 14 nsites= 182 E= 5.1e-003 0.980759 0.000277 0.012623 0.006342 0.037207 0.000277 0.956174 0.006342 0.000169 0.000277 0.018796 0.980759 0.037207 0.000277 0.962347 0.000169 0.018688 0.937655 0.012623 0.031034 0.925199 0.043488 0.031145 0.000169 0.197715 0.018796 0.783320 0.000169 0.000169 0.000277 0.000277 0.999278 0.012515 0.000277 0.974694 0.012515 0.006342 0.000277 0.993213 0.000169 0.008904 0.651096 0.000277 0.339724 0.397843 0.000277 0.564674 0.037207 0.031035 0.673234 0.027531 0.268200 0.352074 0.055836 0.554883 0.037207 MOTIF 13-AAAAATAC STREME-13 letter-probability matrix: alength= 4 w= 8 nsites= 245 E= 1.1e-002 0.926309 0.028236 0.028236 0.017218 0.926309 0.028236 0.028236 0.017218 0.926309 0.028236 0.028236 0.017218 0.926309 0.028236 0.028236 0.017218 0.926309 0.028236 0.028236 0.017218 0.017218 0.028236 0.028236 0.926309 0.926309 0.028236 0.028236 0.017218 0.017218 0.937327 0.028236 0.017218 MOTIF 14-CTCGAWCTCCTGAC STREME-14 letter-probability matrix: alength= 4 w= 14 nsites= 96 E= 2.6e-002 0.011394 0.965623 0.000497 0.022486 0.000303 0.022680 0.000497 0.976520 0.000303 0.777045 0.000497 0.222155 0.144493 0.000497 0.810341 0.044669 0.976520 0.000497 0.022680 0.000303 0.610407 0.022680 0.011588 0.355325 0.000303 0.965623 0.000497 0.033577 0.033577 0.022680 0.000497 0.943246 0.033577 0.876892 0.022680 0.066851 0.000303 0.910165 0.022680 0.066852 0.000303 0.044862 0.022680 0.932155 0.000303 0.011588 0.987805 0.000303 0.876697 0.000497 0.089229 0.033577 0.000303 0.821433 0.111412 0.066852 MOTIF 15-CGGGGACCC STREME-15 letter-probability matrix: alength= 4 w= 9 nsites= 448 E= 1.5e-001 0.000357 0.930969 0.000586 0.068088 0.000357 0.259013 0.740272 0.000357 0.021668 0.021336 0.946379 0.010617 0.008957 0.022485 0.935788 0.032770 0.047294 0.015329 0.929950 0.007428 0.998470 0.000586 0.000586 0.000357 0.001196 0.942608 0.000586 0.055610 0.009581 0.844785 0.087301 0.058334 0.045783 0.874804 0.034473 0.044940 MOTIF 16-CGCCCCCTCCC STREME-16 letter-probability matrix: alength= 4 w= 11 nsites= 157 E= 1.7e-001 0.079006 0.895008 0.000630 0.025356 0.036120 0.000630 0.962866 0.000384 0.000384 0.919639 0.022226 0.057750 0.034350 0.924308 0.004943 0.036398 0.009982 0.922769 0.033747 0.033501 0.014447 0.973713 0.008290 0.003550 0.014447 0.886691 0.006466 0.092395 0.020180 0.000630 0.036310 0.942879 0.028511 0.901711 0.013131 0.056648 0.068326 0.914687 0.002539 0.014447 0.049285 0.898392 0.006204 0.046119 MOTIF 17-CAAAGTGCTG STREME-17 letter-probability matrix: alength= 4 w= 10 nsites= 48 E= 2.1e-001 0.000735 0.997326 0.001205 0.000735 0.958817 0.001205 0.028088 0.011891 0.996856 0.001205 0.001205 0.000735 0.840094 0.028088 0.131084 0.000735 0.000735 0.001205 0.997326 0.000735 0.000735 0.001205 0.001205 0.996856 0.027617 0.001205 0.970443 0.000735 0.054502 0.809135 0.081860 0.054502 0.000735 0.001205 0.001205 0.996856 0.015265 0.001205 0.982795 0.000735 MOTIF 18-AGGAAG STREME-18 letter-probability matrix: alength= 4 w= 6 nsites= 954 E= 5.1e-001 0.926309 0.028236 0.028236 0.017218 0.017218 0.028236 0.937327 0.017218 0.017218 0.028236 0.937327 0.017218 0.926309 0.028236 0.028236 0.017218 0.926309 0.028236 0.028236 0.017218 0.017218 0.028236 0.937327 0.017218 MOTIF 19-AGACCCCRG STREME-19 letter-probability matrix: alength= 4 w= 9 nsites= 296 E= 5.6e-001 0.754422 0.174016 0.045698 0.025864 0.047178 0.027847 0.911039 0.013936 0.976880 0.000520 0.000520 0.022080 0.000317 0.982458 0.000520 0.016704 0.000317 0.963253 0.007353 0.029076 0.000317 0.949989 0.032439 0.017255 0.000317 0.980473 0.014139 0.005070 0.512523 0.201685 0.271421 0.014371 0.056233 0.116539 0.804311 0.022917 MOTIF 20-CCCCGCCCCSR STREME-20 letter-probability matrix: alength= 4 w= 11 nsites= 1184 E= 6.9e-001 0.000055 0.999801 0.000090 0.000055 0.016238 0.907577 0.076131 0.000055 0.000055 0.999801 0.000090 0.000055 0.000055 0.989921 0.000090 0.009935 0.181163 0.000090 0.656121 0.162626 0.155157 0.659816 0.087179 0.097848 0.107858 0.835092 0.056995 0.000055 0.036048 0.933011 0.007553 0.023388 0.000055 0.999801 0.000090 0.000055 0.094130 0.547327 0.288526 0.070017 0.394034 0.149788 0.420741 0.035438 MOTIF 21-AGGGAGGGAGVGAGGGAGVG STREME-21 letter-probability matrix: alength= 4 w= 20 nsites= 84 E= 9.4e-001 0.826027 0.160760 0.000552 0.012660 0.012660 0.000552 0.986451 0.000337 0.148224 0.197731 0.616738 0.037308 0.086602 0.000552 0.875538 0.037308 0.986235 0.000552 0.000552 0.012660 0.061955 0.000552 0.887861 0.049631 0.160547 0.234702 0.518148 0.086602 0.012660 0.037523 0.949480 0.000337 0.826027 0.025200 0.148436 0.000337 0.123573 0.000552 0.826243 0.049631 0.222166 0.345615 0.357941 0.074279 0.246810 0.074494 0.666035 0.012660 0.838351 0.062171 0.049847 0.049631 0.049631 0.025200 0.924832 0.000337 0.234489 0.197731 0.481177 0.086602 0.074279 0.136113 0.789272 0.000337 0.739762 0.099142 0.136113 0.024984 0.123574 0.012876 0.826242 0.037308 0.357727 0.296321 0.210055 0.135897 0.135898 0.099142 0.764624 0.000337 MOTIF 22-AAAAGAAAARAAA STREME-22 letter-probability matrix: alength= 4 w= 13 nsites= 321 E= 9.5e-001 0.933582 0.000249 0.011368 0.054801 0.891416 0.044724 0.035912 0.027948 0.902972 0.037312 0.020649 0.039067 0.917906 0.000249 0.016928 0.064917 0.209196 0.221190 0.470310 0.099304 0.890243 0.025569 0.056239 0.027949 0.924299 0.000249 0.000249 0.075203 0.813851 0.064181 0.028046 0.093922 0.999350 0.000249 0.000249 0.000152 0.247933 0.208375 0.442393 0.101299 0.762110 0.092174 0.009359 0.136357 0.924440 0.019707 0.016927 0.038926 0.977113 0.016927 0.000249 0.005711 MOTIF 23-CACTTCCGGY STREME-23 letter-probability matrix: alength= 4 w= 10 nsites= 119 E= 1.0e+000 0.000397 0.998555 0.000651 0.000397 0.998301 0.000651 0.000651 0.000397 0.000397 0.998555 0.000651 0.000397 0.000397 0.000651 0.086033 0.912919 0.014927 0.000651 0.000651 0.983770 0.000397 0.998555 0.000651 0.000397 0.000397 0.998555 0.000651 0.000397 0.000397 0.000651 0.733101 0.265851 0.043989 0.114592 0.818363 0.023055 0.043991 0.486835 0.156983 0.312190 MOTIF 24-GCCCGGCCCGGCCCGGCCSC STREME-24 letter-probability matrix: alength= 4 w= 20 nsites= 94 E= 1.2e+000 0.049218 0.000439 0.950076 0.000268 0.019848 0.959866 0.010229 0.010058 0.000268 0.930496 0.000439 0.068798 0.010058 0.901126 0.078759 0.010058 0.010058 0.029809 0.950076 0.010058 0.068798 0.039599 0.861965 0.029638 0.000268 0.950076 0.029809 0.019848 0.000268 0.803225 0.088549 0.107958 0.010058 0.813015 0.127710 0.049218 0.010058 0.166870 0.666164 0.156909 0.088378 0.215821 0.666163 0.029638 0.029638 0.832595 0.117919 0.019848 0.000268 0.734694 0.225610 0.039428 0.039428 0.842385 0.049389 0.068798 0.059008 0.225611 0.715114 0.000268 0.019848 0.215820 0.715114 0.049218 0.010058 0.803224 0.147290 0.039428 0.039428 0.744485 0.127710 0.088378 0.049218 0.303931 0.578053 0.068798 0.039428 0.822805 0.088549 0.049218 MOTIF 25-AGACRGRGTYTCACY STREME-25 letter-probability matrix: alength= 4 w= 15 nsites= 61 E= 1.7e+000 0.921048 0.077568 0.000859 0.000524 0.000524 0.020037 0.978915 0.000524 0.921048 0.077568 0.000859 0.000524 0.000524 0.633723 0.211809 0.153944 0.441603 0.020037 0.499481 0.038880 0.058056 0.154278 0.787143 0.000524 0.345716 0.000859 0.652900 0.000524 0.000524 0.000859 0.883029 0.115588 0.000524 0.020037 0.000859 0.978580 0.000524 0.346052 0.000859 0.652565 0.000524 0.096746 0.000859 0.901871 0.000524 0.883029 0.115923 0.000524 0.710098 0.020037 0.154278 0.115588 0.058056 0.940561 0.000859 0.000524 0.019701 0.422771 0.000859 0.556668 MOTIF 26-CAGAGCCCGGG STREME-26 letter-probability matrix: alength= 4 w= 11 nsites= 124 E= 2.5e+000 0.000360 0.998689 0.000591 0.000360 0.998458 0.000591 0.000591 0.000360 0.000360 0.000591 0.998689 0.000360 0.703667 0.295382 0.000591 0.000360 0.000360 0.000591 0.932758 0.066291 0.224526 0.640968 0.134146 0.000360 0.000360 0.919576 0.000591 0.079473 0.000360 0.998689 0.000591 0.000360 0.116930 0.195792 0.686918 0.000360 0.000360 0.076948 0.816846 0.105846 0.039919 0.000591 0.959130 0.000360 MOTIF 27-GCCTGTAATCC STREME-27 letter-probability matrix: alength= 4 w= 11 nsites= 49 E= 6.7e+000 0.095540 0.001063 0.855307 0.048090 0.000648 0.926475 0.001063 0.071814 0.000648 0.950199 0.001063 0.048090 0.000648 0.024783 0.001063 0.973506 0.071814 0.001063 0.926475 0.000648 0.000648 0.048505 0.001063 0.949784 0.997226 0.001063 0.001063 0.000648 0.878607 0.001063 0.119682 0.000648 0.000648 0.001063 0.001063 0.997226 0.000648 0.997641 0.001063 0.000648 0.048090 0.950199 0.001063 0.000648 ******************************************************************************** Stopped because 3 consecutive motifs exceeded the p-value threshold (0.05). ******************************************************************************** COMMAND: streme --verbosity 1 --oc /scratch/jngalang/MotifAnalysis/MemeChipOutput/GRCh38-107_AZ_exp1_d1_LPS_TRIM1_4_peaks/streme_out -dna --p /scratch/jngalang/MotifAnalysis/MemeChipOutput/GRCh38-107_AZ_exp1_d1_LPS_TRIM1_4_peaks/seqs-centered --minw 5 --maxw 20 --order 2 ******************************************************************************** CPU: cn45 ******************************************************************************** FINALTIME: 546.76 seconds ********************************************************************************