******************************************************************************** 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 0.185 C 0.315 G 0.315 T 0.185 MOTIF 1-CTGTAATCCCAGCW STREME-1 letter-probability matrix: alength= 4 w= 14 nsites= 507 E= 4.3e-013 0.000058 0.960935 0.000098 0.038910 0.004374 0.002256 0.002256 0.991113 0.069136 0.006573 0.922075 0.002216 0.002216 0.025999 0.002256 0.969529 0.969525 0.006573 0.021687 0.002216 0.766339 0.006574 0.227030 0.000058 0.002216 0.019523 0.000098 0.978163 0.006533 0.956619 0.002256 0.034592 0.010849 0.935034 0.002256 0.051860 0.010849 0.913445 0.000098 0.075608 0.978163 0.002256 0.017365 0.002216 0.066987 0.008731 0.924224 0.000058 0.013008 0.965254 0.008731 0.013007 0.506854 0.019526 0.002256 0.471364 MOTIF 2-GCCTCRGCCTCCCRA STREME-2 letter-probability matrix: alength= 4 w= 15 nsites= 714 E= 1.4e-012 0.240976 0.010707 0.719401 0.028916 0.000041 0.818915 0.001589 0.179456 0.000041 0.972494 0.001589 0.025877 0.000041 0.006148 0.000069 0.993742 0.000041 0.821943 0.000069 0.177947 0.525566 0.070753 0.371722 0.031958 0.202256 0.000069 0.794595 0.003080 0.124724 0.785481 0.010707 0.079087 0.003080 0.932218 0.000069 0.064633 0.006119 0.000069 0.000069 0.993742 0.003080 0.964895 0.003108 0.028916 0.010679 0.952737 0.006148 0.030435 0.018278 0.675984 0.009188 0.296550 0.496728 0.044774 0.432621 0.025877 0.844910 0.000069 0.154981 0.000041 MOTIF 3-CAGCCTGGSCAACA STREME-3 letter-probability matrix: alength= 4 w= 14 nsites= 488 E= 2.1e-011 0.022604 0.920872 0.009120 0.047404 0.979445 0.000102 0.004611 0.015841 0.033876 0.015883 0.855444 0.094796 0.004569 0.959197 0.013629 0.022605 0.015841 0.936655 0.022646 0.024858 0.006823 0.018138 0.006866 0.968174 0.049658 0.009120 0.934399 0.006823 0.097061 0.011374 0.882487 0.009078 0.027115 0.385978 0.559794 0.027113 0.018096 0.785419 0.022646 0.173839 0.747038 0.020392 0.218983 0.013587 0.956902 0.020392 0.013629 0.009078 0.018096 0.905089 0.036173 0.040643 0.959156 0.018137 0.013629 0.009078 MOTIF 4-WTTTTTWKTWGAGACRGRGT STREME-4 letter-probability matrix: alength= 4 w= 20 nsites= 417 E= 5.5e-010 0.529207 0.005201 0.040803 0.424788 0.061100 0.028088 0.017916 0.892896 0.050928 0.025545 0.038260 0.885267 0.035670 0.020459 0.010287 0.933584 0.025498 0.012830 0.002658 0.959014 0.017869 0.012830 0.015373 0.953928 0.483435 0.007744 0.043347 0.465474 0.038213 0.005201 0.549600 0.406985 0.010240 0.025545 0.000116 0.964100 0.615670 0.000116 0.028088 0.356126 0.028040 0.023002 0.920917 0.028040 0.984443 0.002658 0.012830 0.000068 0.033126 0.002658 0.953975 0.010240 0.956470 0.000116 0.023002 0.020412 0.015326 0.656388 0.010287 0.317999 0.401913 0.012831 0.572474 0.012783 0.073814 0.020459 0.877686 0.028041 0.320527 0.015373 0.620801 0.043299 0.045841 0.023003 0.875143 0.056013 0.000068 0.023002 0.028088 0.948842 MOTIF 5-CAAGTGATYCTCCY STREME-5 letter-probability matrix: alength= 4 w= 14 nsites= 379 E= 3.8e-007 0.002926 0.971223 0.002979 0.022873 0.902757 0.000129 0.011527 0.085586 0.660482 0.091338 0.242405 0.005775 0.020023 0.005828 0.965524 0.008625 0.014324 0.285181 0.000129 0.700366 0.108391 0.022926 0.857208 0.011474 0.988267 0.002979 0.008678 0.000076 0.002926 0.020076 0.002979 0.974020 0.005775 0.634778 0.002979 0.356468 0.002926 0.869541 0.005828 0.121705 0.239503 0.008678 0.215816 0.536004 0.000076 0.934175 0.000129 0.065619 0.008625 0.919930 0.022927 0.048518 0.017174 0.384897 0.005828 0.592101 MOTIF 6-GGCGGCGGCGGCGGCG STREME-6 letter-probability matrix: alength= 4 w= 16 nsites= 611 E= 4.6e-007 0.055071 0.144608 0.799037 0.001284 0.025142 0.000088 0.974719 0.000052 0.063087 0.927124 0.000088 0.009702 0.027874 0.000088 0.927596 0.044442 0.040582 0.006107 0.928170 0.025142 0.124375 0.757280 0.088378 0.029967 0.043313 0.030640 0.896245 0.029803 0.045243 0.000088 0.954618 0.000052 0.009702 0.863225 0.060227 0.066846 0.054895 0.083994 0.861060 0.000052 0.090762 0.087575 0.798451 0.023212 0.060683 0.746829 0.117164 0.075324 0.058754 0.082107 0.755622 0.103516 0.049103 0.121724 0.794382 0.034792 0.009702 0.733883 0.237064 0.019352 0.148770 0.062256 0.686399 0.102575 MOTIF 7-AAAATTAGCCRGGCGT STREME-7 letter-probability matrix: alength= 4 w= 16 nsites= 281 E= 9.2e-006 0.981959 0.004580 0.000199 0.013261 0.986341 0.004580 0.008962 0.000117 0.964434 0.008962 0.017724 0.008880 0.968815 0.004580 0.022106 0.004498 0.008880 0.026488 0.008962 0.955671 0.004498 0.017724 0.017724 0.960053 0.977578 0.000199 0.022106 0.000117 0.008880 0.008962 0.946990 0.035168 0.008880 0.960134 0.004580 0.026406 0.017643 0.697092 0.000199 0.285066 0.429659 0.013343 0.526211 0.030787 0.048314 0.013343 0.938226 0.000117 0.039551 0.013343 0.942608 0.004498 0.017642 0.714673 0.008962 0.258723 0.306929 0.013343 0.662086 0.017642 0.008880 0.030869 0.000199 0.960052 MOTIF 8-GAGTGCAGTGGCR STREME-8 letter-probability matrix: alength= 4 w= 13 nsites= 181 E= 4.7e-005 0.034499 0.008360 0.956988 0.000153 0.964979 0.000260 0.028884 0.005877 0.023052 0.011709 0.959363 0.005877 0.000153 0.005984 0.005984 0.987878 0.023050 0.011709 0.953640 0.011601 0.005877 0.953638 0.000260 0.040225 0.987878 0.005984 0.005984 0.000153 0.114668 0.005984 0.873470 0.005877 0.000153 0.011709 0.005984 0.982154 0.023051 0.005984 0.953639 0.017326 0.040227 0.017433 0.930739 0.011601 0.011601 0.718871 0.005984 0.263543 0.338274 0.028882 0.621242 0.011601 MOTIF 9-CAGTGAGCCGAGATCG STREME-9 letter-probability matrix: alength= 4 w= 16 nsites= 222 E= 9.4e-005 0.010278 0.928500 0.000230 0.060992 0.867547 0.025587 0.081374 0.025492 0.050850 0.005302 0.928499 0.015350 0.005207 0.005302 0.005302 0.984190 0.045778 0.005302 0.948785 0.000135 0.989261 0.000230 0.010373 0.000135 0.045779 0.005302 0.943713 0.005207 0.005207 0.979213 0.000230 0.015350 0.030565 0.629243 0.030659 0.309533 0.284173 0.020516 0.690104 0.005207 0.842189 0.005302 0.020516 0.131993 0.020421 0.000230 0.979213 0.000135 0.968976 0.005302 0.020516 0.005207 0.000135 0.030659 0.005302 0.963904 0.035635 0.603915 0.076307 0.284143 0.233455 0.030659 0.710393 0.025492 MOTIF 10-GCRTGAGCCAC STREME-10 letter-probability matrix: alength= 4 w= 11 nsites= 261 E= 1.1e-003 0.004561 0.000202 0.995118 0.000119 0.013447 0.751477 0.000202 0.234874 0.329239 0.000202 0.652668 0.017891 0.000119 0.000202 0.000202 0.999478 0.053434 0.009087 0.937361 0.000119 0.793413 0.070545 0.000202 0.135840 0.031218 0.000202 0.968461 0.000119 0.000119 0.999561 0.000202 0.000119 0.000119 0.977347 0.000202 0.022333 0.999478 0.000202 0.000202 0.000119 0.000119 0.975503 0.000202 0.024176 MOTIF 11-CAAGATGGYGA STREME-11 letter-probability matrix: alength= 4 w= 11 nsites= 147 E= 1.9e-003 0.012718 0.800277 0.116993 0.070013 0.947301 0.000237 0.026279 0.026183 0.832318 0.104411 0.010654 0.052617 0.047019 0.295377 0.615793 0.041810 0.924306 0.005445 0.021071 0.049178 0.020974 0.014977 0.010654 0.953396 0.093008 0.015862 0.885782 0.005348 0.056549 0.036697 0.870156 0.036599 0.093009 0.593687 0.005445 0.307858 0.094013 0.077481 0.728124 0.100382 0.607300 0.061856 0.292083 0.038761 MOTIF 12-CCCMGMCCC STREME-12 letter-probability matrix: alength= 4 w= 9 nsites= 1352 E= 1.9e-003 0.000128 0.999528 0.000217 0.000128 0.000128 0.916730 0.083015 0.000128 0.069450 0.888285 0.000217 0.042049 0.467321 0.532334 0.000217 0.000128 0.163943 0.000217 0.705790 0.130050 0.362921 0.636735 0.000217 0.000128 0.108896 0.890760 0.000217 0.000128 0.000128 0.999528 0.000217 0.000128 0.000128 0.999528 0.000217 0.000128 MOTIF 13-AACCCRGGAGGCGGAGSTTG STREME-13 letter-probability matrix: alength= 4 w= 20 nsites= 93 E= 2.6e-002 0.973579 0.000567 0.025521 0.000333 0.886239 0.025521 0.087907 0.000333 0.000333 0.948858 0.013044 0.037765 0.012810 0.948858 0.000567 0.037765 0.000333 0.774178 0.000567 0.224922 0.337216 0.025521 0.574541 0.062722 0.100150 0.013044 0.861518 0.025287 0.050242 0.050475 0.886473 0.012810 0.911193 0.050475 0.013044 0.025287 0.100150 0.000567 0.898950 0.000333 0.050242 0.037998 0.861518 0.050242 0.012810 0.674360 0.037998 0.274831 0.224922 0.000567 0.724270 0.050242 0.025287 0.013044 0.936381 0.025287 0.923670 0.000567 0.062953 0.012810 0.100150 0.013044 0.873995 0.012810 0.025287 0.324998 0.611950 0.037765 0.012810 0.162770 0.013044 0.811376 0.000333 0.013044 0.000567 0.986056 0.025287 0.000567 0.898950 0.075196 MOTIF 14-AGAYRGRGTYTCACY STREME-14 letter-probability matrix: alength= 4 w= 15 nsites= 74 E= 5.2e-002 0.965927 0.000731 0.000731 0.032611 0.000430 0.000731 0.998410 0.000430 0.933745 0.000731 0.065094 0.000430 0.000430 0.580035 0.032913 0.386623 0.450986 0.000731 0.515671 0.032611 0.129157 0.016822 0.853591 0.000430 0.386619 0.000731 0.612221 0.000430 0.048702 0.000731 0.934047 0.016520 0.032611 0.016822 0.000731 0.949836 0.000430 0.451291 0.000731 0.547549 0.016520 0.000731 0.000731 0.982018 0.016520 0.789227 0.016822 0.177431 0.740651 0.016822 0.226006 0.016520 0.000430 0.982319 0.000731 0.016520 0.000430 0.467396 0.000731 0.531443 MOTIF 15-ACGTCATTS STREME-15 letter-probability matrix: alength= 4 w= 9 nsites= 175 E= 3.8e-001 0.917281 0.007375 0.049706 0.025638 0.009571 0.964368 0.004133 0.021927 0.056083 0.000977 0.878583 0.064357 0.056311 0.176804 0.003248 0.763637 0.036440 0.886061 0.077311 0.000188 0.743457 0.089686 0.128467 0.038390 0.113720 0.123620 0.008733 0.753926 0.021351 0.135506 0.051406 0.791737 0.040225 0.321775 0.583643 0.054356 MOTIF 16-TACTAAAAATACA STREME-16 letter-probability matrix: alength= 4 w= 13 nsites= 39 E= 4.2e-001 0.000857 0.001458 0.001458 0.996226 0.996226 0.001458 0.001458 0.000857 0.161343 0.772147 0.033555 0.032954 0.000857 0.001458 0.001458 0.996226 0.964129 0.001458 0.033555 0.000857 0.964129 0.033555 0.001458 0.000857 0.899935 0.001458 0.001458 0.097149 0.932032 0.001458 0.033555 0.032954 0.964129 0.033555 0.001458 0.000857 0.000857 0.033555 0.001458 0.964129 0.932032 0.001458 0.065653 0.000857 0.000857 0.740050 0.065653 0.193440 0.835740 0.001458 0.001458 0.161343 MOTIF 17-AATCCCAGCACT STREME-17 letter-probability matrix: alength= 4 w= 12 nsites= 25 E= 4.2e-001 0.883320 0.057604 0.002503 0.056572 0.993522 0.002503 0.002503 0.001471 0.001471 0.057604 0.002503 0.938421 0.056572 0.884352 0.057604 0.001471 0.001471 0.994554 0.002503 0.001471 0.001471 0.994554 0.002503 0.001471 0.993522 0.002503 0.002503 0.001471 0.111678 0.002503 0.884347 0.001471 0.001471 0.994554 0.002503 0.001471 0.993522 0.002503 0.002503 0.001471 0.001471 0.939453 0.002503 0.056572 0.001471 0.002503 0.002503 0.993522 MOTIF 18-CCCGGCCCGGCC STREME-18 letter-probability matrix: alength= 4 w= 12 nsites= 754 E= 4.7e-001 0.009099 0.965443 0.000100 0.025358 0.009052 0.814652 0.009994 0.166302 0.006652 0.876396 0.112507 0.004445 0.111574 0.042448 0.676378 0.169600 0.027213 0.010796 0.961932 0.000059 0.005289 0.994553 0.000100 0.000059 0.050829 0.727640 0.045607 0.175925 0.024278 0.902556 0.001039 0.072126 0.122648 0.141085 0.557110 0.179158 0.008457 0.024943 0.959004 0.007596 0.085823 0.614835 0.255357 0.043985 0.055485 0.682624 0.149904 0.111986 MOTIF 19-AGGTCAGGAGTTYGA STREME-19 letter-probability matrix: alength= 4 w= 15 nsites= 63 E= 8.4e-001 0.997943 0.000795 0.000795 0.000467 0.070466 0.018294 0.875773 0.035466 0.035466 0.193291 0.753276 0.017967 0.017967 0.228290 0.018294 0.735449 0.000467 0.980771 0.018294 0.000467 0.980443 0.000795 0.018294 0.000467 0.052965 0.000795 0.945772 0.000467 0.087964 0.088292 0.788278 0.035466 0.787946 0.000795 0.158294 0.052965 0.000467 0.018294 0.980771 0.000467 0.122964 0.000795 0.000795 0.875446 0.000467 0.000795 0.000795 0.997943 0.000467 0.648277 0.018294 0.332961 0.280458 0.053293 0.665781 0.000467 0.910444 0.070794 0.018294 0.000467 MOTIF 20-AGCAGCAGCAGCAGVMRCA STREME-20 letter-probability matrix: alength= 4 w= 19 nsites= 63 E= 8.4e-001 0.805970 0.077581 0.077581 0.038867 0.077222 0.058404 0.806329 0.058045 0.019690 0.959749 0.000871 0.019690 0.882680 0.039226 0.058404 0.019690 0.019690 0.000871 0.902217 0.077222 0.038867 0.940572 0.000871 0.019690 0.825147 0.077581 0.039226 0.058045 0.077222 0.077581 0.825507 0.019690 0.058045 0.883039 0.058404 0.000512 0.786792 0.096759 0.039226 0.077222 0.019690 0.058404 0.863862 0.058045 0.019690 0.921394 0.039226 0.019690 0.690905 0.096759 0.154292 0.058045 0.077222 0.058404 0.787152 0.077222 0.268998 0.346068 0.326890 0.058045 0.479952 0.250179 0.173469 0.096400 0.518306 0.077581 0.365246 0.038867 0.038867 0.767974 0.135114 0.058045 0.690904 0.020049 0.173470 0.115577 MOTIF 21-GAGGAGGAGGAGGAG STREME-21 letter-probability matrix: alength= 4 w= 15 nsites= 111 E= 8.7e-001 0.182645 0.038835 0.778264 0.000256 0.950874 0.038834 0.010036 0.000256 0.029055 0.067632 0.903057 0.000256 0.138632 0.000436 0.860675 0.000256 0.941273 0.048435 0.010036 0.000256 0.000256 0.125229 0.826261 0.048253 0.000256 0.010036 0.951054 0.038654 0.860495 0.048434 0.004420 0.086651 0.177032 0.202025 0.620687 0.000256 0.115450 0.000436 0.883857 0.000256 0.816482 0.067632 0.000436 0.115449 0.077053 0.048434 0.835860 0.038654 0.057853 0.086831 0.855059 0.000256 0.710887 0.115630 0.134829 0.038654 0.134650 0.038834 0.816661 0.009856 MOTIF 22-AAAAASAAAARAAAA STREME-22 letter-probability matrix: alength= 4 w= 15 nsites= 85 E= 8.7e-001 0.844877 0.018441 0.124411 0.012272 0.872127 0.018443 0.091103 0.018327 0.853963 0.036606 0.085048 0.024382 0.932681 0.054772 0.012385 0.000162 0.981123 0.006330 0.006330 0.006217 0.068607 0.353997 0.514166 0.063231 0.809064 0.069395 0.012385 0.109155 0.969012 0.000275 0.018441 0.012272 0.905432 0.036607 0.033579 0.024382 0.811572 0.054776 0.127436 0.006217 0.491340 0.181933 0.302345 0.024382 0.706121 0.214722 0.030551 0.048606 0.819423 0.042775 0.107364 0.030438 0.762805 0.069700 0.124947 0.042548 0.847907 0.054772 0.072938 0.024382 MOTIF 23-CACTTCCT STREME-23 letter-probability matrix: alength= 4 w= 8 nsites= 212 E= 1.0e+000 0.046290 0.676855 0.199937 0.076918 0.997854 0.000829 0.000829 0.000487 0.000487 0.987442 0.011584 0.000487 0.000487 0.000829 0.030535 0.968148 0.009524 0.000829 0.000829 0.988817 0.010788 0.950658 0.038067 0.000487 0.074961 0.890095 0.019085 0.015860 0.000487 0.000829 0.276769 0.721915 MOTIF 24-GTCCCCR STREME-24 letter-probability matrix: alength= 4 w= 7 nsites= 1670 E= 1.3e+000 0.000319 0.000544 0.930788 0.068349 0.080860 0.000544 0.000544 0.918053 0.000319 0.865680 0.000544 0.133457 0.000319 0.953955 0.000544 0.045182 0.000319 0.998818 0.000544 0.000319 0.000319 0.885625 0.063917 0.050138 0.625067 0.000544 0.374070 0.000319 MOTIF 25-CAAGGTCACA STREME-25 letter-probability matrix: alength= 4 w= 10 nsites= 92 E= 1.5e+000 0.000368 0.943527 0.041960 0.014145 0.957050 0.000626 0.000626 0.041699 0.888161 0.110845 0.000626 0.000368 0.027923 0.014403 0.957306 0.000368 0.027922 0.000626 0.896480 0.074972 0.000368 0.055747 0.044619 0.899266 0.000368 0.826409 0.172855 0.000368 0.965104 0.033902 0.000626 0.000368 0.004494 0.909192 0.000626 0.085688 0.528415 0.103970 0.182404 0.185210 MOTIF 26-CTGTARTCC STREME-26 letter-probability matrix: alength= 4 w= 9 nsites= 63 E= 3.9e+000 0.000602 0.940454 0.035782 0.023162 0.000602 0.001025 0.001025 0.997348 0.090844 0.001025 0.907529 0.000602 0.000602 0.001025 0.001025 0.997348 0.997348 0.001025 0.001025 0.000602 0.541662 0.001025 0.456710 0.000602 0.000602 0.001025 0.001025 0.997348 0.068283 0.930090 0.001025 0.000602 0.170747 0.759945 0.068705 0.000602 MOTIF 27-CGGCGCCTCCTC STREME-27 letter-probability matrix: alength= 4 w= 12 nsites= 37 E= 2.2e+001 0.000796 0.997054 0.001354 0.000796 0.000796 0.020762 0.977647 0.000796 0.030599 0.120584 0.818218 0.030599 0.000796 0.877833 0.090772 0.030599 0.000796 0.073339 0.925069 0.000796 0.000796 0.917236 0.051369 0.030599 0.000796 0.972317 0.013723 0.013164 0.030599 0.001354 0.001354 0.966693 0.000796 0.925076 0.013723 0.060405 0.000796 0.967251 0.031157 0.000796 0.030599 0.001354 0.001354 0.966693 0.000796 0.925076 0.013723 0.060405 ******************************************************************************** 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_d6_LPS_TRIM1_8_peaks/streme_out -dna --p /scratch/jngalang/MotifAnalysis/MemeChipOutput/GRCh38-107_AZ_exp1_d6_LPS_TRIM1_8_peaks/seqs-centered --minw 5 --maxw 20 --order 2 ******************************************************************************** CPU: cn45 ******************************************************************************** FINALTIME: 427.35 seconds ********************************************************************************