******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 5.3.3 (Release date: Sun Feb 7 15:39:52 2021 -0800) 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= ../result/final_prediction/worm/fasta/RankLinear2.0_40/nhr-179.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrX:11163276-11163356 1.0000 80 chrM:161-241 1.0000 80 chrM:1803-1883 1.0000 80 chrM:3264-3344 1.0000 80 chrIII:5506156-5506236 1.0000 80 chrX:9238845-9238925 1.0000 80 chrII:13780834-13780914 1.0000 80 chrX:10018313-10018393 1.0000 80 chrX:5101144-5101224 1.0000 80 chrII:1149590-1149670 1.0000 80 chrIV:17183156-17183236 1.0000 80 chrM:10153-10233 1.0000 80 chrX:14228974-14229054 1.0000 80 chrM:11417-11497 1.0000 80 chrM:3598-3678 1.0000 80 chrX:3793517-3793597 1.0000 80 chrX:13469978-13470058 1.0000 80 chrX:2531446-2531526 1.0000 80 chrM:11119-11199 1.0000 80 chrIII:931569-931649 1.0000 80 chrX:13038885-13038965 1.0000 80 chrV:15547923-15548003 1.0000 80 chrI:933474-933554 1.0000 80 chrM:8225-8305 1.0000 80 chrM:3027-3107 1.0000 80 chrX:16271284-16271364 1.0000 80 chrM:7291-7371 1.0000 80 chrX:9024341-9024421 1.0000 80 chrII:8441659-8441739 1.0000 80 chrM:961-1041 1.0000 80 chrX:10304706-10304786 1.0000 80 chrIII:9824609-9824689 1.0000 80 chrX:14477334-14477414 1.0000 80 chrX:14162129-14162209 1.0000 80 chrM:8432-8512 1.0000 80 chrX:12347936-12348016 1.0000 80 chrM:7091-7171 1.0000 80 chrX:11645704-11645784 1.0000 80 chrM:6025-6105 1.0000 80 chrX:15619497-15619577 1.0000 80 chrI:6838387-6838467 1.0000 80 chrV:12683378-12683458 1.0000 80 chrII:3113381-3113461 1.0000 80 chrIII:4491393-4491473 1.0000 80 chrM:9106-9186 1.0000 80 chrX:10667585-10667665 1.0000 80 chrX:7323730-7323810 1.0000 80 chrX:9237897-9237977 1.0000 80 chrM:2114-2194 1.0000 80 chrV:6277834-6277914 1.0000 80 chrX:13284799-13284879 1.0000 80 chrM:4660-4740 1.0000 80 chrII:12541760-12541840 1.0000 80 chrX:13714858-13714938 1.0000 80 chrIII:1951438-1951518 1.0000 80 chrM:6230-6310 1.0000 80 chrX:6867878-6867958 1.0000 80 chrX:13293236-13293316 1.0000 80 chrIII:6415344-6415424 1.0000 80 chrM:12375-12455 1.0000 80 chrI:11803345-11803425 1.0000 80 chrX:16144834-16144914 1.0000 80 chrIV:14013774-14013854 1.0000 80 chrV:14028376-14028456 1.0000 80 chrIV:15933287-15933367 1.0000 80 chrIII:4195242-4195322 1.0000 80 chrM:2313-2393 1.0000 80 chrM:4867-4947 1.0000 80 chrX:16677309-16677389 1.0000 80 chrX:8638953-8639033 1.0000 80 chrII:5353823-5353903 1.0000 80 chrM:12578-12658 1.0000 80 chrX:11872269-11872349 1.0000 80 chrV:19142835-19142915 1.0000 80 chrX:2527975-2528055 1.0000 80 chrIV:2664955-2665035 1.0000 80 chrM:1165-1245 1.0000 80 chrX:10145114-10145194 1.0000 80 chrIV:16399241-16399321 1.0000 80 chrX:10731940-10732020 1.0000 80 chrIII:9510132-9510212 1.0000 80 chrX:16604686-16604766 1.0000 80 chrIII:3869591-3869671 1.0000 80 chrV:5284756-5284836 1.0000 80 chrI:6847033-6847113 1.0000 80 chrII:14018241-14018321 1.0000 80 chrX:13442648-13442728 1.0000 80 chrV:20497694-20497774 1.0000 80 chrIII:13464831-13464911 1.0000 80 chrV:5667449-5667529 1.0000 80 chrX:13653753-13653833 1.0000 80 chrX:15200854-15200934 1.0000 80 chrIII:698938-699018 1.0000 80 chrI:852188-852268 1.0000 80 chrV:11076447-11076527 1.0000 80 chrIII:12250745-12250825 1.0000 80 chrX:16619303-16619383 1.0000 80 chrV:9318150-9318230 1.0000 80 chrX:4007724-4007804 1.0000 80 chrX:8608841-8608921 1.0000 80 chrIV:9477721-9477801 1.0000 80 chrII:15025666-15025746 1.0000 80 chrIII:7729637-7729717 1.0000 80 chrII:8547071-8547151 1.0000 80 chrX:15297582-15297662 1.0000 80 chrIII:5769929-5770009 1.0000 80 chrI:12654734-12654814 1.0000 80 chrII:14616993-14617073 1.0000 80 chrIV:3336745-3336825 1.0000 80 chrI:2878546-2878626 1.0000 80 chrIII:3249176-3249256 1.0000 80 chrX:11252605-11252685 1.0000 80 chrX:3348056-3348136 1.0000 80 chrIV:16398400-16398480 1.0000 80 chrI:2514283-2514363 1.0000 80 chrX:2364843-2364923 1.0000 80 chrV:20694140-20694220 1.0000 80 chrI:11978761-11978841 1.0000 80 chrX:9637867-9637947 1.0000 80 chrX:10963831-10963911 1.0000 80 chrI:11579719-11579799 1.0000 80 chrX:12563789-12563869 1.0000 80 chrV:8349093-8349173 1.0000 80 chrX:6371363-6371443 1.0000 80 chrX:1345027-1345107 1.0000 80 chrX:6593565-6593645 1.0000 80 chrV:6889043-6889123 1.0000 80 chrX:12458142-12458222 1.0000 80 chrX:12661189-12661269 1.0000 80 chrX:12363154-12363234 1.0000 80 chrIII:1604664-1604744 1.0000 80 chrX:13448799-13448879 1.0000 80 chrII:14018440-14018520 1.0000 80 chrX:11935110-11935190 1.0000 80 chrI:6164200-6164280 1.0000 80 chrX:11467344-11467424 1.0000 80 chrX:2553592-2553672 1.0000 80 chrV:15551793-15551873 1.0000 80 chrX:1837833-1837913 1.0000 80 chrIII:11792767-11792847 1.0000 80 chrII:8107253-8107333 1.0000 80 chrX:7181765-7181845 1.0000 80 chrX:6220080-6220160 1.0000 80 chrIV:683040-683120 1.0000 80 chrIV:2805651-2805731 1.0000 80 chrX:6292297-6292377 1.0000 80 chrIV:11026018-11026098 1.0000 80 chrIV:16776045-16776125 1.0000 80 chrX:16928260-16928340 1.0000 80 chrI:8259518-8259598 1.0000 80 chrII:7184077-7184157 1.0000 80 chrX:1379568-1379648 1.0000 80 chrX:5319330-5319410 1.0000 80 chrII:11224241-11224321 1.0000 80 chrX:16682064-16682144 1.0000 80 chrIII:836087-836167 1.0000 80 chrX:14804838-14804918 1.0000 80 chrV:15873930-15874010 1.0000 80 chrII:5105152-5105232 1.0000 80 chrX:12665162-12665242 1.0000 80 chrII:11484726-11484806 1.0000 80 chrX:9465844-9465924 1.0000 80 chrIII:5305842-5305922 1.0000 80 chrX:1389584-1389664 1.0000 80 chrIII:4378691-4378771 1.0000 80 chrV:12596952-12597032 1.0000 80 chrV:15191052-15191132 1.0000 80 chrIV:8252998-8253078 1.0000 80 chrIII:5602180-5602260 1.0000 80 chrV:9970274-9970354 1.0000 80 chrV:16370121-16370201 1.0000 80 chrX:489914-489994 1.0000 80 chrX:6092067-6092147 1.0000 80 chrIV:11474224-11474304 1.0000 80 chrII:5782064-5782144 1.0000 80 chrIII:502707-502787 1.0000 80 chrX:8811065-8811145 1.0000 80 chrX:11937533-11937613 1.0000 80 chrX:806651-806731 1.0000 80 chrI:5706953-5707033 1.0000 80 chrX:11095633-11095713 1.0000 80 chrX:13700844-13700924 1.0000 80 chrX:9743636-9743716 1.0000 80 chrII:15166050-15166130 1.0000 80 chrII:3519068-3519148 1.0000 80 chrIV:8927188-8927268 1.0000 80 chrV:8500527-8500607 1.0000 80 chrX:4209292-4209372 1.0000 80 chrV:11314169-11314249 1.0000 80 chrV:1151465-1151545 1.0000 80 chrIII:13643714-13643794 1.0000 80 chrV:12303574-12303654 1.0000 80 chrX:13665606-13665686 1.0000 80 chrX:13306999-13307079 1.0000 80 chrX:15741979-15742059 1.0000 80 chrII:11960796-11960876 1.0000 80 chrX:16209830-16209910 1.0000 80 chrX:6207834-6207914 1.0000 80 chrX:353225-353305 1.0000 80 chrV:19643160-19643240 1.0000 80 chrX:8036624-8036704 1.0000 80 chrX:14525895-14525975 1.0000 80 chrII:12494718-12494798 1.0000 80 chrX:2227262-2227342 1.0000 80 chrIII:8937779-8937859 1.0000 80 chrX:3036098-3036178 1.0000 80 chrX:11094202-11094282 1.0000 80 chrX:6296532-6296612 1.0000 80 chrV:12002159-12002239 1.0000 80 chrI:13463922-13464002 1.0000 80 chrX:1880850-1880930 1.0000 80 chrI:13297658-13297738 1.0000 80 chrI:6105734-6105814 1.0000 80 chrIV:11549835-11549915 1.0000 80 chrII:8547274-8547354 1.0000 80 chrX:8404458-8404538 1.0000 80 chrIII:5031625-5031705 1.0000 80 chrX:3371449-3371529 1.0000 80 chrX:1627130-1627210 1.0000 80 chrX:3697753-3697833 1.0000 80 chrX:5429608-5429688 1.0000 80 chrIII:5295034-5295114 1.0000 80 chrIII:10989620-10989700 1.0000 80 chrX:5085641-5085721 1.0000 80 chrX:16634782-16634862 1.0000 80 chrX:2997081-2997161 1.0000 80 chrII:5844807-5844887 1.0000 80 chrV:11782952-11783032 1.0000 80 chrX:2549571-2549651 1.0000 80 chrI:4172334-4172414 1.0000 80 chrIII:3867548-3867628 1.0000 80 chrII:14251603-14251683 1.0000 80 chrV:13003421-13003501 1.0000 80 chrIII:5080879-5080959 1.0000 80 chrX:16929833-16929913 1.0000 80 chrX:14063985-14064065 1.0000 80 chrI:7500558-7500638 1.0000 80 chrX:16056622-16056702 1.0000 80 chrIV:14033990-14034070 1.0000 80 chrV:15465056-15465136 1.0000 80 chrX:8404659-8404739 1.0000 80 chrIV:7574058-7574138 1.0000 80 chrII:5543840-5543920 1.0000 80 chrX:13046427-13046507 1.0000 80 chrI:2084954-2085034 1.0000 80 chrX:5801376-5801456 1.0000 80 chrX:410294-410374 1.0000 80 chrIII:10989838-10989918 1.0000 80 chrI:1835516-1835596 1.0000 80 chrIII:10759244-10759324 1.0000 80 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme -oc ../result/final_prediction/worm/inference_raw/MEME/RankLinear2.0_40_nhr-179/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/nhr-179.fasta model: mod= zoops nmotifs= 5 evt= inf objective function: em= E-value of product of p-values starts= E-value of product of p-values strands: + width: minw= 8 maxw= 8 nsites: minsites= 2 maxsites= 250 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= 20000 N= 250 sample: seed= 0 hsfrac= 0 searchsize= 20000 norand= no csites= 1000 Letter frequencies in dataset: A 0.269 C 0.224 G 0.238 T 0.269 Background letter frequencies (from file dataset with add-one prior applied): A 0.269 C 0.224 G 0.238 T 0.269 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TCGAACCC MEME-1 width = 8 sites = 35 llr = 307 E-value = 3.5e-009 ******************************************************************************** -------------------------------------------------------------------------------- Motif TCGAACCC MEME-1 Description -------------------------------------------------------------------------------- Simplified A :::a7::1 pos.-specific C :8:::7a8 probability G ::a::::: matrix T a2::23:1 bits 2.2 * * 1.9 * ** * 1.7 * ** * 1.5 **** * Relative 1.3 **** * Entropy 1.1 **** *** (12.7 bits) 0.9 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TCGAACCC consensus TT sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:11549835-11549915 40 1.17e-05 GCCACGAGAA TCGAACCC GTGATGCATA chrI:13297658-13297738 30 1.17e-05 AATGCGGGGC TCGAACCC GCGACAACCA chrV:19643160-19643240 31 1.17e-05 TGGGTGGGAA TCGAACCC GGAAGCTGTG chrX:353225-353305 45 1.17e-05 AGAGTGGGAT TCGAACCC ACGCCCCCGA chrX:1379568-1379648 50 1.17e-05 TCGGGGGGAA TCGAACCC CCGTCGAATG chrX:16928260-16928340 26 1.17e-05 cgaccgggaa tcgaaccc gggccgcccg chrIII:1604664-1604744 53 1.17e-05 TTGCGGGGAA TCGAACCC CGGCCTTATG chrI:11579719-11579799 2 1.17e-05 C TCGAACCC GCGACAACCA chrIV:14013774-14013854 46 1.17e-05 GTATGGGGAA TCGAACCC CAGACTTCTC chrX:16271284-16271364 27 1.17e-05 TTGCGGGGAA TCGAACCC CGGCCTTATG chrIV:7574058-7574138 55 2.57e-05 TGGCCCAAGT TCGAATCC CAAGCAGTGA chrX:13665606-13665686 49 2.57e-05 GTGCGTGGGT TCGAATCC CACTTCGTGC chrIII:5769929-5770009 38 2.57e-05 GGGCGTGGGT TCGAATCC CACTCTCTTA chrV:15191052-15191132 50 5.13e-05 CGCTGAGGAG TTGAACCC GCGTCTGTTG chrV:15551793-15551873 21 5.13e-05 cggccgggaa ttgaaccc gggtctcgca chrX:12458142-12458222 49 5.13e-05 GTATGGGGAA TTGAACCC CAGCCCTCTC chrI:2514283-2514363 31 5.13e-05 GGAGGCGGAA TTGAACCC GTGGTGTTGC chrX:16619303-16619383 45 5.13e-05 cggccgggaa ttgaaccc gggtctcgca chrX:16604686-16604766 49 5.13e-05 CGGCCGGGAA TTGAACCC GGGTCTCGCA chrX:16634782-16634862 63 6.53e-05 GCGGCTGGAA TCGAACCA GCGTCGCCAC chrI:6105734-6105814 28 6.53e-05 CGGCTGGGGG TCGAACCA GCGACCCGCT chrII:3519068-3519148 33 6.53e-05 CATGCTGGAA TCGAACCA GCGACCTTCT chrX:1837833-1837913 10 6.53e-05 AAGAAAAAA TCGAACCA CGGTCTTGTG chrIV:8927188-8927268 67 7.94e-05 GTCCGCGTGA TCGATTCC CGCCCG chrX:9743636-9743716 6 7.94e-05 GGGGT TCGATTCC CCATACCTCC chrX:10963831-10963911 50 7.94e-05 CGACGGGGGT TCGATTCC CCCCGAACGC chrI:11978761-11978841 56 7.94e-05 AGGCCGGGGT TCGATTCC CCGCAACGGA chrV:19142835-19142915 6 7.94e-05 CGGGT TCGATTCC CGGCATGGGA chrX:13293236-13293316 9 7.94e-05 TCGCTGGT TCGATTCC AGCATGAGGC chrX:10667585-10667665 61 7.94e-05 CGGCCCGGGT TCGATTCC CGGCATGGGA chrX:6220080-6220160 5 9.34e-05 GGAT TCGAACCT ACAATCTTCT chrX:10731940-10732020 64 9.34e-05 ACGGCAGGAT TCGAACCT ACAATCTTC chrI:6164200-6164280 46 1.61e-04 GGTCGCAGGT TCGACCCC TGCTGGCGGC chrX:11645704-11645784 33 1.61e-04 GGTTGGTGGT TCGAGCCC ACCCGGGAGC chrX:13442648-13442728 58 1.78e-04 CCGCGTGAGT TCGAATCT CATCTTGATC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:11549835-11549915 1.2e-05 39_[+1]_33 chrI:13297658-13297738 1.2e-05 29_[+1]_43 chrV:19643160-19643240 1.2e-05 30_[+1]_42 chrX:353225-353305 1.2e-05 44_[+1]_28 chrX:1379568-1379648 1.2e-05 49_[+1]_23 chrX:16928260-16928340 1.2e-05 25_[+1]_47 chrIII:1604664-1604744 1.2e-05 52_[+1]_20 chrI:11579719-11579799 1.2e-05 1_[+1]_71 chrIV:14013774-14013854 1.2e-05 45_[+1]_27 chrX:16271284-16271364 1.2e-05 26_[+1]_46 chrIV:7574058-7574138 2.6e-05 54_[+1]_18 chrX:13665606-13665686 2.6e-05 48_[+1]_24 chrIII:5769929-5770009 2.6e-05 37_[+1]_35 chrV:15191052-15191132 5.1e-05 49_[+1]_23 chrV:15551793-15551873 5.1e-05 20_[+1]_52 chrX:12458142-12458222 5.1e-05 48_[+1]_24 chrI:2514283-2514363 5.1e-05 30_[+1]_42 chrX:16619303-16619383 5.1e-05 44_[+1]_28 chrX:16604686-16604766 5.1e-05 48_[+1]_24 chrX:16634782-16634862 6.5e-05 62_[+1]_10 chrI:6105734-6105814 6.5e-05 27_[+1]_45 chrII:3519068-3519148 6.5e-05 32_[+1]_40 chrX:1837833-1837913 6.5e-05 9_[+1]_63 chrIV:8927188-8927268 7.9e-05 66_[+1]_6 chrX:9743636-9743716 7.9e-05 5_[+1]_67 chrX:10963831-10963911 7.9e-05 49_[+1]_23 chrI:11978761-11978841 7.9e-05 55_[+1]_17 chrV:19142835-19142915 7.9e-05 5_[+1]_67 chrX:13293236-13293316 7.9e-05 8_[+1]_64 chrX:10667585-10667665 7.9e-05 60_[+1]_12 chrX:6220080-6220160 9.3e-05 4_[+1]_68 chrX:10731940-10732020 9.3e-05 63_[+1]_9 chrI:6164200-6164280 0.00016 45_[+1]_27 chrX:11645704-11645784 0.00016 32_[+1]_40 chrX:13442648-13442728 0.00018 57_[+1]_15 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TCGAACCC width=8 seqs=35 chrIV:11549835-11549915 ( 40) TCGAACCC 1 chrI:13297658-13297738 ( 30) TCGAACCC 1 chrV:19643160-19643240 ( 31) TCGAACCC 1 chrX:353225-353305 ( 45) TCGAACCC 1 chrX:1379568-1379648 ( 50) TCGAACCC 1 chrX:16928260-16928340 ( 26) TCGAACCC 1 chrIII:1604664-1604744 ( 53) TCGAACCC 1 chrI:11579719-11579799 ( 2) TCGAACCC 1 chrIV:14013774-14013854 ( 46) TCGAACCC 1 chrX:16271284-16271364 ( 27) TCGAACCC 1 chrIV:7574058-7574138 ( 55) TCGAATCC 1 chrX:13665606-13665686 ( 49) TCGAATCC 1 chrIII:5769929-5770009 ( 38) TCGAATCC 1 chrV:15191052-15191132 ( 50) TTGAACCC 1 chrV:15551793-15551873 ( 21) TTGAACCC 1 chrX:12458142-12458222 ( 49) TTGAACCC 1 chrI:2514283-2514363 ( 31) TTGAACCC 1 chrX:16619303-16619383 ( 45) TTGAACCC 1 chrX:16604686-16604766 ( 49) TTGAACCC 1 chrX:16634782-16634862 ( 63) TCGAACCA 1 chrI:6105734-6105814 ( 28) TCGAACCA 1 chrII:3519068-3519148 ( 33) TCGAACCA 1 chrX:1837833-1837913 ( 10) TCGAACCA 1 chrIV:8927188-8927268 ( 67) TCGATTCC 1 chrX:9743636-9743716 ( 6) TCGATTCC 1 chrX:10963831-10963911 ( 50) TCGATTCC 1 chrI:11978761-11978841 ( 56) TCGATTCC 1 chrV:19142835-19142915 ( 6) TCGATTCC 1 chrX:13293236-13293316 ( 9) TCGATTCC 1 chrX:10667585-10667665 ( 61) TCGATTCC 1 chrX:6220080-6220160 ( 5) TCGAACCT 1 chrX:10731940-10732020 ( 64) TCGAACCT 1 chrI:6164200-6164280 ( 46) TCGACCCC 1 chrX:11645704-11645784 ( 33) TCGAGCCC 1 chrX:13442648-13442728 ( 58) TCGAATCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.4104 E= 3.5e-009 -1177 -1177 -1177 189 -1177 189 -1177 -65 -1177 -1177 207 -1177 189 -1177 -1177 -1177 146 -297 -305 -43 -1177 161 -1177 22 -1177 216 -1177 -1177 -124 184 -1177 -165 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 35 E= 3.5e-009 0.000000 0.000000 0.000000 1.000000 0.000000 0.828571 0.000000 0.171429 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.742857 0.028571 0.028571 0.200000 0.000000 0.685714 0.000000 0.314286 0.000000 1.000000 0.000000 0.000000 0.114286 0.800000 0.000000 0.085714 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-1 regular expression -------------------------------------------------------------------------------- TCGA[AT][CT]CC -------------------------------------------------------------------------------- Time 5.16 secs. ******************************************************************************** ******************************************************************************** MOTIF TAGCKCAG MEME-2 width = 8 sites = 21 llr = 203 E-value = 1.5e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif TAGCKCAG MEME-2 Description -------------------------------------------------------------------------------- Simplified A :6::::a: pos.-specific C :1:a:a:: probability G :3a:4::a matrix T a:::6::: bits 2.2 ** * * 1.9 * ** *** 1.7 * ** *** 1.5 * ** *** Relative 1.3 * ** *** Entropy 1.1 * ****** (13.9 bits) 0.9 * ****** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TAGCTCAG consensus G G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCKCAG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:15465056-15465136 37 1.49e-05 GTGGCCTCCT TAGCTCAG TTGGTAGAGC chrII:12494718-12494798 30 1.49e-05 TCGGCCGCCA TAGCTCAG TCGGTTAGAG chrIII:5305842-5305922 70 1.49e-05 GGCGCCCTTA TAGCTCAG TGG chrX:12665162-12665242 73 1.49e-05 GTGCCGTCGA TAGCTCAG chrX:14804838-14804918 46 1.49e-05 CACGGGGGTA TAGCTCAG TGGCAGAGCA chrIII:11792767-11792847 22 1.49e-05 GACGCCCGTA TAGCTCAG TGGCAGAGCG chrX:6593565-6593645 38 1.49e-05 ACTGCCTCGA TAGCTCAG TTGGGAGAGC chrX:12563789-12563869 6 1.49e-05 CCTTA TAGCTCAG TGGTAGAGCG chrV:9318150-9318230 59 1.49e-05 CGTGGGGGTA TAGCTCAG GGGTAGAGCG chrX:13714858-13714938 37 1.49e-05 GCCGCCCGGT TAGCTCAG TCGGTAGAGC chrX:7323730-7323810 30 1.49e-05 TCAGGGGGTA TAGCTCAG TGGTAGAGCG chrX:9238845-9238925 26 1.49e-05 AGCGGGGGTA TAGCTCAG TGGTAGAGCG chrX:3697753-3697833 10 2.80e-05 GTGCTTCCG TAGCGCAG TAGGCAGCGC chrIV:7574058-7574138 10 5.29e-05 ACGGCCTTG TGGCGCAG GCGGTTACTG chrV:12002159-12002239 24 5.29e-05 CGTGCCCCAT TGGCGCAG TCGGTTAGCG chrX:6296532-6296612 14 5.29e-05 CATTTACATT TGGCGCAG GGGGTCACCA chrII:11960796-11960876 30 5.29e-05 GACACCGTTG TGGCGCAG GCGGGTAGCG chrV:16370121-16370201 34 5.29e-05 GTTACACTGG TGGCGCAG GCGGTAACGC chrIV:2664955-2665035 25 5.29e-05 TGGTGCTGGT TGGCGCAG CCGGCAACAC chrX:806651-806731 21 7.62e-05 TGTGCGATTA TCGCGCAG GGGTGTTTGT chrX:1345027-1345107 27 7.62e-05 ACAATGTCAT TCGCGCAG GGCAGCTGAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCKCAG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:15465056-15465136 1.5e-05 36_[+2]_36 chrII:12494718-12494798 1.5e-05 29_[+2]_43 chrIII:5305842-5305922 1.5e-05 69_[+2]_3 chrX:12665162-12665242 1.5e-05 72_[+2] chrX:14804838-14804918 1.5e-05 45_[+2]_27 chrIII:11792767-11792847 1.5e-05 21_[+2]_51 chrX:6593565-6593645 1.5e-05 37_[+2]_35 chrX:12563789-12563869 1.5e-05 5_[+2]_67 chrV:9318150-9318230 1.5e-05 58_[+2]_14 chrX:13714858-13714938 1.5e-05 36_[+2]_36 chrX:7323730-7323810 1.5e-05 29_[+2]_43 chrX:9238845-9238925 1.5e-05 25_[+2]_47 chrX:3697753-3697833 2.8e-05 9_[+2]_63 chrIV:7574058-7574138 5.3e-05 9_[+2]_63 chrV:12002159-12002239 5.3e-05 23_[+2]_49 chrX:6296532-6296612 5.3e-05 13_[+2]_59 chrII:11960796-11960876 5.3e-05 29_[+2]_43 chrV:16370121-16370201 5.3e-05 33_[+2]_39 chrIV:2664955-2665035 5.3e-05 24_[+2]_48 chrX:806651-806731 7.6e-05 20_[+2]_52 chrX:1345027-1345107 7.6e-05 26_[+2]_46 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCKCAG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TAGCKCAG width=8 seqs=21 chrV:15465056-15465136 ( 37) TAGCTCAG 1 chrII:12494718-12494798 ( 30) TAGCTCAG 1 chrIII:5305842-5305922 ( 70) TAGCTCAG 1 chrX:12665162-12665242 ( 73) TAGCTCAG 1 chrX:14804838-14804918 ( 46) TAGCTCAG 1 chrIII:11792767-11792847 ( 22) TAGCTCAG 1 chrX:6593565-6593645 ( 38) TAGCTCAG 1 chrX:12563789-12563869 ( 6) TAGCTCAG 1 chrV:9318150-9318230 ( 59) TAGCTCAG 1 chrX:13714858-13714938 ( 37) TAGCTCAG 1 chrX:7323730-7323810 ( 30) TAGCTCAG 1 chrX:9238845-9238925 ( 26) TAGCTCAG 1 chrX:3697753-3697833 ( 10) TAGCGCAG 1 chrIV:7574058-7574138 ( 10) TGGCGCAG 1 chrV:12002159-12002239 ( 24) TGGCGCAG 1 chrX:6296532-6296612 ( 14) TGGCGCAG 1 chrII:11960796-11960876 ( 30) TGGCGCAG 1 chrV:16370121-16370201 ( 34) TGGCGCAG 1 chrIV:2664955-2665035 ( 25) TGGCGCAG 1 chrX:806651-806731 ( 21) TCGCGCAG 1 chrX:1345027-1345107 ( 27) TCGCGCAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCKCAG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.0668 E= 1.5e-004 -1104 -1104 -1104 189 120 -123 27 -1104 -1104 -1104 207 -1104 -1104 216 -1104 -1104 -1104 -1104 85 109 -1104 216 -1104 -1104 189 -1104 -1104 -1104 -1104 -1104 207 -1104 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCKCAG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 21 E= 1.5e-004 0.000000 0.000000 0.000000 1.000000 0.619048 0.095238 0.285714 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.428571 0.571429 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCKCAG MEME-2 regular expression -------------------------------------------------------------------------------- T[AG]GC[TG]CAG -------------------------------------------------------------------------------- Time 9.08 secs. ******************************************************************************** ******************************************************************************** MOTIF MCTGMGCT MEME-3 width = 8 sites = 24 llr = 216 E-value = 7.9e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif MCTGMGCT MEME-3 Description -------------------------------------------------------------------------------- Simplified A 6:::5::: pos.-specific C 4a::5:a2 probability G :::a:a:3 matrix T ::a::::5 bits 2.2 * * ** 1.9 *** ** 1.7 *** ** 1.5 *** ** Relative 1.3 *** ** Entropy 1.1 ******* (13.0 bits) 0.9 ******* 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel ACTGCGCT consensus C A G sequence C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MCTGMGCT MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:7574058-7574138 24 1.24e-05 GCAGGCGGTT ACTGCGCT GCTGTGGAAA chrV:6889043-6889123 19 1.24e-05 CGATTGTTCG ACTGCGCT TGCTGGCCTC chrX:14063985-14064065 18 2.73e-05 CGCTCTACCA ACTGAGCT AAGGAGGCCC chrX:5085641-5085721 39 2.73e-05 GCTCTAACCG ACTGAGCT ATGGCGGCTT chrI:13297658-13297738 72 2.73e-05 TGCTCTACCG ACTGAGCT A chrX:16209830-16209910 7 2.73e-05 CTACCA ACTGAGCT ATCGACGGCA chrX:11935110-11935190 26 2.73e-05 ACGCTCTGCC ACTGAGCT ATACGGGCTA chrI:11579719-11579799 44 2.73e-05 TGCTCTACCG ACTGAGCT AACCGGGCGG chrX:9637867-9637947 41 2.73e-05 GCGCTCTACC ACTGAGCT ATACCCCCGC chrV:20694140-20694220 37 2.73e-05 ATGCTCTGCC ACTGAGCT ATACCCCCAC chrX:13284799-13284879 35 2.73e-05 CGCTCTACCA ACTGAGCT ATCGACGGCA chrX:2364843-2364923 57 3.76e-05 ACTATATATC CCTGCGCT TAATTATTTT chrX:6292297-6292377 37 6.10e-05 GCGCTCTACC CCTGAGCT ATACCCCCGT chrIII:5295034-5295114 1 7.13e-05 . ACTGCGCC ACGCTGCTGC chrII:7184077-7184157 51 7.13e-05 GCGCACATCC ACTGCGCC ATTCTGCCAC chrI:852188-852268 41 7.13e-05 GCCTTAGACT ACTGCGCC ACGCGTGCGA chrX:16056622-16056702 29 1.06e-04 AGGATGGCTA CCTGCGCG AGTGGCCACA chrX:2997081-2997161 43 1.06e-04 CTACTTCCTC CCTGCGCG ATAAATTTAA chrX:3371449-3371529 29 1.06e-04 ACGCTCTGCC ACTGAGCC AATGAGGCGC chrX:11094202-11094282 25 1.06e-04 GTGAGGTGTC CCTGCGCG AATGGTTCCC chrX:14525895-14525975 6 1.06e-04 CTGTC CCTGCGCG ATAGGCAATA chrX:8811065-8811145 41 1.06e-04 CGTCCCTCTC CCTGCGCG TCGCGTGTTC chrX:16682064-16682144 36 1.06e-04 GCCCAATGTT CCTGCGCG ATGGTGTTCC chrIV:9477721-9477801 35 1.15e-04 ACTTTTACCA CCTGCGCC ATGCGGGCAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MCTGMGCT MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:7574058-7574138 1.2e-05 23_[+3]_49 chrV:6889043-6889123 1.2e-05 18_[+3]_54 chrX:14063985-14064065 2.7e-05 17_[+3]_55 chrX:5085641-5085721 2.7e-05 38_[+3]_34 chrI:13297658-13297738 2.7e-05 71_[+3]_1 chrX:16209830-16209910 2.7e-05 6_[+3]_66 chrX:11935110-11935190 2.7e-05 25_[+3]_47 chrI:11579719-11579799 2.7e-05 43_[+3]_29 chrX:9637867-9637947 2.7e-05 40_[+3]_32 chrV:20694140-20694220 2.7e-05 36_[+3]_36 chrX:13284799-13284879 2.7e-05 34_[+3]_38 chrX:2364843-2364923 3.8e-05 56_[+3]_16 chrX:6292297-6292377 6.1e-05 36_[+3]_36 chrIII:5295034-5295114 7.1e-05 [+3]_72 chrII:7184077-7184157 7.1e-05 50_[+3]_22 chrI:852188-852268 7.1e-05 40_[+3]_32 chrX:16056622-16056702 0.00011 28_[+3]_44 chrX:2997081-2997161 0.00011 42_[+3]_30 chrX:3371449-3371529 0.00011 28_[+3]_44 chrX:11094202-11094282 0.00011 24_[+3]_48 chrX:14525895-14525975 0.00011 5_[+3]_67 chrX:8811065-8811145 0.00011 40_[+3]_32 chrX:16682064-16682144 0.00011 35_[+3]_37 chrIV:9477721-9477801 0.00011 34_[+3]_38 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MCTGMGCT MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF MCTGMGCT width=8 seqs=24 chrIV:7574058-7574138 ( 24) ACTGCGCT 1 chrV:6889043-6889123 ( 19) ACTGCGCT 1 chrX:14063985-14064065 ( 18) ACTGAGCT 1 chrX:5085641-5085721 ( 39) ACTGAGCT 1 chrI:13297658-13297738 ( 72) ACTGAGCT 1 chrX:16209830-16209910 ( 7) ACTGAGCT 1 chrX:11935110-11935190 ( 26) ACTGAGCT 1 chrI:11579719-11579799 ( 44) ACTGAGCT 1 chrX:9637867-9637947 ( 41) ACTGAGCT 1 chrV:20694140-20694220 ( 37) ACTGAGCT 1 chrX:13284799-13284879 ( 35) ACTGAGCT 1 chrX:2364843-2364923 ( 57) CCTGCGCT 1 chrX:6292297-6292377 ( 37) CCTGAGCT 1 chrIII:5295034-5295114 ( 1) ACTGCGCC 1 chrII:7184077-7184157 ( 51) ACTGCGCC 1 chrI:852188-852268 ( 41) ACTGCGCC 1 chrX:16056622-16056702 ( 29) CCTGCGCG 1 chrX:2997081-2997161 ( 43) CCTGCGCG 1 chrX:3371449-3371529 ( 29) ACTGAGCC 1 chrX:11094202-11094282 ( 25) CCTGCGCG 1 chrX:14525895-14525975 ( 6) CCTGCGCG 1 chrX:8811065-8811145 ( 41) CCTGCGCG 1 chrX:16682064-16682144 ( 36) CCTGCGCG 1 chrIV:9477721-9477801 ( 35) CCTGCGCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MCTGMGCT MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.6693 E= 7.9e-001 121 74 -1123 -1123 -1123 216 -1123 -1123 -1123 -1123 -1123 189 -1123 -1123 207 -1123 77 127 -1123 -1123 -1123 -1123 207 -1123 -1123 216 -1123 -1123 -1123 -10 7 101 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MCTGMGCT MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 24 E= 7.9e-001 0.625000 0.375000 0.000000 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 0.458333 0.541667 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.208333 0.250000 0.541667 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MCTGMGCT MEME-3 regular expression -------------------------------------------------------------------------------- [AC]CTG[CA]GC[TGC] -------------------------------------------------------------------------------- Time 12.78 secs. ******************************************************************************** ******************************************************************************** MOTIF ACAGACGC MEME-4 width = 8 sites = 14 llr = 138 E-value = 1.9e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif ACAGACGC MEME-4 Description -------------------------------------------------------------------------------- Simplified A 9:9:a::: pos.-specific C :811:a:a probability G 12:9::a: matrix T :::::::: bits 2.2 *** 1.9 **** 1.7 ***** 1.5 ****** Relative 1.3 ******** Entropy 1.1 ******** (14.3 bits) 0.9 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel ACAGACGC consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACAGACGC MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:3371449-3371529 15 1.24e-05 TGTTTACTAG ACAGACGC TCTGCCACTG chrX:2227262-2227342 67 1.24e-05 GAGAGCAGAG ACAGACGC AGGCCG chrII:3519068-3519148 60 1.24e-05 TGTTTACTAG ACAGACGC TCTGCCACTG chrV:15551793-15551873 43 1.24e-05 ctcgcatgtg acagacgc ggatactcac chrX:11935110-11935190 12 1.24e-05 TGTTTACGAG ACAGACGC TCTGCCACTG chrX:16619303-16619383 67 1.24e-05 ctcgcatgtg acagacgc ggatac chrX:16604686-16604766 71 1.24e-05 CTCGCATGTG ACAGACGC GG chrX:16929833-16929913 41 2.56e-05 AGCCTCAGCA AGAGACGC CTATAAATAC chrIII:13643714-13643794 64 2.56e-05 CGCAGCGCGT AGAGACGC AGACATGTA chrX:6292297-6292377 69 2.56e-05 CATTTGAGTA AGAGACGC AAGT chrX:6220080-6220160 32 3.65e-05 TGCTCCGTAG GCAGACGC GTTATCCATT chrX:11252605-11252685 27 3.65e-05 TGCTCCGTAG GCAGACGC GTTATCCATT chrII:14018440-14018520 33 4.68e-05 AACGTAATAA ACCGACGC GGCGGACAAC chrI:6105734-6105814 57 5.85e-05 CACACAAAAC ACACACGC TACCGGTGAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACAGACGC MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:3371449-3371529 1.2e-05 14_[+4]_58 chrX:2227262-2227342 1.2e-05 66_[+4]_6 chrII:3519068-3519148 1.2e-05 59_[+4]_13 chrV:15551793-15551873 1.2e-05 42_[+4]_30 chrX:11935110-11935190 1.2e-05 11_[+4]_61 chrX:16619303-16619383 1.2e-05 66_[+4]_6 chrX:16604686-16604766 1.2e-05 70_[+4]_2 chrX:16929833-16929913 2.6e-05 40_[+4]_32 chrIII:13643714-13643794 2.6e-05 63_[+4]_9 chrX:6292297-6292377 2.6e-05 68_[+4]_4 chrX:6220080-6220160 3.7e-05 31_[+4]_41 chrX:11252605-11252685 3.7e-05 26_[+4]_46 chrII:14018440-14018520 4.7e-05 32_[+4]_40 chrI:6105734-6105814 5.9e-05 56_[+4]_16 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACAGACGC MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF ACAGACGC width=8 seqs=14 chrX:3371449-3371529 ( 15) ACAGACGC 1 chrX:2227262-2227342 ( 67) ACAGACGC 1 chrII:3519068-3519148 ( 60) ACAGACGC 1 chrV:15551793-15551873 ( 43) ACAGACGC 1 chrX:11935110-11935190 ( 12) ACAGACGC 1 chrX:16619303-16619383 ( 67) ACAGACGC 1 chrX:16604686-16604766 ( 71) ACAGACGC 1 chrX:16929833-16929913 ( 41) AGAGACGC 1 chrIII:13643714-13643794 ( 64) AGAGACGC 1 chrX:6292297-6292377 ( 69) AGAGACGC 1 chrX:6220080-6220160 ( 32) GCAGACGC 1 chrX:11252605-11252685 ( 27) GCAGACGC 1 chrII:14018440-14018520 ( 33) ACCGACGC 1 chrI:6105734-6105814 ( 57) ACACACGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACAGACGC MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.9532 E= 1.9e+001 167 -1045 -73 -1045 -1045 181 -15 -1045 179 -165 -1045 -1045 -1045 -165 197 -1045 189 -1045 -1045 -1045 -1045 216 -1045 -1045 -1045 -1045 207 -1045 -1045 216 -1045 -1045 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACAGACGC MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 14 E= 1.9e+001 0.857143 0.000000 0.142857 0.000000 0.000000 0.785714 0.214286 0.000000 0.928571 0.071429 0.000000 0.000000 0.000000 0.071429 0.928571 0.000000 1.000000 0.000000 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 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACAGACGC MEME-4 regular expression -------------------------------------------------------------------------------- A[CG]AGACGC -------------------------------------------------------------------------------- Time 16.37 secs. ******************************************************************************** ******************************************************************************** MOTIF GGTTCAAT MEME-5 width = 8 sites = 10 llr = 109 E-value = 2.1e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGTTCAAT MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::aa: pos.-specific C ::::a::: probability G aa:::::: matrix T ::aa:::a bits 2.2 ** * 1.9 ******** 1.7 ******** 1.5 ******** Relative 1.3 ******** Entropy 1.1 ******** (15.8 bits) 0.9 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GGTTCAAT consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTTCAAT MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:6207834-6207914 65 1.79e-05 CGTACTCTCT GGTTCAAT CCCCGCCG chrIV:2805651-2805731 26 1.79e-05 gcgagacccg ggttcaat tcccggccgG chrIV:683040-683120 73 1.79e-05 gcgagacccg ggttcaat chrIII:11792767-11792847 65 1.79e-05 GAAGGTCGGC GGTTCAAT CCCGCCTG chrX:2553592-2553672 23 1.79e-05 gcgagacccg ggttcaat tcccggccgG chrIV:16398400-16398480 34 1.79e-05 AGAGGGCTGG GGTTCAAT TCCCCATACC chrX:3348056-3348136 38 1.79e-05 CGTACACTCT GGTTCAAT CCCCGCTGCG chrX:6867878-6867958 47 1.79e-05 GGCACCCACT GGTTCAAT TCCCTGTGTA chrX:7323730-7323810 73 1.79e-05 AGAGGGCTGG GGTTCAAT chrX:9238845-9238925 69 1.79e-05 AGAGGGCTGG GGTTCAAT TCCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTTCAAT MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:6207834-6207914 1.8e-05 64_[+5]_8 chrIV:2805651-2805731 1.8e-05 25_[+5]_47 chrIV:683040-683120 1.8e-05 72_[+5] chrIII:11792767-11792847 1.8e-05 64_[+5]_8 chrX:2553592-2553672 1.8e-05 22_[+5]_50 chrIV:16398400-16398480 1.8e-05 33_[+5]_39 chrX:3348056-3348136 1.8e-05 37_[+5]_35 chrX:6867878-6867958 1.8e-05 46_[+5]_26 chrX:7323730-7323810 1.8e-05 72_[+5] chrX:9238845-9238925 1.8e-05 68_[+5]_4 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTTCAAT MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGTTCAAT width=8 seqs=10 chrX:6207834-6207914 ( 65) GGTTCAAT 1 chrIV:2805651-2805731 ( 26) GGTTCAAT 1 chrIV:683040-683120 ( 73) GGTTCAAT 1 chrIII:11792767-11792847 ( 65) GGTTCAAT 1 chrX:2553592-2553672 ( 23) GGTTCAAT 1 chrIV:16398400-16398480 ( 34) GGTTCAAT 1 chrX:3348056-3348136 ( 38) GGTTCAAT 1 chrX:6867878-6867958 ( 47) GGTTCAAT 1 chrX:7323730-7323810 ( 73) GGTTCAAT 1 chrX:9238845-9238925 ( 69) GGTTCAAT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTTCAAT MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.2669 E= 2.1e+001 -997 -997 207 -997 -997 -997 207 -997 -997 -997 -997 189 -997 -997 -997 189 -997 216 -997 -997 189 -997 -997 -997 189 -997 -997 -997 -997 -997 -997 189 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTTCAAT MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 2.1e+001 0.000000 0.000000 1.000000 0.000000 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 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 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTTCAAT MEME-5 regular expression -------------------------------------------------------------------------------- GGTTCAAT -------------------------------------------------------------------------------- Time 19.92 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:11163276-11163356 9.99e-01 80 chrM:161-241 4.31e-01 80 chrM:1803-1883 7.24e-01 80 chrM:3264-3344 9.98e-01 80 chrIII:5506156-5506236 9.76e-01 80 chrX:9238845-9238925 1.90e-04 25_[+2(1.49e-05)]_35_[+5(1.79e-05)]_\ 4 chrII:13780834-13780914 6.32e-01 80 chrX:10018313-10018393 9.79e-01 80 chrX:5101144-5101224 4.28e-01 80 chrII:1149590-1149670 5.36e-01 80 chrIV:17183156-17183236 7.94e-01 80 chrM:10153-10233 1.00e+00 80 chrX:14228974-14229054 3.92e-01 80 chrM:11417-11497 9.16e-01 80 chrM:3598-3678 7.13e-01 80 chrX:3793517-3793597 3.06e-01 80 chrX:13469978-13470058 9.71e-01 80 chrX:2531446-2531526 6.58e-01 80 chrM:11119-11199 9.07e-01 80 chrIII:931569-931649 9.74e-01 80 chrX:13038885-13038965 8.35e-01 80 chrV:15547923-15548003 8.17e-01 80 chrI:933474-933554 9.79e-01 80 chrM:8225-8305 8.08e-01 80 chrM:3027-3107 9.67e-01 80 chrX:16271284-16271364 9.70e-02 26_[+1(1.17e-05)]_46 chrM:7291-7371 5.69e-01 80 chrX:9024341-9024421 9.74e-01 80 chrII:8441659-8441739 6.06e-01 80 chrM:961-1041 8.09e-01 80 chrX:10304706-10304786 9.99e-01 80 chrIII:9824609-9824689 6.74e-01 80 chrX:14477334-14477414 9.98e-01 80 chrX:14162129-14162209 4.84e-01 80 chrM:8432-8512 5.20e-01 80 chrX:12347936-12348016 6.79e-01 80 chrM:7091-7171 8.81e-01 80 chrX:11645704-11645784 6.18e-02 80 chrM:6025-6105 9.44e-01 80 chrX:15619497-15619577 2.85e-01 80 chrI:6838387-6838467 4.67e-01 80 chrV:12683378-12683458 2.14e-01 80 chrII:3113381-3113461 3.49e-01 80 chrIII:4491393-4491473 9.81e-01 80 chrM:9106-9186 9.04e-01 80 chrX:10667585-10667665 1.36e-03 60_[+1(7.94e-05)]_12 chrX:7323730-7323810 6.11e-04 29_[+2(1.49e-05)]_35_[+5(1.79e-05)] chrX:9237897-9237977 9.37e-01 80 chrM:2114-2194 9.56e-01 80 chrV:6277834-6277914 8.82e-01 80 chrX:13284799-13284879 4.02e-02 34_[+3(2.73e-05)]_38 chrM:4660-4740 8.22e-01 80 chrII:12541760-12541840 1.00e+00 80 chrX:13714858-13714938 3.44e-02 36_[+2(1.49e-05)]_36 chrIII:1951438-1951518 9.21e-01 80 chrM:6230-6310 1.00e+00 80 chrX:6867878-6867958 2.10e-02 46_[+5(1.79e-05)]_26 chrX:13293236-13293316 2.87e-02 8_[+1(7.94e-05)]_64 chrIII:6415344-6415424 9.05e-01 80 chrM:12375-12455 6.24e-01 80 chrI:11803345-11803425 4.34e-01 80 chrX:16144834-16144914 5.34e-01 80 chrIV:14013774-14013854 4.34e-02 45_[+1(1.17e-05)]_27 chrV:14028376-14028456 1.65e-01 80 chrIV:15933287-15933367 8.49e-01 80 chrIII:4195242-4195322 2.32e-01 80 chrM:2313-2393 7.48e-01 80 chrM:4867-4947 5.69e-01 80 chrX:16677309-16677389 8.41e-01 80 chrX:8638953-8639033 2.43e-01 80 chrII:5353823-5353903 3.84e-01 80 chrM:12578-12658 8.71e-01 80 chrX:11872269-11872349 3.64e-01 80 chrV:19142835-19142915 1.88e-02 5_[+1(7.94e-05)]_67 chrX:2527975-2528055 8.93e-02 80 chrIV:2664955-2665035 2.01e-02 24_[+2(5.29e-05)]_48 chrM:1165-1245 9.79e-01 80 chrX:10145114-10145194 1.37e-01 80 chrIV:16399241-16399321 4.19e-01 80 chrX:10731940-10732020 3.44e-01 63_[+1(9.34e-05)]_9 chrIII:9510132-9510212 9.81e-01 80 chrX:16604686-16604766 2.82e-03 48_[+1(5.13e-05)]_14_[+4(1.24e-05)]_\ 2 chrIII:3869591-3869671 9.92e-01 80 chrV:5284756-5284836 9.42e-01 80 chrI:6847033-6847113 8.41e-01 80 chrII:14018241-14018321 6.73e-01 80 chrX:13442648-13442728 2.38e-01 80 chrV:20497694-20497774 6.76e-01 80 chrIII:13464831-13464911 1.10e-01 80 chrV:5667449-5667529 5.22e-01 80 chrX:13653753-13653833 7.85e-02 80 chrX:15200854-15200934 7.16e-01 80 chrIII:698938-699018 4.63e-01 80 chrI:852188-852268 1.39e-01 40_[+3(7.13e-05)]_32 chrV:11076447-11076527 9.90e-01 80 chrIII:12250745-12250825 8.56e-01 80 chrX:16619303-16619383 2.60e-03 44_[+1(5.13e-05)]_14_[+4(1.24e-05)]_\ 6 chrV:9318150-9318230 8.97e-02 58_[+2(1.49e-05)]_14 chrX:4007724-4007804 9.77e-01 80 chrX:8608841-8608921 4.22e-01 80 chrIV:9477721-9477801 2.20e-01 80 chrII:15025666-15025746 1.56e-01 80 chrIII:7729637-7729717 5.52e-01 80 chrII:8547071-8547151 5.94e-01 80 chrX:15297582-15297662 4.74e-01 80 chrIII:5769929-5770009 5.63e-02 37_[+1(2.57e-05)]_35 chrI:12654734-12654814 3.25e-01 80 chrII:14616993-14617073 9.55e-01 80 chrIV:3336745-3336825 5.83e-01 80 chrI:2878546-2878626 9.91e-01 80 chrIII:3249176-3249256 7.53e-01 80 chrX:11252605-11252685 1.99e-03 26_[+4(3.65e-05)]_46 chrX:3348056-3348136 7.62e-03 37_[+5(1.79e-05)]_35 chrIV:16398400-16398480 1.30e-02 33_[+5(1.79e-05)]_39 chrI:2514283-2514363 1.12e-01 30_[+1(5.13e-05)]_42 chrX:2364843-2364923 6.05e-02 56_[+3(3.76e-05)]_16 chrV:20694140-20694220 1.25e-02 36_[+3(2.73e-05)]_36 chrI:11978761-11978841 2.69e-02 55_[+1(7.94e-05)]_17 chrX:9637867-9637947 5.81e-02 40_[+3(2.73e-05)]_32 chrX:10963831-10963911 3.31e-02 49_[+1(7.94e-05)]_23 chrI:11579719-11579799 8.89e-04 1_[+1(1.17e-05)]_34_[+3(2.73e-05)]_\ 29 chrX:12563789-12563869 1.61e-03 5_[+2(1.49e-05)]_67 chrV:8349093-8349173 6.74e-01 80 chrX:6371363-6371443 5.02e-02 80 chrX:1345027-1345107 4.51e-02 26_[+2(7.62e-05)]_46 chrX:6593565-6593645 1.34e-02 37_[+2(1.49e-05)]_35 chrV:6889043-6889123 4.70e-03 18_[+3(1.24e-05)]_54 chrX:12458142-12458222 1.67e-01 48_[+1(5.13e-05)]_24 chrX:12661189-12661269 2.16e-01 80 chrX:12363154-12363234 4.11e-01 80 chrIII:1604664-1604744 8.76e-02 52_[+1(1.17e-05)]_20 chrX:13448799-13448879 3.97e-01 80 chrII:14018440-14018520 9.17e-02 32_[+4(4.68e-05)]_40 chrX:11935110-11935190 1.85e-03 11_[+4(1.24e-05)]_6_[+3(2.73e-05)]_\ 47 chrI:6164200-6164280 1.12e-01 80 chrX:11467344-11467424 7.88e-02 80 chrX:2553592-2553672 2.93e-02 22_[+5(1.79e-05)]_50 chrV:15551793-15551873 2.82e-03 20_[+1(5.13e-05)]_14_[+4(1.24e-05)]_\ 30 chrX:1837833-1837913 2.66e-02 9_[+1(6.53e-05)]_63 chrIII:11792767-11792847 1.07e-04 21_[+2(1.49e-05)]_35_[+5(1.79e-05)]_\ 8 chrII:8107253-8107333 3.00e-01 80 chrX:7181765-7181845 5.40e-02 80 chrX:6220080-6220160 2.10e-03 4_[+1(9.34e-05)]_19_[+4(3.65e-05)]_\ 41 chrIV:683040-683120 5.21e-02 72_[+5(1.79e-05)] chrIV:2805651-2805731 2.93e-02 25_[+5(1.79e-05)]_47 chrX:6292297-6292377 2.17e-03 36_[+3(6.10e-05)]_24_[+4(2.56e-05)]_\ 4 chrIV:11026018-11026098 7.29e-01 80 chrIV:16776045-16776125 7.58e-01 80 chrX:16928260-16928340 2.66e-02 25_[+1(1.17e-05)]_47 chrI:8259518-8259598 7.94e-01 80 chrII:7184077-7184157 7.10e-02 50_[+3(7.13e-05)]_22 chrX:1379568-1379648 5.84e-02 49_[+1(1.17e-05)]_23 chrX:5319330-5319410 8.87e-01 80 chrII:11224241-11224321 6.18e-01 80 chrX:16682064-16682144 2.37e-01 80 chrIII:836087-836167 6.84e-01 80 chrX:14804838-14804918 3.65e-02 45_[+2(1.49e-05)]_27 chrV:15873930-15874010 3.17e-01 80 chrII:5105152-5105232 5.28e-01 80 chrX:12665162-12665242 8.09e-02 72_[+2(1.49e-05)] chrII:11484726-11484806 1.89e-01 80 chrX:9465844-9465924 4.62e-01 80 chrIII:5305842-5305922 2.52e-02 69_[+2(1.49e-05)]_3 chrX:1389584-1389664 6.78e-01 80 chrIII:4378691-4378771 5.70e-02 80 chrV:12596952-12597032 1.11e-01 80 chrV:15191052-15191132 6.85e-02 49_[+1(5.13e-05)]_23 chrIV:8252998-8253078 7.49e-01 80 chrIII:5602180-5602260 4.23e-01 80 chrV:9970274-9970354 1.26e-01 80 chrV:16370121-16370201 3.97e-02 33_[+2(5.29e-05)]_39 chrX:489914-489994 9.82e-01 80 chrX:6092067-6092147 6.52e-01 80 chrIV:11474224-11474304 4.24e-01 80 chrII:5782064-5782144 4.38e-01 80 chrIII:502707-502787 8.13e-02 80 chrX:8811065-8811145 6.45e-02 80 chrX:11937533-11937613 1.67e-01 80 chrX:806651-806731 6.87e-02 20_[+2(7.62e-05)]_52 chrI:5706953-5707033 2.06e-01 80 chrX:11095633-11095713 1.53e-01 80 chrX:13700844-13700924 8.99e-01 80 chrX:9743636-9743716 5.36e-03 5_[+1(7.94e-05)]_67 chrII:15166050-15166130 3.21e-01 80 chrII:3519068-3519148 2.52e-03 32_[+1(6.53e-05)]_19_[+4(1.24e-05)]_\ 13 chrIV:8927188-8927268 1.06e-02 66_[+1(7.94e-05)]_6 chrV:8500527-8500607 1.79e-01 80 chrX:4209292-4209372 1.18e-01 80 chrV:11314169-11314249 3.33e-01 80 chrV:1151465-1151545 1.43e-01 80 chrIII:13643714-13643794 6.14e-02 63_[+4(2.56e-05)]_9 chrV:12303574-12303654 2.72e-01 80 chrX:13665606-13665686 1.38e-02 48_[+1(2.57e-05)]_24 chrX:13306999-13307079 2.66e-01 80 chrX:15741979-15742059 5.87e-01 80 chrII:11960796-11960876 7.01e-04 29_[+2(5.29e-05)]_43 chrX:16209830-16209910 1.03e-01 6_[+3(2.73e-05)]_66 chrX:6207834-6207914 1.60e-02 64_[+5(1.79e-05)]_8 chrX:353225-353305 4.01e-03 44_[+1(1.17e-05)]_28 chrV:19643160-19643240 3.03e-02 30_[+1(1.17e-05)]_42 chrX:8036624-8036704 7.74e-01 80 chrX:14525895-14525975 7.50e-02 80 chrII:12494718-12494798 3.62e-02 29_[+2(1.49e-05)]_43 chrX:2227262-2227342 3.36e-02 66_[+4(1.24e-05)]_6 chrIII:8937779-8937859 7.86e-01 80 chrX:3036098-3036178 9.67e-01 80 chrX:11094202-11094282 1.10e-02 80 chrX:6296532-6296612 1.74e-01 13_[+2(5.29e-05)]_20_[+2(7.62e-05)]_\ 31 chrV:12002159-12002239 1.13e-01 23_[+2(5.29e-05)]_49 chrI:13463922-13464002 5.14e-01 80 chrX:1880850-1880930 4.65e-01 80 chrI:13297658-13297738 8.89e-04 29_[+1(1.17e-05)]_34_[+3(2.73e-05)]_\ 1 chrI:6105734-6105814 8.06e-03 27_[+1(6.53e-05)]_21_[+4(5.85e-05)]_\ 16 chrIV:11549835-11549915 4.96e-03 39_[+1(1.17e-05)]_33 chrII:8547274-8547354 4.61e-01 80 chrX:8404458-8404538 2.20e-01 80 chrIII:5031625-5031705 5.01e-01 80 chrX:3371449-3371529 2.44e-03 14_[+4(1.24e-05)]_58 chrX:1627130-1627210 8.19e-01 80 chrX:3697753-3697833 3.75e-03 9_[+2(2.80e-05)]_63 chrX:5429608-5429688 9.73e-01 80 chrIII:5295034-5295114 6.90e-02 [+3(7.13e-05)]_72 chrIII:10989620-10989700 6.45e-01 80 chrX:5085641-5085721 5.82e-03 38_[+3(2.73e-05)]_34 chrX:16634782-16634862 3.03e-02 62_[+1(6.53e-05)]_10 chrX:2997081-2997161 1.99e-01 80 chrII:5844807-5844887 4.04e-01 80 chrV:11782952-11783032 4.02e-01 80 chrX:2549571-2549651 2.97e-01 80 chrI:4172334-4172414 9.01e-01 80 chrIII:3867548-3867628 4.47e-01 80 chrII:14251603-14251683 5.61e-01 80 chrV:13003421-13003501 9.50e-01 80 chrIII:5080879-5080959 9.44e-01 80 chrX:16929833-16929913 1.28e-02 40_[+4(2.56e-05)]_32 chrX:14063985-14064065 1.85e-03 17_[+3(2.73e-05)]_55 chrI:7500558-7500638 5.47e-01 80 chrX:16056622-16056702 2.11e-01 80 chrIV:14033990-14034070 3.08e-01 80 chrV:15465056-15465136 3.46e-03 36_[+2(1.49e-05)]_36 chrX:8404659-8404739 5.42e-01 80 chrIV:7574058-7574138 1.26e-05 9_[+2(5.29e-05)]_6_[+3(1.24e-05)]_\ 23_[+1(2.57e-05)]_18 chrII:5543840-5543920 9.57e-01 80 chrX:13046427-13046507 8.48e-01 80 chrI:2084954-2085034 3.12e-01 80 chrX:5801376-5801456 7.31e-01 80 chrX:410294-410374 8.17e-01 80 chrIII:10989838-10989918 9.52e-01 80 chrI:1835516-1835596 3.24e-01 80 chrIII:10759244-10759324 3.81e-01 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n10.farnam.hpc.yale.internal ********************************************************************************