******************************************************************************** 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/tra-4.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrIV:568486-568566 1.0000 80 chrIV:7487762-7487842 1.0000 80 chrIII:3500018-3500098 1.0000 80 chrI:6289795-6289875 1.0000 80 chrI:14651592-14651672 1.0000 80 chrX:7457761-7457841 1.0000 80 chrX:2039003-2039083 1.0000 80 chrV:12353258-12353338 1.0000 80 chrIII:1420136-1420216 1.0000 80 chrIII:13299372-13299452 1.0000 80 chrI:12044032-12044112 1.0000 80 chrV:5284760-5284840 1.0000 80 chrIV:7488402-7488482 1.0000 80 chrV:1585769-1585849 1.0000 80 chrX:8156096-8156176 1.0000 80 chrIV:16398344-16398424 1.0000 80 chrI:1842234-1842314 1.0000 80 chrII:11747307-11747387 1.0000 80 chrIV:1054734-1054814 1.0000 80 chrV:13176484-13176564 1.0000 80 chrII:11038989-11039069 1.0000 80 chrII:2453006-2453086 1.0000 80 chrV:8791219-8791299 1.0000 80 chrII:12198843-12198923 1.0000 80 chrX:3914411-3914491 1.0000 80 chrIII:12616632-12616712 1.0000 80 chrIV:9773726-9773806 1.0000 80 chrIII:8804919-8804999 1.0000 80 chrX:12890296-12890376 1.0000 80 chrX:13415097-13415177 1.0000 80 chrI:11680828-11680908 1.0000 80 chrV:6222281-6222361 1.0000 80 chrX:9078316-9078396 1.0000 80 chrIII:12598844-12598924 1.0000 80 chrX:8818018-8818098 1.0000 80 chrIII:4805872-4805952 1.0000 80 chrIV:8821570-8821650 1.0000 80 chrII:7001606-7001686 1.0000 80 chrI:11579728-11579808 1.0000 80 chrV:14689496-14689576 1.0000 80 chrIII:8650445-8650525 1.0000 80 chrI:1575688-1575768 1.0000 80 chrX:14115695-14115775 1.0000 80 chrX:13145071-13145151 1.0000 80 chrII:3372877-3372957 1.0000 80 chrI:108238-108318 1.0000 80 chrII:8929825-8929905 1.0000 80 chrIII:3175128-3175208 1.0000 80 chrIII:4491061-4491141 1.0000 80 chrV:11345137-11345217 1.0000 80 chrII:3597159-3597239 1.0000 80 chrIV:11407382-11407462 1.0000 80 chrV:19722967-19723047 1.0000 80 chrIII:12619334-12619414 1.0000 80 chrII:14063219-14063299 1.0000 80 chrV:265395-265475 1.0000 80 chrII:12787873-12787953 1.0000 80 chrI:11210939-11211019 1.0000 80 chrIV:11407082-11407162 1.0000 80 chrI:1701139-1701219 1.0000 80 chrV:14686146-14686226 1.0000 80 chrIII:7733750-7733830 1.0000 80 chrIV:3552208-3552288 1.0000 80 chrIII:3476324-3476404 1.0000 80 chrI:6136628-6136708 1.0000 80 chrIII:5024559-5024639 1.0000 80 chrV:8235456-8235536 1.0000 80 chrX:14490201-14490281 1.0000 80 chrX:8646471-8646551 1.0000 80 chrII:10169652-10169732 1.0000 80 chrIII:89315-89395 1.0000 80 chrIV:9772542-9772622 1.0000 80 chrI:2737991-2738071 1.0000 80 chrII:5293432-5293512 1.0000 80 chrIV:8334358-8334438 1.0000 80 chrV:1870807-1870887 1.0000 80 chrX:8386172-8386252 1.0000 80 chrV:6226627-6226707 1.0000 80 chrV:3455613-3455693 1.0000 80 chrIV:5961418-5961498 1.0000 80 chrIV:9191343-9191423 1.0000 80 chrII:7708776-7708856 1.0000 80 chrI:1741125-1741205 1.0000 80 chrI:1069933-1070013 1.0000 80 chrIII:10624668-10624748 1.0000 80 chrX:14804877-14804957 1.0000 80 chrV:14855750-14855830 1.0000 80 chrII:11547650-11547730 1.0000 80 chrV:1003925-1004005 1.0000 80 chrII:11959369-11959449 1.0000 80 chrX:12503658-12503738 1.0000 80 chrIII:4280788-4280868 1.0000 80 chrX:5319361-5319441 1.0000 80 chrI:8135265-8135345 1.0000 80 chrIII:931530-931610 1.0000 80 chrX:9024454-9024534 1.0000 80 chrIII:1604725-1604805 1.0000 80 chrI:11584869-11584949 1.0000 80 chrIV:11026177-11026257 1.0000 80 chrI:2299713-2299793 1.0000 80 chrIII:4568693-4568773 1.0000 80 chrII:12042350-12042430 1.0000 80 chrIV:11602125-11602205 1.0000 80 chrIII:9104227-9104307 1.0000 80 chrX:3347955-3348035 1.0000 80 chrI:11670195-11670275 1.0000 80 chrI:14721619-14721699 1.0000 80 chrV:15551786-15551866 1.0000 80 chrIII:9451284-9451364 1.0000 80 chrV:2674014-2674094 1.0000 80 chrX:16930147-16930227 1.0000 80 chrIV:620499-620579 1.0000 80 chrIII:8106655-8106735 1.0000 80 chrV:12780419-12780499 1.0000 80 chrX:16602629-16602709 1.0000 80 chrII:11726840-11726920 1.0000 80 chrII:6248630-6248710 1.0000 80 chrIV:7486385-7486465 1.0000 80 chrIII:12615271-12615351 1.0000 80 chrIII:4426815-4426895 1.0000 80 chrI:6835585-6835665 1.0000 80 chrV:11933500-11933580 1.0000 80 chrI:13421147-13421227 1.0000 80 chrIII:13721294-13721374 1.0000 80 chrIV:9477701-9477781 1.0000 80 chrIII:4171160-4171240 1.0000 80 chrII:7809362-7809442 1.0000 80 chrV:12596977-12597057 1.0000 80 chrI:7772596-7772676 1.0000 80 chrV:11113321-11113401 1.0000 80 chrX:10821337-10821417 1.0000 80 chrIII:11007844-11007924 1.0000 80 chrV:1875781-1875861 1.0000 80 chrX:2368551-2368631 1.0000 80 chrX:1858820-1858900 1.0000 80 chrI:13297700-13297780 1.0000 80 chrX:5707992-5708072 1.0000 80 chrIII:3664366-3664446 1.0000 80 chrIV:16398547-16398627 1.0000 80 chrII:8547122-8547202 1.0000 80 chrII:5836525-5836605 1.0000 80 chrIII:11371419-11371499 1.0000 80 chrIV:143956-144036 1.0000 80 chrI:9267124-9267204 1.0000 80 chrIII:6158748-6158828 1.0000 80 chrIII:8768079-8768159 1.0000 80 chrIV:3233138-3233218 1.0000 80 chrX:13121195-13121275 1.0000 80 chrV:20694127-20694207 1.0000 80 chrI:2935755-2935835 1.0000 80 chrIII:12250655-12250735 1.0000 80 chrIV:3524824-3524904 1.0000 80 chrII:3567776-3567856 1.0000 80 chrIII:5555103-5555183 1.0000 80 chrIV:16776085-16776165 1.0000 80 chrI:1958530-1958610 1.0000 80 chrV:13962171-13962251 1.0000 80 chrIII:5294982-5295062 1.0000 80 chrV:15082443-15082523 1.0000 80 chrII:4238026-4238106 1.0000 80 chrII:5292322-5292402 1.0000 80 chrX:11252555-11252635 1.0000 80 chrIV:9511357-9511437 1.0000 80 chrI:1175839-1175919 1.0000 80 chrV:19126055-19126135 1.0000 80 chrIII:4470918-4470998 1.0000 80 chrI:13161024-13161104 1.0000 80 chrIV:17278785-17278865 1.0000 80 chrII:9566207-9566287 1.0000 80 chrII:14635362-14635442 1.0000 80 chrIV:2805685-2805765 1.0000 80 chrV:13715461-13715541 1.0000 80 chrIV:14034245-14034325 1.0000 80 chrIII:5308374-5308454 1.0000 80 chrIII:640556-640636 1.0000 80 chrI:4967548-4967628 1.0000 80 chrII:6853170-6853250 1.0000 80 chrV:11610614-11610694 1.0000 80 chrI:2514318-2514398 1.0000 80 chrIV:17087505-17087585 1.0000 80 chrI:2410147-2410227 1.0000 80 chrX:8386372-8386452 1.0000 80 chrII:14528477-14528557 1.0000 80 chrIII:535438-535518 1.0000 80 chrI:2689000-2689080 1.0000 80 chrIII:11317279-11317359 1.0000 80 chrX:6292322-6292402 1.0000 80 chrI:9988972-9989052 1.0000 80 chrV:9503531-9503611 1.0000 80 chrIII:5602189-5602269 1.0000 80 chrX:12563807-12563887 1.0000 80 chrV:6888907-6888987 1.0000 80 chrX:9637876-9637956 1.0000 80 chrIV:12086595-12086675 1.0000 80 chrII:8107302-8107382 1.0000 80 chrII:9774814-9774894 1.0000 80 chrII:3521486-3521566 1.0000 80 chrI:8530174-8530254 1.0000 80 chrIV:6556817-6556897 1.0000 80 chrX:12661232-12661312 1.0000 80 chrIV:11549914-11549994 1.0000 80 chrIV:8253004-8253084 1.0000 80 chrX:16590885-16590965 1.0000 80 chrI:13310367-13310447 1.0000 80 chrX:3697724-3697804 1.0000 80 chrIV:11027641-11027721 1.0000 80 chrI:9268968-9269048 1.0000 80 chrI:6105769-6105849 1.0000 80 chrIV:192173-192253 1.0000 80 chrIII:1950407-1950487 1.0000 80 chrX:1379620-1379700 1.0000 80 chrIII:8678491-8678571 1.0000 80 chrIV:8375562-8375642 1.0000 80 chrIII:8937675-8937755 1.0000 80 chrII:13199852-13199932 1.0000 80 chrII:6968348-6968428 1.0000 80 chrX:12458195-12458275 1.0000 80 chrIII:9861679-9861759 1.0000 80 chrV:16592253-16592333 1.0000 80 chrI:1823123-1823203 1.0000 80 chrX:11935038-11935118 1.0000 80 chrIII:10461297-10461377 1.0000 80 chrII:12494735-12494815 1.0000 80 chrX:3970040-3970120 1.0000 80 chrIII:836009-836089 1.0000 80 chrX:2549523-2549603 1.0000 80 chrX:353283-353363 1.0000 80 chrX:3371385-3371465 1.0000 80 chrX:13511977-13512057 1.0000 80 chrII:7200208-7200288 1.0000 80 chrIII:9054052-9054132 1.0000 80 chrI:1415999-1416079 1.0000 80 chrI:8259517-8259597 1.0000 80 chrII:5032956-5033036 1.0000 80 chrV:13789686-13789766 1.0000 80 chrII:5032754-5032834 1.0000 80 chrV:16370094-16370174 1.0000 80 chrX:11643890-11643970 1.0000 80 chrV:19643212-19643292 1.0000 80 chrIV:14034041-14034121 1.0000 80 chrX:6371370-6371450 1.0000 80 chrII:11484758-11484838 1.0000 80 chrX:12106184-12106264 1.0000 80 chrI:14113212-14113292 1.0000 80 chrII:14251816-14251896 1.0000 80 chrIII:4568896-4568976 1.0000 80 chrX:2227222-2227302 1.0000 80 chrX:489886-489966 1.0000 80 chrI:10642452-10642532 1.0000 80 chrIII:4689774-4689854 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_tra-4/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/tra-4.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 0.271 C 0.235 G 0.237 T 0.257 Background letter frequencies (from file dataset with add-one prior applied): A 0.271 C 0.235 G 0.237 T 0.257 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF CRCKCGGC MEME-1 width = 8 sites = 26 llr = 237 E-value = 3.5e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif CRCKCGGC MEME-1 Description -------------------------------------------------------------------------------- Simplified A :5:::::: pos.-specific C a:6:a::a probability G :525:aa: matrix T ::25:::: bits 2.1 * **** 1.9 * **** 1.7 * **** 1.5 * **** Relative 1.3 * **** Entropy 1.0 ** ***** (13.1 bits) 0.8 ** ***** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CACGCGGC consensus G T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCKCGGC MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIII:10461297-10461377 1 9.62e-06 . CGCGCGGC ACACTTGCGA chrV:13962171-13962251 36 9.62e-06 GCATAAACTG CGCGCGGC AACTGCAAAA chrIII:4171160-4171240 5 9.62e-06 TCTG CGCGCGGC ATATCTGCAA chrIII:4568693-4568773 30 9.62e-06 ATGAAAATGT CGCGCGGC GGAATTGCGA chrIII:4470918-4470998 32 2.06e-05 TCCATTAGGC CACGCGGC CACGAGAGCA chrX:1858820-1858900 38 2.06e-05 GGTTTTCACC CACGCGGC CCGGGTTCGA chrX:8646471-8646551 48 2.06e-05 GGTTTTCACC CACGCGGC CCGGGTTCGA chrIII:9054052-9054132 68 3.11e-05 GACAGCTAAA CGCTCGGC AAGCG chrX:353283-353363 37 3.11e-05 CGCCTTAGAC CGCTCGGC CATCTCTCCA chrII:14635362-14635442 38 3.11e-05 CGCCTTAGAC CGCTCGGC CATCTCACCG chrII:11484758-11484838 47 4.30e-05 ACGCGCACAC CACTCGGC CACAAATGCA chrIII:11371419-11371499 46 4.30e-05 AACACACTGC CACTCGGC CACGCGTGCA chrV:12596977-12597057 58 4.30e-05 AGGACACAAC CACTCGGC CATCGAATCG chrII:11726840-11726920 25 4.30e-05 GCTCGCGTTC CACTCGGC TGCGGAGGCG chrX:16602629-16602709 69 4.30e-05 CGCCTTGATC CACTCGGC CATC chrV:8235456-8235536 67 4.30e-05 CGCCTTAGAC CACTCGGC CATCTC chrX:12106184-12106264 31 5.27e-05 CTGAGCTAAC CGGGCGGC AATGGCATTA chrI:2514318-2514398 13 5.27e-05 CGTGGTGTTG CGGGCGGC AGGCGAACGT chrII:3567776-3567856 56 5.27e-05 CTGAGCTAAC CGGGCGGC GTTGTGACAT chrI:11579728-11579808 46 5.27e-05 CTGAGCTAAC CGGGCGGC GATCACAGTT chrI:1175839-1175919 16 7.43e-05 ACATAAACTC CGTGCGGC ACACTTGCAA chrII:4238026-4238106 53 7.43e-05 TAAAATGCCT CGTGCGGC ACACTTGCGA chrIII:9451284-9451364 14 9.69e-05 AACATAATCC CATGCGGC TTTTTATTTT chrIV:11549914-11549994 1 1.20e-04 . CAGTCGGC CATGCAATCA chrX:13511977-13512057 56 1.33e-04 ACCACTAGAC CATTCGGC CATGTTTCCC chrII:8107302-8107382 15 1.33e-04 TCACGCTAAC CATTCGGC CACAAGACGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCKCGGC MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIII:10461297-10461377 9.6e-06 [+1]_72 chrV:13962171-13962251 9.6e-06 35_[+1]_37 chrIII:4171160-4171240 9.6e-06 4_[+1]_68 chrIII:4568693-4568773 9.6e-06 29_[+1]_43 chrIII:4470918-4470998 2.1e-05 31_[+1]_41 chrX:1858820-1858900 2.1e-05 37_[+1]_35 chrX:8646471-8646551 2.1e-05 47_[+1]_25 chrIII:9054052-9054132 3.1e-05 67_[+1]_5 chrX:353283-353363 3.1e-05 36_[+1]_36 chrII:14635362-14635442 3.1e-05 37_[+1]_35 chrII:11484758-11484838 4.3e-05 46_[+1]_26 chrIII:11371419-11371499 4.3e-05 45_[+1]_27 chrV:12596977-12597057 4.3e-05 57_[+1]_15 chrII:11726840-11726920 4.3e-05 24_[+1]_48 chrX:16602629-16602709 4.3e-05 68_[+1]_4 chrV:8235456-8235536 4.3e-05 66_[+1]_6 chrX:12106184-12106264 5.3e-05 30_[+1]_42 chrI:2514318-2514398 5.3e-05 12_[+1]_60 chrII:3567776-3567856 5.3e-05 55_[+1]_17 chrI:11579728-11579808 5.3e-05 45_[+1]_27 chrI:1175839-1175919 7.4e-05 15_[+1]_57 chrII:4238026-4238106 7.4e-05 52_[+1]_20 chrIII:9451284-9451364 9.7e-05 13_[+1]_59 chrIV:11549914-11549994 0.00012 [+1]_72 chrX:13511977-13512057 0.00013 55_[+1]_17 chrII:8107302-8107382 0.00013 14_[+1]_58 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCKCGGC MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CRCKCGGC width=8 seqs=26 chrIII:10461297-10461377 ( 1) CGCGCGGC 1 chrV:13962171-13962251 ( 36) CGCGCGGC 1 chrIII:4171160-4171240 ( 5) CGCGCGGC 1 chrIII:4568693-4568773 ( 30) CGCGCGGC 1 chrIII:4470918-4470998 ( 32) CACGCGGC 1 chrX:1858820-1858900 ( 38) CACGCGGC 1 chrX:8646471-8646551 ( 48) CACGCGGC 1 chrIII:9054052-9054132 ( 68) CGCTCGGC 1 chrX:353283-353363 ( 37) CGCTCGGC 1 chrII:14635362-14635442 ( 38) CGCTCGGC 1 chrII:11484758-11484838 ( 47) CACTCGGC 1 chrIII:11371419-11371499 ( 46) CACTCGGC 1 chrV:12596977-12597057 ( 58) CACTCGGC 1 chrII:11726840-11726920 ( 25) CACTCGGC 1 chrX:16602629-16602709 ( 69) CACTCGGC 1 chrV:8235456-8235536 ( 67) CACTCGGC 1 chrX:12106184-12106264 ( 31) CGGGCGGC 1 chrI:2514318-2514398 ( 13) CGGGCGGC 1 chrII:3567776-3567856 ( 56) CGGGCGGC 1 chrI:11579728-11579808 ( 46) CGGGCGGC 1 chrI:1175839-1175919 ( 16) CGTGCGGC 1 chrII:4238026-4238106 ( 53) CGTGCGGC 1 chrIII:9451284-9451364 ( 14) CATGCGGC 1 chrIV:11549914-11549994 ( 1) CAGTCGGC 1 chrX:13511977-13512057 ( 56) CATTCGGC 1 chrII:8107302-8107382 ( 15) CATTCGGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCKCGGC MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.0846 E= 3.5e-004 -1134 209 -1134 -1134 88 -1134 107 -1134 -1134 139 -30 -42 -1134 -1134 118 85 -1134 209 -1134 -1134 -1134 -1134 207 -1134 -1134 -1134 207 -1134 -1134 209 -1134 -1134 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCKCGGC MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 26 E= 3.5e-004 0.000000 1.000000 0.000000 0.000000 0.500000 0.000000 0.500000 0.000000 0.000000 0.615385 0.192308 0.192308 0.000000 0.000000 0.538462 0.461538 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCKCGGC MEME-1 regular expression -------------------------------------------------------------------------------- C[AG]C[GT]CGGC -------------------------------------------------------------------------------- Time 6.80 secs. ******************************************************************************** ******************************************************************************** MOTIF RGGTTCGA MEME-2 width = 8 sites = 20 llr = 193 E-value = 5.6e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif RGGTTCGA MEME-2 Description -------------------------------------------------------------------------------- Simplified A 4:1::::a pos.-specific C 1::::a:: probability G 5a9:::a: matrix T 1::aa::: bits 2.1 * ** 1.9 * ***** 1.7 ******* 1.5 ******* Relative 1.3 ******* Entropy 1.0 ******* (13.9 bits) 0.8 ******* 0.6 ******* 0.4 ******* 0.2 ******** 0.0 -------- Multilevel GGGTTCGA consensus A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGGTTCGA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:16590885-16590965 57 1.33e-05 GGTCCTGGCC GGGTTCGA ACCGGCGACC chrIV:16776085-16776165 52 1.33e-05 CATTCGACGG GGGTTCGA TTCCCCCCGA chrX:1858820-1858900 48 1.33e-05 CACGCGGCCC GGGTTCGA TTCCCGGCAT chrII:5293432-5293512 69 1.33e-05 CATAAGGCCG GGGTTCGA TTCC chrX:8646471-8646551 58 1.33e-05 CACGCGGCCC GGGTTCGA TTCCCGGCAT chrI:6136628-6136708 19 1.33e-05 TGGTTGTCGC GGGTTCGA GCCCCGCATT chrII:7001606-7001686 70 1.33e-05 GAGAAGTCTG GGGTTCGA TTC chrII:5032754-5032834 67 2.84e-05 CCAAGGTCGC AGGTTCGA CCCCTG chrII:12494735-12494815 57 2.84e-05 CCAAGGTCGC AGGTTCGA CCCCTGCTGG chrIV:6556817-6556897 62 2.84e-05 AGGAGGGCGC AGGTTCGA ACCCTGCGGA chrIV:3524824-3524904 45 2.84e-05 AGAAGATTGC AGGTTCGA ATCCTGCCGT chrI:9267124-9267204 48 2.84e-05 TGGGGATTGC AGGTTCGA GTCCTGCCGT chrII:6248630-6248710 68 2.84e-05 CACACAATGT AGGTTCGA CCCCC chrX:14115695-14115775 46 2.84e-05 CGAAGACTGC AGGTTCGA GTCCTGCCTC chrIV:620499-620579 33 4.16e-05 AGAAGGTCGC CGGTTCGA ACCCGGCGAG chrII:11959369-11959449 56 4.16e-05 AGTAGGCCGC CGGTTCGA TCCCGGCCAG chrI:2410147-2410227 27 5.60e-05 TGTAGCGCGC TGGTTCGA TCCCCACCAA chrV:2674014-2674094 45 5.60e-05 AGAAGGTCGC TGGTTCGA TTCCAGCATG chrX:11252555-11252635 46 7.12e-05 GACCACGGCA GGATTCGA ACCTACAATC chrV:8235456-8235536 13 7.12e-05 GATGAGAGTG GGATTCGA ACCCACGCCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGGTTCGA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:16590885-16590965 1.3e-05 56_[+2]_16 chrIV:16776085-16776165 1.3e-05 51_[+2]_21 chrX:1858820-1858900 1.3e-05 47_[+2]_25 chrII:5293432-5293512 1.3e-05 68_[+2]_4 chrX:8646471-8646551 1.3e-05 57_[+2]_15 chrI:6136628-6136708 1.3e-05 18_[+2]_54 chrII:7001606-7001686 1.3e-05 69_[+2]_3 chrII:5032754-5032834 2.8e-05 66_[+2]_6 chrII:12494735-12494815 2.8e-05 56_[+2]_16 chrIV:6556817-6556897 2.8e-05 61_[+2]_11 chrIV:3524824-3524904 2.8e-05 44_[+2]_28 chrI:9267124-9267204 2.8e-05 47_[+2]_25 chrII:6248630-6248710 2.8e-05 67_[+2]_5 chrX:14115695-14115775 2.8e-05 45_[+2]_27 chrIV:620499-620579 4.2e-05 32_[+2]_40 chrII:11959369-11959449 4.2e-05 55_[+2]_17 chrI:2410147-2410227 5.6e-05 26_[+2]_46 chrV:2674014-2674094 5.6e-05 44_[+2]_28 chrX:11252555-11252635 7.1e-05 45_[+2]_27 chrV:8235456-8235536 7.1e-05 12_[+2]_60 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGGTTCGA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF RGGTTCGA width=8 seqs=20 chrX:16590885-16590965 ( 57) GGGTTCGA 1 chrIV:16776085-16776165 ( 52) GGGTTCGA 1 chrX:1858820-1858900 ( 48) GGGTTCGA 1 chrII:5293432-5293512 ( 69) GGGTTCGA 1 chrX:8646471-8646551 ( 58) GGGTTCGA 1 chrI:6136628-6136708 ( 19) GGGTTCGA 1 chrII:7001606-7001686 ( 70) GGGTTCGA 1 chrII:5032754-5032834 ( 67) AGGTTCGA 1 chrII:12494735-12494815 ( 57) AGGTTCGA 1 chrIV:6556817-6556897 ( 62) AGGTTCGA 1 chrIV:3524824-3524904 ( 45) AGGTTCGA 1 chrI:9267124-9267204 ( 48) AGGTTCGA 1 chrII:6248630-6248710 ( 68) AGGTTCGA 1 chrX:14115695-14115775 ( 46) AGGTTCGA 1 chrIV:620499-620579 ( 33) CGGTTCGA 1 chrII:11959369-11959449 ( 56) CGGTTCGA 1 chrI:2410147-2410227 ( 27) TGGTTCGA 1 chrV:2674014-2674094 ( 45) TGGTTCGA 1 chrX:11252555-11252635 ( 46) GGATTCGA 1 chrV:8235456-8235536 ( 13) GGATTCGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGGTTCGA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.26574 E= 5.6e-004 37 -123 92 -136 -1097 -1097 207 -1097 -144 -1097 192 -1097 -1097 -1097 -1097 196 -1097 -1097 -1097 196 -1097 209 -1097 -1097 -1097 -1097 207 -1097 188 -1097 -1097 -1097 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGGTTCGA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 20 E= 5.6e-004 0.350000 0.100000 0.450000 0.100000 0.000000 0.000000 1.000000 0.000000 0.100000 0.000000 0.900000 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 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGGTTCGA MEME-2 regular expression -------------------------------------------------------------------------------- [GA]GGTTCGA -------------------------------------------------------------------------------- Time 10.45 secs. ******************************************************************************** ******************************************************************************** MOTIF GMRCGCKC MEME-3 width = 8 sites = 26 llr = 235 E-value = 3.0e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GMRCGCKC MEME-3 Description -------------------------------------------------------------------------------- Simplified A :63::::: pos.-specific C :4:a:a:a probability G a:5:a:5: matrix T ::2:::5: bits 2.1 * *** * 1.9 * *** * 1.7 * *** * 1.5 * *** * Relative 1.3 * *** * Entropy 1.0 ** ***** (13.0 bits) 0.8 ** ***** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GAGCGCGC consensus CA T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GMRCGCKC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrII:7200208-7200288 71 2.31e-05 GTTCCCTGTT GAGCGCGC TA chrX:12458195-12458275 25 2.31e-05 CATGCTAAGG GAGCGCTC TACCACTGAG chrX:9637876-9637956 20 2.31e-05 CATGCTAAGG GAGCGCTC TACCACTGAG chrV:9503531-9503611 51 2.31e-05 CTCAGGGGTA GAGCGCTC GCTTCGCATG chrII:5292322-5292402 30 2.31e-05 CTCAGTGGTA GAGCGCTC CCTTAGCATG chrII:7001606-7001686 41 2.31e-05 CTCAGGGGTA GAGCGCTC GCTTTGCATG chrX:12890296-12890376 33 2.31e-05 CATGCGAAGC GAGCGCTC TACCCCTGAG chrIV:16398344-16398424 60 2.31e-05 CTCAGTGGTA GAGCGCTC CCTTAGCATG chrV:11610614-11610694 23 4.32e-05 TATACAATGT GCGCGCTC ATCTTGCAAA chrIII:5555103-5555183 34 4.32e-05 TGCGCAAAAA GCGCGCGC ACATTGCGTT chrIII:13721294-13721374 64 4.32e-05 GCCCGGGAAT GCGCGCGC GCACTTTTT chrI:14721619-14721699 2 4.32e-05 C GCGCGCGC GGTTTTCGCA chrIV:5961418-5961498 47 4.32e-05 GATGCGCATG GCGCGCGC TCGCAGCTCG chrV:6222281-6222361 38 4.32e-05 TGCGCCACGT GCGCGCGC CAAACTTTTC chrX:2549523-2549603 49 6.96e-05 GTTAACAGCC GAACGCGC TGCCTATTGC chrIII:8678491-8678571 50 6.96e-05 ATCTGGAGTC GAACGCGC TACCATTGCG chrX:1379620-1379700 49 6.96e-05 ATTACACCAC GAACGCTC TGGAGACACA chrIII:11007844-11007924 65 6.96e-05 GGATGTGGGC GAACGCGC TCCACTGC chrIII:4171160-4171240 46 6.96e-05 GGGTTGCAAA GAACGCTC CGCCCACAAA chrIII:9104227-9104307 24 6.96e-05 GTTAACAGCC GAACGCGC TGCCTATTGC chrII:11484758-11484838 35 9.26e-05 AGTGGCGGGC GCACGCGC ACACCACTCG chrI:9268968-9269048 38 9.26e-05 AGCCACGTTC GCACGCTC GCCCCTCTGT chrV:8791219-8791299 30 1.18e-04 CTTTGGGCAT GATCGCTC CCAATCTGTG chrIII:1420136-1420216 65 1.18e-04 ACGAAGCGGC GATCGCGC CGACACGA chrX:11643890-11643970 57 1.39e-04 ACATACGCTC GCTCGCTc acacacacac chrII:11726840-11726920 6 1.39e-04 CTGCT GCTCGCGC TGCTCGCGTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GMRCGCKC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrII:7200208-7200288 2.3e-05 70_[+3]_2 chrX:12458195-12458275 2.3e-05 24_[+3]_48 chrX:9637876-9637956 2.3e-05 19_[+3]_53 chrV:9503531-9503611 2.3e-05 50_[+3]_22 chrII:5292322-5292402 2.3e-05 29_[+3]_43 chrII:7001606-7001686 2.3e-05 40_[+3]_32 chrX:12890296-12890376 2.3e-05 32_[+3]_40 chrIV:16398344-16398424 2.3e-05 59_[+3]_13 chrV:11610614-11610694 4.3e-05 22_[+3]_50 chrIII:5555103-5555183 4.3e-05 33_[+3]_39 chrIII:13721294-13721374 4.3e-05 63_[+3]_9 chrI:14721619-14721699 4.3e-05 1_[+3]_71 chrIV:5961418-5961498 4.3e-05 46_[+3]_26 chrV:6222281-6222361 4.3e-05 37_[+3]_35 chrX:2549523-2549603 7e-05 48_[+3]_24 chrIII:8678491-8678571 7e-05 49_[+3]_23 chrX:1379620-1379700 7e-05 48_[+3]_24 chrIII:11007844-11007924 7e-05 64_[+3]_8 chrIII:4171160-4171240 7e-05 45_[+3]_27 chrIII:9104227-9104307 7e-05 23_[+3]_49 chrII:11484758-11484838 9.3e-05 34_[+3]_38 chrI:9268968-9269048 9.3e-05 37_[+3]_35 chrV:8791219-8791299 0.00012 29_[+3]_43 chrIII:1420136-1420216 0.00012 64_[+3]_8 chrX:11643890-11643970 0.00014 56_[+3]_16 chrII:11726840-11726920 0.00014 5_[+3]_67 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GMRCGCKC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GMRCGCKC width=8 seqs=26 chrII:7200208-7200288 ( 71) GAGCGCGC 1 chrX:12458195-12458275 ( 25) GAGCGCTC 1 chrX:9637876-9637956 ( 20) GAGCGCTC 1 chrV:9503531-9503611 ( 51) GAGCGCTC 1 chrII:5292322-5292402 ( 30) GAGCGCTC 1 chrII:7001606-7001686 ( 41) GAGCGCTC 1 chrX:12890296-12890376 ( 33) GAGCGCTC 1 chrIV:16398344-16398424 ( 60) GAGCGCTC 1 chrV:11610614-11610694 ( 23) GCGCGCTC 1 chrIII:5555103-5555183 ( 34) GCGCGCGC 1 chrIII:13721294-13721374 ( 64) GCGCGCGC 1 chrI:14721619-14721699 ( 2) GCGCGCGC 1 chrIV:5961418-5961498 ( 47) GCGCGCGC 1 chrV:6222281-6222361 ( 38) GCGCGCGC 1 chrX:2549523-2549603 ( 49) GAACGCGC 1 chrIII:8678491-8678571 ( 50) GAACGCGC 1 chrX:1379620-1379700 ( 49) GAACGCTC 1 chrIII:11007844-11007924 ( 65) GAACGCGC 1 chrIII:4171160-4171240 ( 46) GAACGCTC 1 chrIII:9104227-9104307 ( 24) GAACGCGC 1 chrII:11484758-11484838 ( 35) GCACGCGC 1 chrI:9268968-9269048 ( 38) GCACGCTC 1 chrV:8791219-8791299 ( 30) GATCGCTC 1 chrIII:1420136-1420216 ( 65) GATCGCGC 1 chrX:11643890-11643970 ( 57) GCTCGCTC 1 chrII:11726840-11726920 ( 6) GCTCGCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GMRCGCKC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.0846 E= 3.0e-003 -1134 -1134 207 -1134 118 71 -1134 -1134 18 -1134 118 -74 -1134 209 -1134 -1134 -1134 -1134 207 -1134 -1134 209 -1134 -1134 -1134 -1134 107 96 -1134 209 -1134 -1134 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GMRCGCKC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 26 E= 3.0e-003 0.000000 0.000000 1.000000 0.000000 0.615385 0.384615 0.000000 0.000000 0.307692 0.000000 0.538462 0.153846 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.500000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GMRCGCKC MEME-3 regular expression -------------------------------------------------------------------------------- G[AC][GA]CGC[GT]C -------------------------------------------------------------------------------- Time 14.07 secs. ******************************************************************************** ******************************************************************************** MOTIF TAGCTCAG MEME-4 width = 8 sites = 14 llr = 139 E-value = 1.9e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-4 Description -------------------------------------------------------------------------------- Simplified A :9::::a: pos.-specific C :::a:9:: probability G :1a:21:a matrix T a:::8::: bits 2.1 ** * 1.9 * ** ** 1.7 * ** ** 1.5 **** *** Relative 1.3 ******** Entropy 1.0 ******** (14.3 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TAGCTCAG consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrII:5032754-5032834 23 1.50e-05 ATGGCCGCCA TAGCTCAG TCGGTTAGAG chrII:12494735-12494815 13 1.50e-05 TCGGCCGCCA TAGCTCAG TCGGTTAGAG chrV:9503531-9503611 38 1.50e-05 GTCGGGGGTA TAGCTCAG GGGTAGAGCG chrII:5292322-5292402 17 1.50e-05 AGCGGGGGTA TAGCTCAG TGGTAGAGCG chrX:14804877-14804957 7 1.50e-05 GGGGTA TAGCTCAG TGGCAGAGCA chrV:14689496-14689576 43 1.50e-05 ATGCCGTCGA TAGCTCAG TTGGTAGAGC chrII:7001606-7001686 28 1.50e-05 GTTACCTGTG TAGCTCAG GGGTAGAGCG chrIV:16398344-16398424 47 1.50e-05 TGCGGGGGTA TAGCTCAG TGGTAGAGCG chrX:3697724-3697804 39 2.89e-05 CGTGCTTCCG TAGCGCAG TAGGCAGCGC chrIV:12086595-12086675 49 2.89e-05 TCGTTCAGCG TAGCGCAG TTGGGTGTGC chrIII:8106655-8106735 5 2.89e-05 TCCG TAGCGCAG TAGGCAGCGC chrV:12596977-12597057 42 4.41e-05 AATAAATTGC TAGCTGAG GACACAACCA chrX:16930147-16930227 25 4.41e-05 TGACTATGCA TAGCTGAG GCTCTTCTTG chrV:2674014-2674094 3 5.73e-05 AT TGGCTCAG TGGCAGAGCG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrII:5032754-5032834 1.5e-05 22_[+4]_50 chrII:12494735-12494815 1.5e-05 12_[+4]_60 chrV:9503531-9503611 1.5e-05 37_[+4]_35 chrII:5292322-5292402 1.5e-05 16_[+4]_56 chrX:14804877-14804957 1.5e-05 6_[+4]_66 chrV:14689496-14689576 1.5e-05 42_[+4]_30 chrII:7001606-7001686 1.5e-05 27_[+4]_45 chrIV:16398344-16398424 1.5e-05 46_[+4]_26 chrX:3697724-3697804 2.9e-05 38_[+4]_34 chrIV:12086595-12086675 2.9e-05 48_[+4]_24 chrIII:8106655-8106735 2.9e-05 4_[+4]_68 chrV:12596977-12597057 4.4e-05 41_[+4]_31 chrX:16930147-16930227 4.4e-05 24_[+4]_48 chrV:2674014-2674094 5.7e-05 2_[+4]_70 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TAGCTCAG width=8 seqs=14 chrII:5032754-5032834 ( 23) TAGCTCAG 1 chrII:12494735-12494815 ( 13) TAGCTCAG 1 chrV:9503531-9503611 ( 38) TAGCTCAG 1 chrII:5292322-5292402 ( 17) TAGCTCAG 1 chrX:14804877-14804957 ( 7) TAGCTCAG 1 chrV:14689496-14689576 ( 43) TAGCTCAG 1 chrII:7001606-7001686 ( 28) TAGCTCAG 1 chrIV:16398344-16398424 ( 47) TAGCTCAG 1 chrX:3697724-3697804 ( 39) TAGCGCAG 1 chrIV:12086595-12086675 ( 49) TAGCGCAG 1 chrIII:8106655-8106735 ( 5) TAGCGCAG 1 chrV:12596977-12597057 ( 42) TAGCTGAG 1 chrX:16930147-16930227 ( 25) TAGCTGAG 1 chrV:2674014-2674094 ( 3) TGGCTCAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.1909 E= 1.9e+001 -1045 -1045 -1045 196 178 -1045 -173 -1045 -1045 -1045 207 -1045 -1045 209 -1045 -1045 -1045 -1045 -15 161 -1045 187 -73 -1045 188 -1045 -1045 -1045 -1045 -1045 207 -1045 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 14 E= 1.9e+001 0.000000 0.000000 0.000000 1.000000 0.928571 0.000000 0.071429 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.214286 0.785714 0.000000 0.857143 0.142857 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-4 regular expression -------------------------------------------------------------------------------- TAGC[TG]CAG -------------------------------------------------------------------------------- Time 17.67 secs. ******************************************************************************** ******************************************************************************** MOTIF CTGAGCTA MEME-5 width = 8 sites = 11 llr = 122 E-value = 4.0e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::a:::a pos.-specific C a::::a:: probability G ::a:a::: matrix T :a::::a: bits 2.1 * * ** 1.9 ******** 1.7 ******** 1.5 ******** Relative 1.3 ******** Entropy 1.0 ******** (16.0 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CTGAGCTA consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:12106184-12106264 21 1.50e-05 GCTCTACCGA CTGAGCTA ACCGGGCGGC chrX:12458195-12458275 38 1.50e-05 CGCTCTACCA CTGAGCTA TACCCCCAGA chrI:13310367-13310447 35 1.50e-05 CGCTCTACCA CTGAGCTA TAAGGGCTGC chrX:9637876-9637956 33 1.50e-05 CGCTCTACCA CTGAGCTA TACCCCCGCA chrX:6292322-6292402 13 1.50e-05 CGCTCTACCC CTGAGCTA TACCCCCGTA chrII:3567776-3567856 46 1.50e-05 GCTCTACCGA CTGAGCTA ACCGGGCGGC chrV:20694127-20694207 51 1.50e-05 TGCTCTGCCA CTGAGCTA TACCCCCACG chrI:13297700-13297780 31 1.50e-05 GCTCTACCGA CTGAGCTA ACCGGGCGCC chrX:9024454-9024534 16 1.50e-05 CGCTCTACCA CTGAGCTA TAAGGGCGAT chrI:11579728-11579808 36 1.50e-05 GCTCTACCGA CTGAGCTA ACCGGGCGGC chrX:12890296-12890376 46 1.50e-05 CGCTCTACCC CTGAGCTA TGCCCCCACA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:12106184-12106264 1.5e-05 20_[+5]_52 chrX:12458195-12458275 1.5e-05 37_[+5]_35 chrI:13310367-13310447 1.5e-05 34_[+5]_38 chrX:9637876-9637956 1.5e-05 32_[+5]_40 chrX:6292322-6292402 1.5e-05 12_[+5]_60 chrII:3567776-3567856 1.5e-05 45_[+5]_27 chrV:20694127-20694207 1.5e-05 50_[+5]_22 chrI:13297700-13297780 1.5e-05 30_[+5]_42 chrX:9024454-9024534 1.5e-05 15_[+5]_57 chrI:11579728-11579808 1.5e-05 35_[+5]_37 chrX:12890296-12890376 1.5e-05 45_[+5]_27 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTGAGCTA width=8 seqs=11 chrX:12106184-12106264 ( 21) CTGAGCTA 1 chrX:12458195-12458275 ( 38) CTGAGCTA 1 chrI:13310367-13310447 ( 35) CTGAGCTA 1 chrX:9637876-9637956 ( 33) CTGAGCTA 1 chrX:6292322-6292402 ( 13) CTGAGCTA 1 chrII:3567776-3567856 ( 46) CTGAGCTA 1 chrV:20694127-20694207 ( 51) CTGAGCTA 1 chrI:13297700-13297780 ( 31) CTGAGCTA 1 chrX:9024454-9024534 ( 16) CTGAGCTA 1 chrI:11579728-11579808 ( 36) CTGAGCTA 1 chrX:12890296-12890376 ( 46) CTGAGCTA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.2475 E= 4.0e-002 -1010 209 -1010 -1010 -1010 -1010 -1010 196 -1010 -1010 207 -1010 188 -1010 -1010 -1010 -1010 -1010 207 -1010 -1010 209 -1010 -1010 -1010 -1010 -1010 196 188 -1010 -1010 -1010 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 11 E= 4.0e-002 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 regular expression -------------------------------------------------------------------------------- CTGAGCTA -------------------------------------------------------------------------------- Time 21.26 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:568486-568566 7.38e-01 80 chrIV:7487762-7487842 7.75e-01 80 chrIII:3500018-3500098 5.36e-01 80 chrI:6289795-6289875 9.14e-01 80 chrI:14651592-14651672 9.99e-01 80 chrX:7457761-7457841 2.04e-02 80 chrX:2039003-2039083 8.31e-01 80 chrV:12353258-12353338 3.65e-01 80 chrIII:1420136-1420216 2.80e-02 80 chrIII:13299372-13299452 4.79e-01 80 chrI:12044032-12044112 7.44e-01 80 chrV:5284760-5284840 7.13e-01 80 chrIV:7488402-7488482 5.36e-02 80 chrV:1585769-1585849 5.34e-02 80 chrX:8156096-8156176 9.98e-01 80 chrIV:16398344-16398424 1.03e-04 46_[+4(1.50e-05)]_5_[+3(2.31e-05)]_\ 13 chrI:1842234-1842314 9.85e-01 80 chrII:11747307-11747387 5.49e-01 80 chrIV:1054734-1054814 3.34e-02 80 chrV:13176484-13176564 5.88e-01 80 chrII:11038989-11039069 9.83e-01 80 chrII:2453006-2453086 7.69e-01 80 chrV:8791219-8791299 8.54e-02 80 chrII:12198843-12198923 9.90e-01 80 chrX:3914411-3914491 8.34e-01 80 chrIII:12616632-12616712 8.40e-01 80 chrIV:9773726-9773806 3.12e-01 80 chrIII:8804919-8804999 9.98e-01 80 chrX:12890296-12890376 1.09e-03 32_[+3(2.31e-05)]_5_[+5(1.50e-05)]_\ 27 chrX:13415097-13415177 1.27e-01 80 chrI:11680828-11680908 9.95e-01 80 chrV:6222281-6222361 2.08e-03 37_[+3(4.32e-05)]_35 chrX:9078316-9078396 6.86e-01 80 chrIII:12598844-12598924 8.76e-01 80 chrX:8818018-8818098 8.14e-01 80 chrIII:4805872-4805952 9.99e-01 80 chrIV:8821570-8821650 1.00e+00 80 chrII:7001606-7001686 3.73e-06 27_[+4(1.50e-05)]_5_[+3(2.31e-05)]_\ 21_[+2(1.33e-05)]_3 chrI:11579728-11579808 2.10e-03 35_[+5(1.50e-05)]_2_[+1(5.27e-05)]_\ 27 chrV:14689496-14689576 1.77e-02 42_[+4(1.50e-05)]_30 chrIII:8650445-8650525 3.46e-01 80 chrI:1575688-1575768 9.47e-01 80 chrX:14115695-14115775 1.17e-01 45_[+2(2.84e-05)]_27 chrX:13145071-13145151 2.44e-01 80 chrII:3372877-3372957 8.40e-01 80 chrI:108238-108318 5.75e-01 80 chrII:8929825-8929905 9.76e-01 80 chrIII:3175128-3175208 4.31e-01 80 chrIII:4491061-4491141 9.48e-01 80 chrV:11345137-11345217 7.21e-01 80 chrII:3597159-3597239 5.67e-01 80 chrIV:11407382-11407462 7.76e-01 80 chrV:19722967-19723047 5.73e-01 80 chrIII:12619334-12619414 5.29e-01 80 chrII:14063219-14063299 9.15e-01 80 chrV:265395-265475 8.04e-01 80 chrII:12787873-12787953 5.14e-01 80 chrI:11210939-11211019 5.84e-01 80 chrIV:11407082-11407162 9.57e-01 80 chrI:1701139-1701219 9.91e-01 80 chrV:14686146-14686226 5.08e-02 80 chrIII:7733750-7733830 9.75e-01 80 chrIV:3552208-3552288 5.18e-01 80 chrIII:3476324-3476404 2.84e-01 80 chrI:6136628-6136708 5.46e-03 18_[+2(1.33e-05)]_54 chrIII:5024559-5024639 3.71e-01 80 chrV:8235456-8235536 2.48e-03 12_[+2(7.12e-05)]_46_[+1(4.30e-05)]_\ 6 chrX:14490201-14490281 6.86e-01 80 chrX:8646471-8646551 1.30e-03 47_[+1(2.06e-05)]_2_[+2(1.33e-05)]_\ 15 chrII:10169652-10169732 9.85e-01 80 chrIII:89315-89395 3.10e-01 80 chrIV:9772542-9772622 6.23e-01 80 chrI:2737991-2738071 8.21e-01 80 chrII:5293432-5293512 6.62e-02 68_[+2(1.33e-05)]_4 chrIV:8334358-8334438 7.70e-01 80 chrV:1870807-1870887 4.63e-01 80 chrX:8386172-8386252 9.45e-01 80 chrV:6226627-6226707 9.91e-01 80 chrV:3455613-3455693 9.37e-01 80 chrIV:5961418-5961498 1.89e-02 46_[+3(4.32e-05)]_26 chrIV:9191343-9191423 9.00e-01 80 chrII:7708776-7708856 6.89e-01 80 chrI:1741125-1741205 9.20e-01 80 chrI:1069933-1070013 1.00e+00 80 chrIII:10624668-10624748 3.15e-01 80 chrX:14804877-14804957 4.72e-03 6_[+4(1.50e-05)]_66 chrV:14855750-14855830 6.79e-01 80 chrII:11547650-11547730 7.88e-01 80 chrV:1003925-1004005 9.11e-01 80 chrII:11959369-11959449 4.35e-02 55_[+2(4.16e-05)]_17 chrX:12503658-12503738 1.45e-01 80 chrIII:4280788-4280868 9.80e-01 80 chrX:5319361-5319441 1.49e-01 80 chrI:8135265-8135345 9.99e-01 80 chrIII:931530-931610 9.98e-01 80 chrX:9024454-9024534 2.21e-02 15_[+5(1.50e-05)]_57 chrIII:1604725-1604805 2.44e-01 80 chrI:11584869-11584949 9.97e-01 80 chrIV:11026177-11026257 8.11e-01 80 chrI:2299713-2299793 1.20e-01 80 chrIII:4568693-4568773 2.47e-02 29_[+1(9.62e-06)]_16_[+1(7.43e-05)]_\ 19 chrII:12042350-12042430 7.76e-01 80 chrIV:11602125-11602205 1.00e+00 80 chrIII:9104227-9104307 2.86e-02 23_[+3(6.96e-05)]_49 chrX:3347955-3348035 9.17e-01 80 chrI:11670195-11670275 5.53e-01 80 chrI:14721619-14721699 1.63e-02 1_[+3(4.32e-05)]_71 chrV:15551786-15551866 9.43e-01 80 chrIII:9451284-9451364 7.43e-02 13_[+1(9.69e-05)]_59 chrV:2674014-2674094 1.46e-03 2_[+4(5.73e-05)]_34_[+2(5.60e-05)]_\ 28 chrX:16930147-16930227 2.24e-01 24_[+4(4.41e-05)]_48 chrIV:620499-620579 8.92e-02 32_[+2(4.16e-05)]_40 chrIII:8106655-8106735 5.03e-03 4_[+4(2.89e-05)]_68 chrV:12780419-12780499 4.46e-01 80 chrX:16602629-16602709 1.45e-02 68_[+1(4.30e-05)]_4 chrII:11726840-11726920 2.34e-03 24_[+1(4.30e-05)]_48 chrII:6248630-6248710 2.42e-03 67_[+2(2.84e-05)]_5 chrIV:7486385-7486465 5.60e-01 80 chrIII:12615271-12615351 8.59e-01 80 chrIII:4426815-4426895 8.84e-01 80 chrI:6835585-6835665 9.99e-01 80 chrV:11933500-11933580 9.99e-01 80 chrI:13421147-13421227 3.67e-01 80 chrIII:13721294-13721374 1.34e-02 63_[+3(4.32e-05)]_9 chrIV:9477701-9477781 4.28e-01 80 chrIII:4171160-4171240 3.62e-04 4_[+1(9.62e-06)]_33_[+3(6.96e-05)]_\ 27 chrII:7809362-7809442 7.74e-01 80 chrV:12596977-12597057 1.52e-03 41_[+4(4.41e-05)]_8_[+1(4.30e-05)]_\ 15 chrI:7772596-7772676 5.43e-01 80 chrV:11113321-11113401 4.70e-01 80 chrX:10821337-10821417 1.52e-01 80 chrIII:11007844-11007924 1.09e-01 64_[+3(6.96e-05)]_8 chrV:1875781-1875861 6.64e-01 80 chrX:2368551-2368631 4.68e-01 80 chrX:1858820-1858900 1.76e-03 37_[+1(2.06e-05)]_2_[+2(1.33e-05)]_\ 25 chrI:13297700-13297780 1.48e-02 30_[+5(1.50e-05)]_42 chrX:5707992-5708072 4.06e-01 80 chrIII:3664366-3664446 1.14e-01 80 chrIV:16398547-16398627 9.90e-01 80 chrII:8547122-8547202 4.75e-01 80 chrII:5836525-5836605 7.27e-01 80 chrIII:11371419-11371499 1.36e-02 45_[+1(4.30e-05)]_27 chrIV:143956-144036 6.96e-01 80 chrI:9267124-9267204 1.69e-02 47_[+2(2.84e-05)]_25 chrIII:6158748-6158828 4.17e-01 80 chrIII:8768079-8768159 1.66e-01 80 chrIV:3233138-3233218 8.32e-01 80 chrX:13121195-13121275 8.07e-01 80 chrV:20694127-20694207 1.48e-02 50_[+5(1.50e-05)]_22 chrI:2935755-2935835 1.39e-01 80 chrIII:12250655-12250735 4.24e-01 80 chrIV:3524824-3524904 2.05e-02 44_[+2(2.84e-05)]_28 chrII:3567776-3567856 8.18e-04 45_[+5(1.50e-05)]_2_[+1(5.27e-05)]_\ 17 chrIII:5555103-5555183 1.05e-02 33_[+3(4.32e-05)]_39 chrIV:16776085-16776165 1.73e-02 51_[+2(1.33e-05)]_21 chrI:1958530-1958610 6.41e-01 80 chrV:13962171-13962251 2.03e-03 35_[+1(9.62e-06)]_37 chrIII:5294982-5295062 5.36e-03 80 chrV:15082443-15082523 2.57e-01 80 chrII:4238026-4238106 2.29e-01 52_[+1(7.43e-05)]_20 chrII:5292322-5292402 9.12e-05 16_[+4(1.50e-05)]_5_[+3(2.31e-05)]_\ 43 chrX:11252555-11252635 2.50e-01 45_[+2(7.12e-05)]_27 chrIV:9511357-9511437 5.23e-01 80 chrI:1175839-1175919 1.45e-01 15_[+1(7.43e-05)]_57 chrV:19126055-19126135 2.00e-02 80 chrIII:4470918-4470998 9.49e-02 31_[+1(2.06e-05)]_41 chrI:13161024-13161104 9.54e-01 80 chrIV:17278785-17278865 7.31e-01 80 chrII:9566207-9566287 3.09e-01 80 chrII:14635362-14635442 1.44e-02 37_[+1(3.11e-05)]_35 chrIV:2805685-2805765 9.11e-01 80 chrV:13715461-13715541 7.90e-01 80 chrIV:14034245-14034325 3.90e-01 80 chrIII:5308374-5308454 4.60e-01 80 chrIII:640556-640636 1.00e+00 80 chrI:4967548-4967628 6.87e-01 80 chrII:6853170-6853250 5.62e-01 80 chrV:11610614-11610694 5.03e-02 22_[+3(4.32e-05)]_50 chrI:2514318-2514398 2.33e-02 12_[+1(5.27e-05)]_60 chrIV:17087505-17087585 1.00e+00 80 chrI:2410147-2410227 3.01e-03 26_[+2(5.60e-05)]_46 chrX:8386372-8386452 6.09e-01 80 chrII:14528477-14528557 9.75e-01 80 chrIII:535438-535518 2.75e-01 4_[+2(5.60e-05)]_3_[+2(4.16e-05)]_\ 57 chrI:2689000-2689080 9.49e-01 80 chrIII:11317279-11317359 9.66e-01 80 chrX:6292322-6292402 1.94e-02 12_[+5(1.50e-05)]_60 chrI:9988972-9989052 9.21e-01 80 chrV:9503531-9503611 4.75e-04 37_[+4(1.50e-05)]_5_[+3(2.31e-05)]_\ 22 chrIII:5602189-5602269 8.66e-01 80 chrX:12563807-12563887 7.18e-01 80 chrV:6888907-6888987 8.15e-01 80 chrX:9637876-9637956 1.09e-03 19_[+3(2.31e-05)]_5_[+5(1.50e-05)]_\ 40 chrIV:12086595-12086675 2.48e-02 48_[+4(2.89e-05)]_24 chrII:8107302-8107382 3.12e-01 80 chrII:9774814-9774894 1.16e-01 80 chrII:3521486-3521566 2.84e-01 80 chrI:8530174-8530254 1.86e-01 80 chrIV:6556817-6556897 2.97e-03 61_[+2(2.84e-05)]_11 chrX:12661232-12661312 3.08e-01 80 chrIV:11549914-11549994 1.79e-01 80 chrIV:8253004-8253084 3.39e-01 80 chrX:16590885-16590965 3.64e-02 56_[+2(1.33e-05)]_16 chrI:13310367-13310447 2.47e-03 34_[+5(1.50e-05)]_38 chrX:3697724-3697804 2.39e-02 38_[+4(2.89e-05)]_34 chrIV:11027641-11027721 9.85e-01 80 chrI:9268968-9269048 1.86e-02 37_[+3(9.26e-05)]_35 chrI:6105769-6105849 6.33e-01 80 chrIV:192173-192253 1.21e-01 80 chrIII:1950407-1950487 1.63e-01 21_[+4(9.67e-05)]_51 chrX:1379620-1379700 1.46e-01 48_[+3(6.96e-05)]_24 chrIII:8678491-8678571 6.25e-03 49_[+3(6.96e-05)]_23 chrIV:8375562-8375642 4.85e-01 80 chrIII:8937675-8937755 3.30e-01 80 chrII:13199852-13199932 6.61e-01 80 chrII:6968348-6968428 9.33e-02 80 chrX:12458195-12458275 1.07e-03 24_[+3(2.31e-05)]_5_[+5(1.50e-05)]_\ 35 chrIII:9861679-9861759 8.50e-01 80 chrV:16592253-16592333 7.62e-01 80 chrI:1823123-1823203 1.00e+00 80 chrX:11935038-11935118 6.16e-01 80 chrIII:10461297-10461377 1.41e-02 [+1(9.62e-06)]_72 chrII:12494735-12494815 2.00e-04 12_[+4(1.50e-05)]_36_[+2(2.84e-05)]_\ 16 chrX:3970040-3970120 4.48e-01 80 chrIII:836009-836089 1.89e-01 80 chrX:2549523-2549603 2.04e-03 48_[+3(6.96e-05)]_24 chrX:353283-353363 1.52e-02 36_[+1(3.11e-05)]_36 chrX:3371385-3371465 6.82e-01 80 chrX:13511977-13512057 1.20e-01 80 chrII:7200208-7200288 5.40e-02 70_[+3(2.31e-05)]_2 chrIII:9054052-9054132 3.02e-03 67_[+1(3.11e-05)]_5 chrI:1415999-1416079 8.36e-01 80 chrI:8259517-8259597 5.08e-01 80 chrII:5032956-5033036 7.72e-01 80 chrV:13789686-13789766 7.62e-01 80 chrII:5032754-5032834 3.83e-04 22_[+4(1.50e-05)]_36_[+2(2.84e-05)]_\ 6 chrV:16370094-16370174 3.95e-02 60_[+4(8.34e-05)]_12 chrX:11643890-11643970 1.39e-01 80 chrV:19643212-19643292 1.07e-01 80 chrIV:14034041-14034121 9.40e-01 80 chrX:6371370-6371450 2.24e-02 80 chrII:11484758-11484838 7.43e-03 34_[+3(9.26e-05)]_4_[+1(4.30e-05)]_\ 26 chrX:12106184-12106264 2.27e-03 20_[+5(1.50e-05)]_2_[+1(5.27e-05)]_\ 42 chrI:14113212-14113292 9.14e-02 80 chrII:14251816-14251896 8.75e-01 80 chrIII:4568896-4568976 1.00e+00 80 chrX:2227222-2227302 9.88e-01 80 chrX:489886-489966 9.60e-01 80 chrI:10642452-10642532 9.61e-01 80 chrIII:4689774-4689854 1.70e-01 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n08.farnam.hpc.yale.internal ********************************************************************************