******************************************************************************** MEME - Motif discovery tool ******************************************************************************** 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 and Charles Elkan, "Fitting a mixture model by expectation maximization to discover motifs in biopolymers", Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, pp. 28-36, AAAI Press, Menlo Park, California, 1994. ******************************************************************************** ******************************************************************************** TRAINING SET ******************************************************************************** PRIMARY SEQUENCES= /scratch/jngalang/MotifAnalysis/NewMemeChip/GRCh38-107_AZ_exp1_d1_beta_glu_TRIM1_2_peaks/seqs-centered CONTROL SEQUENCES= --none-- ALPHABET= ACGT ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme /scratch/jngalang/MotifAnalysis/NewMemeChip/GRCh38-107_AZ_exp1_d1_beta_glu_TRIM1_2_peaks/seqs-centered -oc /scratch/jngalang/MotifAnalysis/NewMemeChip/GRCh38-107_AZ_exp1_d1_beta_glu_TRIM1_2_peaks/meme_out -mod zoops -nmotifs 10 -minw 6 -maxw 15 -bfile /scratch/jngalang/MotifAnalysis/NewMemeChip/GRCh38-107_AZ_exp1_d1_beta_glu_TRIM1_2_peaks/background -dna -revcomp -nostatus model: mod= zoops nmotifs= 10 evt= inf objective function: em= E-value of product of p-values starts= E-value of product of p-values strands: + - width: minw= 6 maxw= 15 nsites: minsites= 2 maxsites= 16853 wnsites= 0.8 theta: spmap= uni spfuzz= 0.5 em: prior= dirichlet b= 0.01 maxiter= 50 distance= 1e-05 trim: wg= 11 ws= 1 endgaps= yes data: n= 1685300 N= 16853 sample: seed= 0 hsfrac= 0 searchsize= 100000 norand= no csites= 1000 Letter frequencies in dataset: A 0.201 C 0.299 G 0.299 T 0.201 Background letter frequencies (from file /scratch/jngalang/MotifAnalysis/NewMemeChip/GRCh38-107_AZ_exp1_d1_beta_glu_TRIM1_2_peaks/background): A 0.198 C 0.302 G 0.302 T 0.198 Background model order: 2 ******************************************************************************** ******************************************************************************** MOTIF AAAAAWAMAAAAAWW MEME-1 width = 15 sites = 2750 llr = 31862 E-value = 9.4e-302 ******************************************************************************** -------------------------------------------------------------------------------- Motif AAAAAWAMAAAAAWW MEME-1 Description -------------------------------------------------------------------------------- Simplified A 7887a4759877855 pos.-specific C 1::1:114::11:1: probability G :111::2::1111:: matrix T 2111:5111111145 bits 2.3 2.1 1.9 * 1.6 * * Relative 1.4 * * * Entropy 1.2 ** * ** * * (16.7 bits) 0.9 ***** * *** * * 0.7 *************** 0.5 *************** 0.2 *************** 0.0 --------------- Multilevel AAAAATAAAAAAAAA consensus A C TT sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAWAMAAAAAWW MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 1449358 bayes= 11.2347 E= 9.4e-302 184 -238 -279 -7 204 -770 -248 -62 202 -331 -142 -182 190 -174 -205 -101 227 -670 -389 -302 105 -194 -297 125 181 -245 -75 -144 119 50 -969 -69 213 -421 -870 -79 193 -811 -160 -48 186 -162 -153 -132 175 -145 -150 -76 198 -811 -123 -113 132 -169 -284 91 139 -538 -411 120 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAWAMAAAAAWW MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 2750 E= 9.4e-302 0.709455 0.057818 0.043636 0.189091 0.815273 0.001455 0.054182 0.129091 0.800364 0.030545 0.113091 0.056000 0.738545 0.090182 0.073091 0.098182 0.952364 0.002909 0.020364 0.024364 0.410545 0.078909 0.038545 0.472000 0.692364 0.055273 0.179636 0.072727 0.450909 0.425818 0.000364 0.122909 0.868000 0.016364 0.000727 0.114909 0.757091 0.001091 0.099636 0.142182 0.717455 0.098545 0.104727 0.079273 0.666545 0.110182 0.106545 0.116727 0.779636 0.001091 0.128727 0.090545 0.493091 0.093818 0.042182 0.370909 0.519273 0.007273 0.017455 0.456000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAWAMAAAAAWW MEME-1 regular expression -------------------------------------------------------------------------------- AAAAA[TA]A[AC]AAAAA[AT][AT] -------------------------------------------------------------------------------- Time 316.91 secs. ******************************************************************************** ******************************************************************************** MOTIF RARKWGCTGGGATTA MEME-2 width = 15 sites = 987 llr = 14957 E-value = 1.8e-120 ******************************************************************************** -------------------------------------------------------------------------------- Motif RARKWGCTGGGATTA MEME-2 Description -------------------------------------------------------------------------------- Simplified A 6a5:5:::1:1a::a pos.-specific C ::::::9:::::31: probability G 3:55:9::9a9:::: matrix T :::55::a::::79: bits 2.3 2.1 * * * * 1.9 * * * ** 1.6 * * * ** Relative 1.4 * ******* ** Entropy 1.2 * *********** (21.9 bits) 0.9 *** *********** 0.7 *************** 0.5 *************** 0.2 *************** 0.0 --------------- Multilevel AAATAGCTGGGATTA consensus G GGT C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RARKWGCTGGGATTA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 1449358 bayes= 12.7512 E= 1.8e-120 164 -331 9 -266 228 -590 -441 -344 134 -590 71 -1659 -248 -441 65 127 136 -452 -522 125 -257 -397 163 -403 -370 162 -463 -212 -336 -397 -822 228 -115 -822 159 -661 -266 -722 167 -561 -134 -822 159 -429 229 -1659 -363 -561 -480 -21 -663 188 -403 -258 -663 224 227 -622 -301 -661 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RARKWGCTGGGATTA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 987 E= 1.8e-120 0.617021 0.030395 0.321175 0.031408 0.962513 0.005066 0.014184 0.018237 0.502533 0.005066 0.492401 0.000000 0.035461 0.014184 0.473151 0.477204 0.508612 0.013171 0.008105 0.470111 0.033435 0.019250 0.935157 0.012158 0.015198 0.927052 0.012158 0.045593 0.019250 0.019250 0.001013 0.960486 0.089159 0.001013 0.907801 0.002026 0.031408 0.002026 0.962513 0.004053 0.078014 0.001013 0.910841 0.010132 0.971631 0.000000 0.024316 0.004053 0.007092 0.261398 0.003040 0.728470 0.012158 0.050659 0.003040 0.934144 0.956434 0.004053 0.037487 0.002026 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RARKWGCTGGGATTA MEME-2 regular expression -------------------------------------------------------------------------------- [AG]A[AG][TG][AT]GCTGGGA[TC]TA -------------------------------------------------------------------------------- Time 568.47 secs. ******************************************************************************** ******************************************************************************** MOTIF TGTTGSCCAGGCTGG MEME-3 width = 15 sites = 715 llr = 11344 E-value = 3.6e-112 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGTTGSCCAGGCTGG MEME-3 Description -------------------------------------------------------------------------------- Simplified A :1::2:::a::1::: pos.-specific C :::3:59a:::9::: probability G :9::74:::aa::a9 matrix T a:a7::1:::::a:: bits 2.3 * * * 2.1 * * * * 1.9 * * * * 1.6 * * ** * Relative 1.4 **** ***** *** Entropy 1.2 **** ********* (22.9 bits) 0.9 ***** ********* 0.7 ***** ********* 0.5 *************** 0.2 *************** 0.0 --------------- Multilevel TGTTGCCCAGGCTGG consensus CAG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTTGSCCAGGCTGG MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 1449358 bayes= 12.8654 E= 3.6e-112 -1613 -329 -1613 229 -165 -1613 161 -382 -415 -1613 -1613 232 -456 -27 -1613 190 15 -443 131 -356 -1613 80 54 -250 -1613 155 -1613 -81 -1613 168 -1613 -262 234 -1613 -1613 -1613 -239 -1613 167 -1613 -262 -543 167 -1613 -75 151 -1613 -298 -1613 -1613 -1613 234 -202 -1613 165 -1613 -256 -395 163 -415 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTTGSCCAGGCTGG MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 715 E= 3.6e-112 0.000000 0.030769 0.000000 0.969231 0.062937 0.000000 0.923077 0.013986 0.011189 0.000000 0.000000 0.988811 0.008392 0.250350 0.000000 0.741259 0.219580 0.013986 0.749650 0.016783 0.000000 0.527273 0.437762 0.034965 0.000000 0.886713 0.000000 0.113287 0.000000 0.967832 0.000000 0.032168 1.000000 0.000000 0.000000 0.000000 0.037762 0.000000 0.962238 0.000000 0.032168 0.006993 0.960839 0.000000 0.117483 0.857343 0.000000 0.025175 0.000000 0.000000 0.000000 1.000000 0.048951 0.000000 0.951049 0.000000 0.033566 0.019580 0.935664 0.011189 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTTGSCCAGGCTGG MEME-3 regular expression -------------------------------------------------------------------------------- TGT[TC][GA][CG]CCAGGCTGG -------------------------------------------------------------------------------- Time 818.00 secs. ******************************************************************************** ******************************************************************************** MOTIF GAGACRGGGTTTCRC MEME-4 width = 15 sites = 661 llr = 10119 E-value = 2.3e-092 ******************************************************************************** -------------------------------------------------------------------------------- Motif GAGACRGGGTTTCRC MEME-4 Description -------------------------------------------------------------------------------- Simplified A :a:a:4131::::6: pos.-specific C ::::7:::::3:8:9 probability G a:a::6979::::3: matrix T ::::3::::a7a21: bits 2.3 * * * 2.1 * * * * 1.9 * * * * 1.6 **** * * Relative 1.4 **** * ** * Entropy 1.2 **** * ***** * (22.1 bits) 0.9 ************* * 0.7 *************** 0.5 *************** 0.2 *************** 0.0 --------------- Multilevel GAGACGGGGTTTCAC consensus TA A C TG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGACRGGGTTTCRC MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 1449358 bayes= 12.948 E= 2.3e-092 -1601 -764 171 -386 233 -1601 -564 -1601 -278 -1601 169 -1601 231 -1601 -394 -1601 -1601 117 -1601 69 98 -1601 101 -1601 -139 -1601 159 -386 63 -1601 117 -371 -190 -1601 161 -313 -471 -1601 -1601 233 -1601 14 -1601 175 -1601 -506 -1601 232 -1601 138 -1601 10 156 -383 11 -154 -371 161 -447 -203 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGACRGGGTTTCRC MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 661 E= 2.3e-092 0.000000 0.001513 0.984871 0.013616 0.993949 0.000000 0.006051 0.000000 0.028744 0.000000 0.971256 0.000000 0.980333 0.000000 0.019667 0.000000 0.000000 0.680787 0.000000 0.319213 0.391831 0.000000 0.608169 0.000000 0.075643 0.000000 0.910741 0.013616 0.307110 0.000000 0.677761 0.015129 0.052950 0.000000 0.924357 0.022693 0.007564 0.000000 0.000000 0.992436 0.000000 0.332829 0.000000 0.667171 0.000000 0.009077 0.000000 0.990923 0.000000 0.788200 0.000000 0.211800 0.583964 0.021180 0.326778 0.068079 0.015129 0.922844 0.013616 0.048411 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGACRGGGTTTCRC MEME-4 regular expression -------------------------------------------------------------------------------- GAGA[CT][GA]G[GA]GT[TC]T[CT][AG]C -------------------------------------------------------------------------------- Time 1064.59 secs. ******************************************************************************** ******************************************************************************** MOTIF GGGAGGCBGMGGCRG MEME-5 width = 15 sites = 2610 llr = 25817 E-value = 8.8e-079 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGGAGGCBGMGGCRG MEME-5 Description -------------------------------------------------------------------------------- Simplified A 2::6111116::13: pos.-specific C 21:3::8313::7:: probability G 69a199:481a9:59 matrix T ::::::13::::21: bits 2.3 2.1 1.9 1.6 * Relative 1.4 * * * * Entropy 1.2 ** ** ** * (14.3 bits) 0.9 ****** * ** * 0.7 ****** ***** * 0.5 ****** ******* 0.2 ******* ******* 0.0 --------------- Multilevel GGGAGGCGGAGGCGG consensus C C T C A sequence C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGAGGCBGMGGCRG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 1449358 bayes= 11.3035 E= 8.8e-079 -23 -39 93 -306 -416 -168 157 -1799 -225 -1799 166 -801 169 -16 -213 -321 -186 -282 158 -1799 -146 -1799 162 -1799 -177 145 -328 -119 -103 -25 34 43 -83 -239 146 -1799 152 -5 -125 -384 -1799 -1799 172 -501 -269 -291 160 -397 -105 118 -360 -2 54 -305 85 -60 -202 -341 161 -1799 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGAGGCBGMGGCRG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 2610 E= 8.8e-079 0.169349 0.231034 0.575862 0.023755 0.011111 0.094253 0.894636 0.000000 0.041762 0.000000 0.957471 0.000766 0.639080 0.270498 0.068966 0.021456 0.054406 0.042912 0.902682 0.000000 0.072031 0.000000 0.927969 0.000000 0.058238 0.823755 0.031034 0.086973 0.096935 0.254406 0.381226 0.267433 0.111111 0.057471 0.831418 0.000000 0.568199 0.291188 0.126820 0.013793 0.000000 0.000000 0.993870 0.006130 0.030651 0.040230 0.916475 0.012644 0.095402 0.684674 0.024904 0.195019 0.287356 0.036398 0.545977 0.130268 0.048659 0.028352 0.922989 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGAGGCBGMGGCRG MEME-5 regular expression -------------------------------------------------------------------------------- [GC]GG[AC]GGC[GTC]G[AC]GGC[GA]G -------------------------------------------------------------------------------- Time 1310.47 secs. ******************************************************************************** ******************************************************************************** MOTIF GCCACCAYGCCYRGC MEME-6 width = 15 sites = 743 llr = 10105 E-value = 9.7e-082 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCCACCAYGCCYRGC MEME-6 Description -------------------------------------------------------------------------------- Simplified A 2::a::7:3:::4:: pos.-specific C :a9:a8:6:9a7::a probability G 8:::::3:7:::69: matrix T :::::2:4:1:3::: bits 2.3 * 2.1 * 1.9 * 1.6 * * Relative 1.4 **** ** ** Entropy 1.2 ****** ** ** (19.6 bits) 0.9 *************** 0.7 *************** 0.5 *************** 0.2 *************** 0.0 --------------- Multilevel GCCACCACGCCCGGC consensus A GTA TA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCCACCAYGCCYRGC MEME-6 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 1449358 bayes= 12.8244 E= 9.7e-082 12 -1618 138 -1618 -1618 168 -581 -295 -1618 165 -411 -245 234 -1618 -1618 -1618 -561 167 -622 -256 -1618 142 -522 -12 175 -464 0 -339 -1618 104 -1618 93 44 -481 125 -1618 -420 164 -1618 -195 -1618 166 -622 -220 -1618 112 -1618 80 101 -1618 96 -403 -216 -500 165 -1618 -388 168 -622 -374 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCCACCAYGCCYRGC MEME-6 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 743 E= 9.7e-082 0.215343 0.000000 0.784657 0.000000 0.000000 0.969044 0.005384 0.025572 0.000000 0.946164 0.017497 0.036339 1.000000 0.000000 0.000000 0.000000 0.004038 0.958277 0.004038 0.033647 0.000000 0.810229 0.008075 0.181696 0.666218 0.012113 0.302826 0.018843 0.000000 0.621803 0.000000 0.378197 0.269179 0.010767 0.720054 0.000000 0.010767 0.938089 0.000000 0.051144 0.000000 0.952894 0.004038 0.043069 0.000000 0.655451 0.000000 0.344549 0.399731 0.000000 0.588156 0.012113 0.044415 0.009421 0.946164 0.000000 0.013459 0.967699 0.004038 0.014805 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCCACCAYGCCYRGC MEME-6 regular expression -------------------------------------------------------------------------------- [GA]CCACC[AG][CT][GA]CC[CT][GA]GC -------------------------------------------------------------------------------- Time 1560.43 secs. ******************************************************************************** ******************************************************************************** MOTIF AACTCCTGACCTCAR MEME-7 width = 15 sites = 466 llr = 7301 E-value = 6.6e-069 ******************************************************************************** -------------------------------------------------------------------------------- Motif AACTCCTGACCTCAR MEME-7 Description -------------------------------------------------------------------------------- Simplified A a8:::::17::::85 pos.-specific C :1a:a91::79:9:: probability G :::::::932:::23 matrix T :1:a:19:::1a1:2 bits 2.3 * * 2.1 * * * 1.9 * * * * 1.6 * *** * * * Relative 1.4 ******** ** * Entropy 1.2 ********* **** (22.6 bits) 0.9 ********* **** 0.7 *************** 0.5 *************** 0.2 *************** 0.0 --------------- Multilevel AACTCCTGACCTCAA consensus GG G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AACTCCTGACCTCAR MEME-7 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 1449358 bayes= 13.5745 E= 6.6e-069 232 -1551 -481 -1551 200 -205 -1551 -57 -394 171 -1551 -1551 -372 -1551 -555 231 -1551 167 -1551 -244 -1551 163 -555 -177 -652 -238 -1551 225 -188 -1551 162 -372 177 -1551 11 -1551 -228 121 -37 -294 -1551 158 -713 -110 -453 -1551 -1551 232 -372 159 -1551 -136 209 -1551 -97 -1551 132 -1551 5 -5 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AACTCCTGACCTCAR MEME-7 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 466 E= 6.6e-069 0.989270 0.000000 0.010730 0.000000 0.793991 0.072961 0.000000 0.133047 0.012876 0.987124 0.000000 0.000000 0.015021 0.000000 0.006438 0.978541 0.000000 0.963519 0.000000 0.036481 0.000000 0.935622 0.006438 0.057940 0.002146 0.057940 0.000000 0.939914 0.053648 0.000000 0.931330 0.015021 0.673820 0.000000 0.326180 0.000000 0.040773 0.699571 0.233906 0.025751 0.000000 0.905579 0.002146 0.092275 0.008584 0.000000 0.000000 0.991416 0.015021 0.907725 0.000000 0.077253 0.845494 0.000000 0.154506 0.000000 0.495708 0.000000 0.313305 0.190987 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AACTCCTGACCTCAR MEME-7 regular expression -------------------------------------------------------------------------------- AACTCCTG[AG][CG]CTCA[AG] -------------------------------------------------------------------------------- Time 1800.38 secs. ******************************************************************************** ******************************************************************************** MOTIF CAGTGAGCCGAGATC MEME-8 width = 15 sites = 249 llr = 4432 E-value = 4.0e-027 ******************************************************************************** -------------------------------------------------------------------------------- Motif CAGTGAGCCGAGATC MEME-8 Description -------------------------------------------------------------------------------- Simplified A :a:::a:::39:a:: pos.-specific C a::::::a7:::::7 probability G ::a:a:a::7:a::1 matrix T :::a::::3:1::a2 bits 2.3 * * * * 2.1 * * * ** 1.9 * * * ** 1.6 ******** **** Relative 1.4 ******** **** Entropy 1.2 ******** **** (25.7 bits) 0.9 ************** 0.7 *************** 0.5 *************** 0.2 *************** 0.0 --------------- Multilevel CAGTGAGCCGAGATC consensus TA T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGTGAGCCGAGATC MEME-8 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 1449358 bayes= 14.6544 E= 4.0e-027 -1460 169 -1460 -304 234 -1460 -1460 -1460 -304 -623 169 -1460 -1460 -1460 -1460 234 -1460 -1460 173 -1460 234 -1460 -1460 -1460 -1460 -623 172 -1460 -1460 172 -523 -1460 -1460 118 -1460 68 44 -1460 128 -1460 213 -1460 -623 -62 -282 -623 168 -1460 234 -1460 -1460 -1460 -1460 -365 -1460 230 -362 121 -191 5 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGTGAGCCGAGATC MEME-8 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 249 E= 4.0e-027 0.000000 0.975904 0.000000 0.024096 1.000000 0.000000 0.000000 0.000000 0.024096 0.004016 0.971888 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 0.004016 0.995984 0.000000 0.000000 0.991968 0.008032 0.000000 0.000000 0.682731 0.000000 0.317269 0.269076 0.000000 0.730924 0.000000 0.867470 0.000000 0.004016 0.128514 0.028112 0.004016 0.967871 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.024096 0.000000 0.975904 0.016064 0.698795 0.080321 0.204819 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGTGAGCCGAGATC MEME-8 regular expression -------------------------------------------------------------------------------- CAGTGAGC[CT][GA]AGAT[CT] -------------------------------------------------------------------------------- Time 2038.06 secs. ******************************************************************************** ******************************************************************************** MOTIF GGTTCAAGCGATTCT MEME-9 width = 15 sites = 295 llr = 5233 E-value = 6.3e-023 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGTTCAAGCGATTCT MEME-9 Description -------------------------------------------------------------------------------- Simplified A :1:::a9::3a:::: pos.-specific C ::2:a:1:71::1a: probability G a9:::::a:6::::: matrix T ::8a::::3::a9:a bits 2.3 * ** 2.1 * * ** * 1.9 * ** ** * 1.6 ****** ***** Relative 1.4 ******** ***** Entropy 1.2 ******** ***** (25.6 bits) 0.9 ******** ***** 0.7 *************** 0.5 *************** 0.2 *************** 0.0 --------------- Multilevel GGTTCAAGCGATTCT consensus TA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTTCAAGCGATTCT MEME-9 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 1449358 bayes= 14.5081 E= 6.3e-023 -206 -1485 166 -1485 -162 -1485 163 -1485 -1485 -95 -1485 209 -1485 -1485 -1485 234 -1485 173 -1485 -1485 230 -415 -1485 -487 222 -195 -1485 -1485 -1485 -1485 173 -1485 -217 112 -448 54 38 -148 107 -1485 232 -1485 -1485 -428 -1485 -1485 -1485 234 -1485 -102 -1485 210 -1485 168 -1485 -270 -1485 -331 -1485 229 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTTCAAGCGATTCT MEME-9 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 295 E= 6.3e-023 0.047458 0.000000 0.952542 0.000000 0.064407 0.000000 0.935593 0.000000 0.000000 0.155932 0.000000 0.844068 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.976271 0.016949 0.000000 0.006780 0.922034 0.077966 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.044068 0.654237 0.013559 0.288136 0.257627 0.108475 0.633898 0.000000 0.989831 0.000000 0.000000 0.010169 0.000000 0.000000 0.000000 1.000000 0.000000 0.149153 0.000000 0.850847 0.000000 0.969492 0.000000 0.030508 0.000000 0.030508 0.000000 0.969492 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTTCAAGCGATTCT MEME-9 regular expression -------------------------------------------------------------------------------- GGTTCAAG[CT][GA]ATTCT -------------------------------------------------------------------------------- Time 2274.32 secs. ******************************************************************************** ******************************************************************************** MOTIF TTHWMWNTHTYTWMW MEME-10 width = 15 sites = 504 llr = 5132 E-value = 1.1e-011 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTHWMWNTHTYTWMW MEME-10 Description -------------------------------------------------------------------------------- Simplified A ::23452:3223343 pos.-specific C :14:412:2:5:16: probability G :::1::321:::1:: matrix T a946243838374:6 bits 2.3 2.1 * 1.9 * 1.6 ** * Relative 1.4 ** * * * Entropy 1.2 ** * * * * (14.7 bits) 0.9 ** * * * * * ** 0.7 ** * * * * * ** 0.5 ****** * *** ** 0.2 ****** ******** 0.0 --------------- Multilevel TTCTAATTATCTTCT consensus TACTGGT TAAAA sequence A A C A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTHWMWNTHTYTWMW MEME-10 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 1449358 bayes= 13.6391 E= 1.1e-011 -255 -1562 -1562 229 -1562 -166 -408 216 11 48 -1562 88 64 -1562 -186 162 106 42 -725 -13 133 -134 -1562 95 18 -84 -10 72 -1562 -1562 -51 199 79 -56 -142 78 -28 -1562 -1562 208 11 64 -1562 67 52 -393 -1562 181 75 -102 -112 94 114 90 -1562 -1562 80 -300 -1562 164 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTHWMWNTHTYTWMW MEME-10 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 504 E= 1.1e-011 0.033730 0.000000 0.000000 0.966270 0.000000 0.095238 0.017857 0.886905 0.214286 0.420635 0.000000 0.365079 0.309524 0.000000 0.083333 0.607143 0.412698 0.404762 0.001984 0.180556 0.498016 0.119048 0.000000 0.382937 0.224206 0.168651 0.281746 0.325397 0.000000 0.000000 0.212302 0.787698 0.343254 0.204365 0.113095 0.339286 0.162698 0.000000 0.000000 0.837302 0.214286 0.470238 0.000000 0.315476 0.283730 0.019841 0.000000 0.696429 0.333333 0.148810 0.138889 0.378968 0.436508 0.563492 0.000000 0.000000 0.345238 0.037698 0.000000 0.617063 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTHWMWNTHTYTWMW MEME-10 regular expression -------------------------------------------------------------------------------- TT[CTA][TA][AC][AT][TGA][TG][ATC]T[CTA][TA][TA][CA][TA] -------------------------------------------------------------------------------- Time 2502.17 secs. ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (10) found. ******************************************************************************** CPU: cn45 ********************************************************************************