******************************************************************************** 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/syd-9.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrIII:9007329-9007409 1.0000 80 chrX:7214967-7215047 1.0000 80 chrX:7224680-7224760 1.0000 80 chrX:5818320-5818400 1.0000 80 chrM:1736-1816 1.0000 80 chrV:13393502-13393582 1.0000 80 chrI:14768874-14768954 1.0000 80 chrX:16392322-16392402 1.0000 80 chrX:12693498-12693578 1.0000 80 chrX:7232456-7232536 1.0000 80 chrX:7651345-7651425 1.0000 80 chrX:17456921-17457001 1.0000 80 chrV:6204273-6204353 1.0000 80 chrIII:13564984-13565064 1.0000 80 chrIII:8127208-8127288 1.0000 80 chrX:11257177-11257257 1.0000 80 chrX:11379429-11379509 1.0000 80 chrV:8785701-8785781 1.0000 80 chrV:6880818-6880898 1.0000 80 chrII:5901831-5901911 1.0000 80 chrI:14863535-14863615 1.0000 80 chrM:5032-5112 1.0000 80 chrV:18706775-18706855 1.0000 80 chrIII:10520625-10520705 1.0000 80 chrX:3472474-3472554 1.0000 80 chrV:11844990-11845070 1.0000 80 chrX:9668697-9668777 1.0000 80 chrII:1105422-1105502 1.0000 80 chrV:16553049-16553129 1.0000 80 chrII:9308797-9308877 1.0000 80 chrI:6283597-6283677 1.0000 80 chrV:9219230-9219310 1.0000 80 chrII:7810938-7811018 1.0000 80 chrI:933476-933556 1.0000 80 chrIII:9180572-9180652 1.0000 80 chrM:10002-10082 1.0000 80 chrM:8189-8269 1.0000 80 chrIII:3500028-3500108 1.0000 80 chrIV:12010540-12010620 1.0000 80 chrX:16389342-16389422 1.0000 80 chrI:4941357-4941437 1.0000 80 chrX:2885506-2885586 1.0000 80 chrV:10717005-10717085 1.0000 80 chrI:2831477-2831557 1.0000 80 chrI:14628202-14628282 1.0000 80 chrII:8128830-8128910 1.0000 80 chrI:5589689-5589769 1.0000 80 chrIV:5964676-5964756 1.0000 80 chrIII:9052755-9052835 1.0000 80 chrIII:6537391-6537471 1.0000 80 chrV:12038939-12039019 1.0000 80 chrII:6645819-6645899 1.0000 80 chrIII:8417362-8417442 1.0000 80 chrII:3547472-3547552 1.0000 80 chrM:3172-3252 1.0000 80 chrI:11203423-11203503 1.0000 80 chrIII:2535191-2535271 1.0000 80 chrV:14153799-14153879 1.0000 80 chrM:7328-7408 1.0000 80 chrIII:9703904-9703984 1.0000 80 chrIII:11093619-11093699 1.0000 80 chrIII:8262679-8262759 1.0000 80 chrI:8046523-8046603 1.0000 80 chrI:9374813-9374893 1.0000 80 chrV:6030702-6030782 1.0000 80 chrX:10435675-10435755 1.0000 80 chrV:6893822-6893902 1.0000 80 chrI:10469115-10469195 1.0000 80 chrIV:11871199-11871279 1.0000 80 chrX:5686214-5686294 1.0000 80 chrIII:9640167-9640247 1.0000 80 chrIII:9176012-9176092 1.0000 80 chrIII:4037474-4037554 1.0000 80 chrIII:2532794-2532874 1.0000 80 chrII:6943862-6943942 1.0000 80 chrV:20793963-20794043 1.0000 80 chrX:6410457-6410537 1.0000 80 chrV:725417-725497 1.0000 80 chrIV:6809832-6809912 1.0000 80 chrX:5995723-5995803 1.0000 80 chrIII:11877406-11877486 1.0000 80 chrX:14557530-14557610 1.0000 80 chrX:16611466-16611546 1.0000 80 chrX:5592034-5592114 1.0000 80 chrIII:10856986-10857066 1.0000 80 chrIV:1824205-1824285 1.0000 80 chrI:9500879-9500959 1.0000 80 chrIII:13713055-13713135 1.0000 80 chrX:13948263-13948343 1.0000 80 chrX:1064171-1064251 1.0000 80 chrX:2094100-2094180 1.0000 80 chrII:8499219-8499299 1.0000 80 chrX:1120418-1120498 1.0000 80 chrX:15725652-15725732 1.0000 80 chrX:8995525-8995605 1.0000 80 chrX:10336829-10336909 1.0000 80 chrIV:12771633-12771713 1.0000 80 chrIII:2455601-2455681 1.0000 80 chrM:6037-6117 1.0000 80 chrX:9078307-9078387 1.0000 80 chrM:8398-8478 1.0000 80 chrM:1051-1131 1.0000 80 chrIV:14496570-14496650 1.0000 80 chrII:15256027-15256107 1.0000 80 chrIV:1687221-1687301 1.0000 80 chrX:2598971-2599051 1.0000 80 chrIV:14371770-14371850 1.0000 80 chrIII:9046226-9046306 1.0000 80 chrIV:6645927-6646007 1.0000 80 chrX:4265720-4265800 1.0000 80 chrII:11015982-11016062 1.0000 80 chrX:8569340-8569420 1.0000 80 chrX:5764019-5764099 1.0000 80 chrX:6134546-6134626 1.0000 80 chrIV:17268843-17268923 1.0000 80 chrII:4672685-4672765 1.0000 80 chrII:9262192-9262272 1.0000 80 chrV:20241688-20241768 1.0000 80 chrIII:931565-931645 1.0000 80 chrV:12510126-12510206 1.0000 80 chrII:11537195-11537275 1.0000 80 chrX:13687233-13687313 1.0000 80 chrX:8789269-8789349 1.0000 80 chrIV:10084809-10084889 1.0000 80 chrX:10990696-10990776 1.0000 80 chrIII:11361336-11361416 1.0000 80 chrX:6378606-6378686 1.0000 80 chrV:18720189-18720269 1.0000 80 chrM:3499-3579 1.0000 80 chrX:601502-601582 1.0000 80 chrIV:5974233-5974313 1.0000 80 chrM:9075-9155 1.0000 80 chrV:13396578-13396658 1.0000 80 chrX:14292664-14292744 1.0000 80 chrIV:536978-537058 1.0000 80 chrI:7383227-7383307 1.0000 80 chrII:6492005-6492085 1.0000 80 chrV:5991681-5991761 1.0000 80 chrII:6828683-6828763 1.0000 80 chrM:2100-2180 1.0000 80 chrII:2220080-2220160 1.0000 80 chrII:11534681-11534761 1.0000 80 chrV:12819175-12819255 1.0000 80 chrIII:8971791-8971871 1.0000 80 chrI:13495294-13495374 1.0000 80 chrI:9268951-9269031 1.0000 80 chrX:5816520-5816600 1.0000 80 chrIV:2998757-2998837 1.0000 80 chrI:4032631-4032711 1.0000 80 chrII:10202432-10202512 1.0000 80 chrI:14181153-14181233 1.0000 80 chrX:11384748-11384828 1.0000 80 chrV:1474645-1474725 1.0000 80 chrI:3648226-3648306 1.0000 80 chrIII:4947490-4947570 1.0000 80 chrV:12465496-12465576 1.0000 80 chrI:9475064-9475144 1.0000 80 chrM:4623-4703 1.0000 80 chrV:14501225-14501305 1.0000 80 chrX:15275239-15275319 1.0000 80 chrV:1197446-1197526 1.0000 80 chrIII:3820290-3820370 1.0000 80 chrIII:10094678-10094758 1.0000 80 chrV:13808612-13808692 1.0000 80 chrI:11095910-11095990 1.0000 80 chrX:12407479-12407559 1.0000 80 chrII:10707735-10707815 1.0000 80 chrIII:8653022-8653102 1.0000 80 chrI:1559279-1559359 1.0000 80 chrIII:5136341-5136421 1.0000 80 chrX:3887658-3887738 1.0000 80 chrII:11632890-11632970 1.0000 80 chrX:12890257-12890337 1.0000 80 chrI:10037705-10037785 1.0000 80 chrI:4005755-4005835 1.0000 80 chrV:1471301-1471381 1.0000 80 chrIV:11594408-11594488 1.0000 80 chrII:6734840-6734920 1.0000 80 chrV:11080491-11080571 1.0000 80 chrX:14016882-14016962 1.0000 80 chrIII:10432259-10432339 1.0000 80 chrX:15189379-15189459 1.0000 80 chrIV:1358314-1358394 1.0000 80 chrX:12367696-12367776 1.0000 80 chrI:7711717-7711797 1.0000 80 chrIV:14128423-14128503 1.0000 80 chrX:2432597-2432677 1.0000 80 chrII:1520043-1520123 1.0000 80 chrM:6253-6333 1.0000 80 chrII:10169535-10169615 1.0000 80 chrIII:3664391-3664471 1.0000 80 chrIV:5369031-5369111 1.0000 80 chrIV:10175274-10175354 1.0000 80 chrIV:16498144-16498224 1.0000 80 chrV:5271610-5271690 1.0000 80 chrIII:7729794-7729874 1.0000 80 chrI:5420489-5420569 1.0000 80 chrI:14845788-14845868 1.0000 80 chrIV:3521142-3521222 1.0000 80 chrX:16771008-16771088 1.0000 80 chrIII:4010296-4010376 1.0000 80 chrIII:5769897-5769977 1.0000 80 chrIII:9084448-9084528 1.0000 80 chrIII:8874375-8874455 1.0000 80 chrV:14697030-14697110 1.0000 80 chrI:4933167-4933247 1.0000 80 chrX:9737924-9738004 1.0000 80 chrX:15566816-15566896 1.0000 80 chrIV:4028265-4028345 1.0000 80 chrX:17315054-17315134 1.0000 80 chrI:6136601-6136681 1.0000 80 chrX:13754709-13754789 1.0000 80 chrIII:4666873-4666953 1.0000 80 chrII:12042377-12042457 1.0000 80 chrII:7072712-7072792 1.0000 80 chrIV:7387307-7387387 1.0000 80 chrV:6879716-6879796 1.0000 80 chrI:7954948-7955028 1.0000 80 chrI:6532116-6532196 1.0000 80 chrV:11375271-11375351 1.0000 80 chrIV:1108219-1108299 1.0000 80 chrIV:14032771-14032851 1.0000 80 chrX:14297370-14297450 1.0000 80 chrII:10384818-10384898 1.0000 80 chrI:6175215-6175295 1.0000 80 chrX:15630948-15631028 1.0000 80 chrII:9307099-9307179 1.0000 80 chrIV:9269002-9269082 1.0000 80 chrI:3740500-3740580 1.0000 80 chrM:12399-12479 1.0000 80 chrI:2299681-2299761 1.0000 80 chrII:6741592-6741672 1.0000 80 chrI:11609208-11609288 1.0000 80 chrV:6099089-6099169 1.0000 80 chrV:8001043-8001123 1.0000 80 chrV:15554093-15554173 1.0000 80 chrI:8305449-8305529 1.0000 80 chrV:14506028-14506108 1.0000 80 chrII:7708718-7708798 1.0000 80 chrV:11239331-11239411 1.0000 80 chrX:9296786-9296866 1.0000 80 chrX:8723933-8724013 1.0000 80 chrX:9622812-9622892 1.0000 80 chrI:1651445-1651525 1.0000 80 chrI:9373123-9373203 1.0000 80 chrIV:7235518-7235598 1.0000 80 chrV:12027016-12027096 1.0000 80 chrM:4828-4908 1.0000 80 chrV:7728234-7728314 1.0000 80 chrI:4490591-4490671 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_syd-9/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/syd-9.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 0.241 C 0.249 G 0.263 T 0.247 Background letter frequencies (from file dataset with add-one prior applied): A 0.241 C 0.249 G 0.263 T 0.247 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF CTCTCTYT MEME-1 width = 8 sites = 66 llr = 508 E-value = 1.6e-017 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTCTCTYT MEME-1 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C 82a:a251 probability G :::2::2: matrix T 28:8:839 bits 2.1 * * 1.8 * * 1.6 * * 1.4 *** * Relative 1.2 ***** * Entropy 1.0 ****** * (11.1 bits) 0.8 ****** * 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CTCTCTCT consensus CT sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCTCTYT MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrII:10384818-10384898 53 1.43e-05 ttctctcttt ctctctct gtttctattt chrV:6879716-6879796 36 1.43e-05 CTCTCTGCCG CTCTCTCT GACTCTCCGA chrIII:4666873-4666953 49 1.43e-05 CAGtctctcc ctctctct ctcaaatttc chrIV:16498144-16498224 32 1.43e-05 tctcctctct ctctctct tttctcaact chrI:4005755-4005835 26 1.43e-05 ttgtcgctgt ctctctct ctctctccct chrI:1559279-1559359 3 1.43e-05 tt ctctctct cactGCAGCA chrI:14181153-14181233 50 1.43e-05 GAAGTGCCTC CTCTCTCT TCTTCTCGGG chrX:13687233-13687313 49 1.43e-05 GTCTCGTGCT CTCTCTCT CGCTCCAACT chrX:2598971-2599051 25 1.43e-05 CAAtctctca ctctctct ttttctctct chrII:15256027-15256107 10 1.43e-05 tctctctct ctctctct gcttctcacg chrX:1064171-1064251 25 1.43e-05 ACATCTCTCC CTCTCTCT GCTCCTTCGT chrIII:2532794-2532874 5 1.43e-05 ttct ctctctct cccacgcact chrI:11203423-11203503 49 1.43e-05 TCATTTCCCT CTCTCTCT CCATCTCTTT chrI:4941357-4941437 64 1.43e-05 tcttcttgat ctctctct ctctctctt chrIII:7729794-7729874 16 2.85e-05 GCCTCTCGCC CTCTCTTT CTCTCAATTC chrV:12465496-12465576 51 2.85e-05 TCTCTCTGGA CTCTCTTT TCATATCTTT chrX:11384748-11384828 2 2.85e-05 T CTCTCTTT TTCTCATTGG chrX:14292664-14292744 68 2.85e-05 GGCTCCCCGT CTCTCTTT ATTTC chrIII:9180572-9180652 6 2.85e-05 TCTGC CTCTCTTT GCGTGTCATC chrIV:14032771-14032851 23 4.36e-05 GGCCCCCGGT CTCTCTGT GAAATACACA chrI:7383227-7383307 7 4.36e-05 GATCGT CTCTCTGT CTCCAAGTAT chrIII:13713055-13713135 62 4.36e-05 CGCCGTCGTG CTCTCTGT GTCTCGCCCG chrI:8046523-8046603 30 4.36e-05 TCCTATGCTG CTCTCTGT GCTCACCACA chrI:933476-933556 65 4.36e-05 ctatatttta ctctctgt ggcttcac chrIII:10094678-10094758 31 5.80e-05 GGTACTACCA CTCTCCCT CCATCCGTCC chrX:6134546-6134626 13 5.80e-05 TAGCAGAAAA CTCTCCCT TTTTTGGCGC chrI:9374813-9374893 72 7.25e-05 ACACCAGATG CCCTCTCT C chrX:6410457-6410537 70 8.67e-05 GCTCTCGTCT TTCTCTCT GCC chrIII:13564984-13565064 23 8.67e-05 AGCCGGAGCT TTCTCTCT CGCGCCAAAC chrV:1474645-1474725 69 1.16e-04 TTGTCACTAT CTCGCTCT ATCT chrII:4672685-4672765 40 1.16e-04 CACACACATT CTCGCTCT AATAATTGCT chrX:1120418-1120498 70 1.16e-04 agagGTTGAC CTCTCCTT GCG chrII:11537195-11537275 52 1.31e-04 TCTTCTTCTC CCCTCTTT CTTCCCTTTC chrV:14153799-14153879 48 1.31e-04 GCAGGATTTC CCCTCTTT TCAATATTAC chrII:7810938-7811018 65 1.31e-04 CTCTATTACA CCCTCTTT GCCTCCGC chrI:14863535-14863615 49 1.31e-04 CAAGCCACGC CCCTCTTT GGGGATTCTA chrIV:17268843-17268923 73 1.45e-04 GCCCGTTTTC TTCTCTTT chrV:6893822-6893902 58 1.45e-04 TCTTCCTCTT TTCTCTTT TCCTCTTTCT chrX:8569340-8569420 12 1.74e-04 GCCTTCTACT CTCGCTTT CACTCGTCCA chrX:13948263-13948343 35 1.74e-04 CTCAAAGCAT CTCTCTCC CCCCGCTTCT chrX:5592034-5592114 41 1.74e-04 CGCATTGCCT CTCGCTTT CTTCCACTCT chrV:8785701-8785781 10 1.74e-04 TCTCCGCAT CTCGCTTT CCGATCGCGC chrII:8128830-8128910 34 1.89e-04 CTCGTTCTAT CTCTCCGT CTCCACTACC chrI:9268951-9269031 65 2.19e-04 GCACGCTCGC CCCTCTGT CGTATTTC chrIV:7235518-7235598 32 2.48e-04 TTTCTCTGTG TTCTCTGT ATCTGTTTCT chrV:8001043-8001123 46 2.48e-04 AGCTGAGAGC TTCTCTGT TTCTCTCGAT chrIV:5974233-5974313 28 2.48e-04 TTTTCTCTAT TTCTCTGT CAACTCTCAT chrIV:6645927-6646007 45 2.48e-04 GTAGAGACCA CCCTCCCT GCCCCTTCTT chrIV:5964676-5964756 59 2.48e-04 TCCTTCACCC CCCTCCCT TCCCACTACA chrI:7954948-7955028 69 2.94e-04 TGTCTTCTTC TTCTCCCT TCGT chrII:6741592-6741672 45 3.24e-04 CCCAAGCAAA CTCGCCCT AGTGCACACC chrII:11632890-11632970 9 3.53e-04 AACAATCT CCCGCTCT CACACCACCT chrX:14557530-14557610 73 3.53e-04 GAAGAGACCT CCCTCCTT chrI:2299681-2299761 58 4.13e-04 TGCAGAGGCT GTCTCTTT TGCTCTCGTC chrI:14845788-14845868 22 4.13e-04 CCCACTCATT TTCGCTCT cacacactca chrIV:11594408-11594488 12 4.13e-04 CGCTCCGTGT GTCTCTTT TATATGCACG chrII:6943862-6943942 10 4.13e-04 gatccgtcg ttcgctct ccgccgtctc chrX:13754709-13754789 8 4.57e-04 CCTGTTT CTCGCCTT TTTCTTGCCT chrIII:4010296-4010376 2 4.57e-04 T CTCTCCCC AACCCGGCAA chrX:5995723-5995803 50 4.57e-04 CCCCCCGGTC CTCTCCCC TCGAATGCAC chrX:9622812-9622892 38 4.87e-04 TGAACCCCAG CCCTCTCC CATGCTAAGG chrX:2432597-2432677 16 5.61e-04 CGTCCTCTTC CTCTCCTC CCGACTTTCC chrIII:9703904-9703984 28 5.61e-04 ATTGAGCACA CTCTCCTC TACTGCTGCT chrX:8995525-8995605 64 5.76e-04 GCCCCCGTCA CCCTCTTC TCTCAGAAT chrX:5816520-5816600 29 6.07e-04 GTCGTGCCAA GTCTCTGT GAAACGCAAT chrX:4265720-4265800 11 7.28e-04 GGAGGAGACC TCCTCCCT CCCACCGGAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCTCTYT MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrII:10384818-10384898 1.4e-05 52_[+1]_20 chrV:6879716-6879796 1.4e-05 35_[+1]_37 chrIII:4666873-4666953 1.4e-05 48_[+1]_24 chrIV:16498144-16498224 1.4e-05 31_[+1]_41 chrI:4005755-4005835 1.4e-05 25_[+1]_47 chrI:1559279-1559359 1.4e-05 2_[+1]_70 chrI:14181153-14181233 1.4e-05 49_[+1]_23 chrX:13687233-13687313 1.4e-05 48_[+1]_24 chrX:2598971-2599051 1.4e-05 24_[+1]_48 chrII:15256027-15256107 1.4e-05 9_[+1]_63 chrX:1064171-1064251 1.4e-05 24_[+1]_48 chrIII:2532794-2532874 1.4e-05 4_[+1]_68 chrI:11203423-11203503 1.4e-05 48_[+1]_24 chrI:4941357-4941437 1.4e-05 63_[+1]_9 chrIII:7729794-7729874 2.9e-05 15_[+1]_57 chrV:12465496-12465576 2.9e-05 50_[+1]_22 chrX:11384748-11384828 2.9e-05 1_[+1]_71 chrX:14292664-14292744 2.9e-05 67_[+1]_5 chrIII:9180572-9180652 2.9e-05 5_[+1]_67 chrIV:14032771-14032851 4.4e-05 22_[+1]_50 chrI:7383227-7383307 4.4e-05 6_[+1]_66 chrIII:13713055-13713135 4.4e-05 61_[+1]_11 chrI:8046523-8046603 4.4e-05 29_[+1]_43 chrI:933476-933556 4.4e-05 64_[+1]_8 chrIII:10094678-10094758 5.8e-05 30_[+1]_42 chrX:6134546-6134626 5.8e-05 12_[+1]_60 chrI:9374813-9374893 7.2e-05 71_[+1]_1 chrX:6410457-6410537 8.7e-05 69_[+1]_3 chrIII:13564984-13565064 8.7e-05 22_[+1]_50 chrV:1474645-1474725 0.00012 68_[+1]_4 chrII:4672685-4672765 0.00012 39_[+1]_33 chrX:1120418-1120498 0.00012 69_[+1]_3 chrII:11537195-11537275 0.00013 51_[+1]_21 chrV:14153799-14153879 0.00013 47_[+1]_25 chrII:7810938-7811018 0.00013 64_[+1]_8 chrI:14863535-14863615 0.00013 48_[+1]_24 chrIV:17268843-17268923 0.00014 72_[+1] chrV:6893822-6893902 0.00014 57_[+1]_15 chrX:8569340-8569420 0.00017 11_[+1]_61 chrX:13948263-13948343 0.00017 34_[+1]_38 chrX:5592034-5592114 0.00017 40_[+1]_32 chrV:8785701-8785781 0.00017 9_[+1]_63 chrII:8128830-8128910 0.00019 33_[+1]_39 chrI:9268951-9269031 0.00022 64_[+1]_8 chrIV:7235518-7235598 0.00025 31_[+1]_41 chrV:8001043-8001123 0.00025 45_[+1]_27 chrIV:5974233-5974313 0.00025 27_[+1]_45 chrIV:6645927-6646007 0.00025 44_[+1]_28 chrIV:5964676-5964756 0.00025 58_[+1]_14 chrI:7954948-7955028 0.00029 68_[+1]_4 chrII:6741592-6741672 0.00032 44_[+1]_28 chrII:11632890-11632970 0.00035 8_[+1]_64 chrX:14557530-14557610 0.00035 72_[+1] chrI:2299681-2299761 0.00041 57_[+1]_15 chrI:14845788-14845868 0.00041 21_[+1]_51 chrIV:11594408-11594488 0.00041 11_[+1]_61 chrII:6943862-6943942 0.00041 9_[+1]_63 chrX:13754709-13754789 0.00046 7_[+1]_65 chrIII:4010296-4010376 0.00046 1_[+1]_71 chrX:5995723-5995803 0.00046 49_[+1]_23 chrX:9622812-9622892 0.00049 37_[+1]_35 chrX:2432597-2432677 0.00056 15_[+1]_57 chrIII:9703904-9703984 0.00056 27_[+1]_45 chrX:8995525-8995605 0.00058 63_[+1]_9 chrX:5816520-5816600 0.00061 28_[+1]_44 chrX:4265720-4265800 0.00073 10_[+1]_62 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCTCTYT MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTCTCTYT width=8 seqs=66 chrII:10384818-10384898 ( 53) CTCTCTCT 1 chrV:6879716-6879796 ( 36) CTCTCTCT 1 chrIII:4666873-4666953 ( 49) CTCTCTCT 1 chrIV:16498144-16498224 ( 32) CTCTCTCT 1 chrI:4005755-4005835 ( 26) CTCTCTCT 1 chrI:1559279-1559359 ( 3) CTCTCTCT 1 chrI:14181153-14181233 ( 50) CTCTCTCT 1 chrX:13687233-13687313 ( 49) CTCTCTCT 1 chrX:2598971-2599051 ( 25) CTCTCTCT 1 chrII:15256027-15256107 ( 10) CTCTCTCT 1 chrX:1064171-1064251 ( 25) CTCTCTCT 1 chrIII:2532794-2532874 ( 5) CTCTCTCT 1 chrI:11203423-11203503 ( 49) CTCTCTCT 1 chrI:4941357-4941437 ( 64) CTCTCTCT 1 chrIII:7729794-7729874 ( 16) CTCTCTTT 1 chrV:12465496-12465576 ( 51) CTCTCTTT 1 chrX:11384748-11384828 ( 2) CTCTCTTT 1 chrX:14292664-14292744 ( 68) CTCTCTTT 1 chrIII:9180572-9180652 ( 6) CTCTCTTT 1 chrIV:14032771-14032851 ( 23) CTCTCTGT 1 chrI:7383227-7383307 ( 7) CTCTCTGT 1 chrIII:13713055-13713135 ( 62) CTCTCTGT 1 chrI:8046523-8046603 ( 30) CTCTCTGT 1 chrI:933476-933556 ( 65) CTCTCTGT 1 chrIII:10094678-10094758 ( 31) CTCTCCCT 1 chrX:6134546-6134626 ( 13) CTCTCCCT 1 chrI:9374813-9374893 ( 72) CCCTCTCT 1 chrX:6410457-6410537 ( 70) TTCTCTCT 1 chrIII:13564984-13565064 ( 23) TTCTCTCT 1 chrV:1474645-1474725 ( 69) CTCGCTCT 1 chrII:4672685-4672765 ( 40) CTCGCTCT 1 chrX:1120418-1120498 ( 70) CTCTCCTT 1 chrII:11537195-11537275 ( 52) CCCTCTTT 1 chrV:14153799-14153879 ( 48) CCCTCTTT 1 chrII:7810938-7811018 ( 65) CCCTCTTT 1 chrI:14863535-14863615 ( 49) CCCTCTTT 1 chrIV:17268843-17268923 ( 73) TTCTCTTT 1 chrV:6893822-6893902 ( 58) TTCTCTTT 1 chrX:8569340-8569420 ( 12) CTCGCTTT 1 chrX:13948263-13948343 ( 35) CTCTCTCC 1 chrX:5592034-5592114 ( 41) CTCGCTTT 1 chrV:8785701-8785781 ( 10) CTCGCTTT 1 chrII:8128830-8128910 ( 34) CTCTCCGT 1 chrI:9268951-9269031 ( 65) CCCTCTGT 1 chrIV:7235518-7235598 ( 32) TTCTCTGT 1 chrV:8001043-8001123 ( 46) TTCTCTGT 1 chrIV:5974233-5974313 ( 28) TTCTCTGT 1 chrIV:6645927-6646007 ( 45) CCCTCCCT 1 chrIV:5964676-5964756 ( 59) CCCTCCCT 1 chrI:7954948-7955028 ( 69) TTCTCCCT 1 chrII:6741592-6741672 ( 45) CTCGCCCT 1 chrII:11632890-11632970 ( 9) CCCGCTCT 1 chrX:14557530-14557610 ( 73) CCCTCCTT 1 chrI:2299681-2299761 ( 58) GTCTCTTT 1 chrI:14845788-14845868 ( 22) TTCGCTCT 1 chrIV:11594408-11594488 ( 12) GTCTCTTT 1 chrII:6943862-6943942 ( 10) TTCGCTCT 1 chrX:13754709-13754789 ( 8) CTCGCCTT 1 chrIII:4010296-4010376 ( 2) CTCTCCCC 1 chrX:5995723-5995803 ( 50) CTCTCCCC 1 chrX:9622812-9622892 ( 38) CCCTCTCC 1 chrX:2432597-2432677 ( 16) CTCTCCTC 1 chrIII:9703904-9703984 ( 28) CTCTCCTC 1 chrX:8995525-8995605 ( 64) CCCTCTTC 1 chrX:5816520-5816600 ( 29) GTCTCTGT 1 chrX:4265720-4265800 ( 11) TCCTCCCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCTCTYT MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.45311 E= 1.6e-017 -1269 166 -253 -57 -1269 -34 -1269 170 -1269 201 -1269 -1269 -1269 -1269 -80 178 -1269 201 -1269 -1269 -1269 -13 -1269 165 -1269 101 -66 43 -1269 -123 -1269 186 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCTCTYT MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 66 E= 1.6e-017 0.000000 0.787879 0.045455 0.166667 0.000000 0.196970 0.000000 0.803030 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.151515 0.848485 0.000000 1.000000 0.000000 0.000000 0.000000 0.227273 0.000000 0.772727 0.000000 0.500000 0.166667 0.333333 0.000000 0.106061 0.000000 0.893939 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCTCTYT MEME-1 regular expression -------------------------------------------------------------------------------- CTCTC[TC][CT]T -------------------------------------------------------------------------------- Time 8.94 secs. ******************************************************************************** ******************************************************************************** MOTIF GAGARRRA MEME-2 width = 8 sites = 43 llr = 349 E-value = 8.3e-006 ******************************************************************************** -------------------------------------------------------------------------------- Motif GAGARRRA MEME-2 Description -------------------------------------------------------------------------------- Simplified A :a2a6649 pos.-specific C :::::::: probability G a:8:4461 matrix T :::::::: bits 2.1 * * 1.8 ** * 1.6 ** * 1.4 ** * * Relative 1.2 **** * Entropy 1.0 ******** (11.7 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GAGAAAGA consensus GGA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGARRRA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:12027016-12027096 48 1.48e-05 CTCGAGATGA GAGAAAGA GATGAAGAAA chrI:3648226-3648306 30 1.48e-05 aagagaggta gagaaaga aagagagaga chrI:9500879-9500959 44 1.48e-05 GTGAGATGTA GAGAAAGA AGCGAGACTC chrX:2885506-2885586 53 1.48e-05 GCAGTGGAAG GAGAAAGA GGAGGACGCT chrI:7954948-7955028 2 2.83e-05 A GAGAAAAA AATGTGAGAG chrV:1197446-1197526 31 2.83e-05 TGCGTTGCGT GAGAAAAA TTGCGTTTTG chrIII:9046226-9046306 11 2.83e-05 GTGGAGGGGT GAGAAAAA GTAAGAAAAA chrIII:9176012-9176092 46 2.83e-05 GAAAACCGCA GAGAAAAA GCGGGGAACA chrI:10469115-10469195 73 2.83e-05 TGCGTTGCGT GAGAAAAA chrI:3740500-3740580 36 4.45e-05 AGGGCAGAGA GAGAGAGA GACACGTTGA chrIII:8874375-8874455 57 4.45e-05 gtgtgtgtgt gAGAGAGA GAGAGTGTCC chrX:15189379-15189459 72 4.45e-05 gagagggaga gagagaga C chrI:13495294-13495374 4 4.45e-05 TAa gagagaga ggggagagac chrX:1120418-1120498 49 4.45e-05 gagacagaca gagagaga tggagagGTT chrI:14628202-14628282 1 4.45e-05 . gagagaga gaagctagag chrX:15630948-15631028 8 6.06e-05 TTGAGAA GAGAAGGA CGAAGCATTG chrI:14181153-14181233 15 6.06e-05 AAGAGAAAAG GAGAAGGA AAAGAGAATT chrX:2094100-2094180 51 7.54e-05 GGACCAGCAG GAGAGAAA GGAACCAGTG chrIV:7387307-7387387 48 9.02e-05 GGGATACGCA GAGAAGAA TAGGTAGCAG chrI:7711717-7711797 62 9.02e-05 TGGAAAGGGA GAGAAGAA GGAACACAAG chrI:9475064-9475144 22 9.02e-05 GTCTATGGGA GAGAAGAA ATGGGAGATG chrX:10435675-10435755 1 9.02e-05 . GAGAAGAA GGAGGACGAG chrV:14153799-14153879 27 9.02e-05 ATTCTGAAGG GAGAAGAA GAAGCAGGAT chrX:7651345-7651425 57 9.02e-05 AGGCGGACGG GAGAAGAA GCAGGGCAAG chrIV:9269002-9269082 50 1.08e-04 TAGACAATCA GAGAGGGA GCCAAAAAGA chrX:9078307-9078387 59 1.08e-04 ATATTCTAGT GAGAGGGA GCAGACTGGC chrIV:1824205-1824285 42 1.08e-04 GCAAGGAGGA GAGAGGGA GCAGAGACGG chrX:9668697-9668777 11 1.08e-04 GTCCATTTCA GAGAGGGA CGCGTGTGCG chrX:14297370-14297450 55 1.24e-04 ATTAGAGAGT GAGAGGAA AATGGGAAGA chrX:12890257-12890337 16 1.38e-04 AACAAACAAT GAAAAAGA GATTTGGAGG chrV:9219230-9219310 20 1.38e-04 AGGGAGGCGC GAAAAAGA GATGCAGTAG chrIII:3820290-3820370 32 1.65e-04 GGCAGACGAC GAAAGAGA ACGAAGGTGA chrV:5991681-5991761 17 1.65e-04 ATATTTTTGG GAAAGAGA AAACGAGTCG chrX:16771008-16771088 50 1.81e-04 GAGTGTGCCA GAGAAAGG ACACCCCGTC chrIV:2998757-2998837 68 1.81e-04 GGGCACATAC GAGAAAGG AGAGA chrII:7072712-7072792 45 2.09e-04 GAAAACGGAG GAAAGAAA TTTAGAGATT chrX:16389342-16389422 73 2.09e-04 CAAAACGATC GAAAGAAA chrII:6734840-6734920 30 2.24e-04 GTGTCTCAAC GAGAAAAG CAAACGCGCT chrI:7383227-7383307 70 2.55e-04 GGCAGGGAGC GAGAGAGG AGC chrI:6283597-6283677 19 2.71e-04 TGCCGCAATG GAAAGGGA CGTTTCGGTG chrV:12038939-12039019 11 2.89e-04 TACACTGAGG GAGAAGGG GAGACACATT chrIII:13564984-13565064 58 2.89e-04 TGGCACCGCC GAGAAGGG AGACGGAGAG chrI:6532116-6532196 39 4.43e-04 CAAGAGAAGT AAGAAAAA TGAAAATATT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGARRRA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:12027016-12027096 1.5e-05 47_[+2]_25 chrI:3648226-3648306 1.5e-05 29_[+2]_43 chrI:9500879-9500959 1.5e-05 43_[+2]_29 chrX:2885506-2885586 1.5e-05 52_[+2]_20 chrI:7954948-7955028 2.8e-05 1_[+2]_71 chrV:1197446-1197526 2.8e-05 30_[+2]_42 chrIII:9046226-9046306 2.8e-05 10_[+2]_62 chrIII:9176012-9176092 2.8e-05 45_[+2]_27 chrI:10469115-10469195 2.8e-05 72_[+2] chrI:3740500-3740580 4.4e-05 35_[+2]_37 chrIII:8874375-8874455 4.4e-05 56_[+2]_16 chrX:15189379-15189459 4.4e-05 71_[+2]_1 chrI:13495294-13495374 4.4e-05 3_[+2]_69 chrX:1120418-1120498 4.4e-05 48_[+2]_24 chrI:14628202-14628282 4.4e-05 [+2]_72 chrX:15630948-15631028 6.1e-05 7_[+2]_65 chrI:14181153-14181233 6.1e-05 14_[+2]_58 chrX:2094100-2094180 7.5e-05 50_[+2]_22 chrIV:7387307-7387387 9e-05 47_[+2]_25 chrI:7711717-7711797 9e-05 61_[+2]_11 chrI:9475064-9475144 9e-05 21_[+2]_51 chrX:10435675-10435755 9e-05 [+2]_72 chrV:14153799-14153879 9e-05 26_[+2]_46 chrX:7651345-7651425 9e-05 56_[+2]_16 chrIV:9269002-9269082 0.00011 49_[+2]_23 chrX:9078307-9078387 0.00011 58_[+2]_14 chrIV:1824205-1824285 0.00011 41_[+2]_31 chrX:9668697-9668777 0.00011 10_[+2]_62 chrX:14297370-14297450 0.00012 54_[+2]_18 chrX:12890257-12890337 0.00014 15_[+2]_57 chrV:9219230-9219310 0.00014 19_[+2]_53 chrIII:3820290-3820370 0.00016 31_[+2]_41 chrV:5991681-5991761 0.00016 16_[+2]_56 chrX:16771008-16771088 0.00018 49_[+2]_23 chrIV:2998757-2998837 0.00018 67_[+2]_5 chrII:7072712-7072792 0.00021 44_[+2]_28 chrX:16389342-16389422 0.00021 72_[+2] chrII:6734840-6734920 0.00022 29_[+2]_43 chrI:7383227-7383307 0.00026 69_[+2]_3 chrI:6283597-6283677 0.00027 18_[+2]_54 chrV:12038939-12039019 0.00029 10_[+2]_62 chrIII:13564984-13565064 0.00029 57_[+2]_15 chrI:6532116-6532196 0.00044 38_[+2]_34 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGARRRA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GAGARRRA width=8 seqs=43 chrV:12027016-12027096 ( 48) GAGAAAGA 1 chrI:3648226-3648306 ( 30) GAGAAAGA 1 chrI:9500879-9500959 ( 44) GAGAAAGA 1 chrX:2885506-2885586 ( 53) GAGAAAGA 1 chrI:7954948-7955028 ( 2) GAGAAAAA 1 chrV:1197446-1197526 ( 31) GAGAAAAA 1 chrIII:9046226-9046306 ( 11) GAGAAAAA 1 chrIII:9176012-9176092 ( 46) GAGAAAAA 1 chrI:10469115-10469195 ( 73) GAGAAAAA 1 chrI:3740500-3740580 ( 36) GAGAGAGA 1 chrIII:8874375-8874455 ( 57) GAGAGAGA 1 chrX:15189379-15189459 ( 72) GAGAGAGA 1 chrI:13495294-13495374 ( 4) GAGAGAGA 1 chrX:1120418-1120498 ( 49) GAGAGAGA 1 chrI:14628202-14628282 ( 1) GAGAGAGA 1 chrX:15630948-15631028 ( 8) GAGAAGGA 1 chrI:14181153-14181233 ( 15) GAGAAGGA 1 chrX:2094100-2094180 ( 51) GAGAGAAA 1 chrIV:7387307-7387387 ( 48) GAGAAGAA 1 chrI:7711717-7711797 ( 62) GAGAAGAA 1 chrI:9475064-9475144 ( 22) GAGAAGAA 1 chrX:10435675-10435755 ( 1) GAGAAGAA 1 chrV:14153799-14153879 ( 27) GAGAAGAA 1 chrX:7651345-7651425 ( 57) GAGAAGAA 1 chrIV:9269002-9269082 ( 50) GAGAGGGA 1 chrX:9078307-9078387 ( 59) GAGAGGGA 1 chrIV:1824205-1824285 ( 42) GAGAGGGA 1 chrX:9668697-9668777 ( 11) GAGAGGGA 1 chrX:14297370-14297450 ( 55) GAGAGGAA 1 chrX:12890257-12890337 ( 16) GAAAAAGA 1 chrV:9219230-9219310 ( 20) GAAAAAGA 1 chrIII:3820290-3820370 ( 32) GAAAGAGA 1 chrV:5991681-5991761 ( 17) GAAAGAGA 1 chrX:16771008-16771088 ( 50) GAGAAAGG 1 chrIV:2998757-2998837 ( 68) GAGAAAGG 1 chrII:7072712-7072792 ( 45) GAAAGAAA 1 chrX:16389342-16389422 ( 73) GAAAGAAA 1 chrII:6734840-6734920 ( 30) GAGAAAAG 1 chrI:7383227-7383307 ( 70) GAGAGAGG 1 chrI:6283597-6283677 ( 19) GAAAGGGA 1 chrV:12038939-12039019 ( 11) GAGAAGGG 1 chrIII:13564984-13565064 ( 58) GAGAAGGG 1 chrI:6532116-6532196 ( 39) AAGAAAAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGARRRA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.8043 E= 8.3e-006 -337 -1207 189 -1207 205 -1207 -1207 -1207 -56 -1207 167 -1207 205 -1207 -1207 -1207 127 -1207 67 -1207 138 -1207 50 -1207 72 -1207 120 -1207 184 -1207 -92 -1207 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGARRRA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 43 E= 8.3e-006 0.023256 0.000000 0.976744 0.000000 1.000000 0.000000 0.000000 0.000000 0.162791 0.000000 0.837209 0.000000 1.000000 0.000000 0.000000 0.000000 0.581395 0.000000 0.418605 0.000000 0.627907 0.000000 0.372093 0.000000 0.395349 0.000000 0.604651 0.000000 0.860465 0.000000 0.139535 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGARRRA MEME-2 regular expression -------------------------------------------------------------------------------- GAGA[AG][AG][GA]A -------------------------------------------------------------------------------- Time 12.64 secs. ******************************************************************************** ******************************************************************************** MOTIF GAMGVAGA MEME-3 width = 8 sites = 34 llr = 287 E-value = 1.6e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GAMGVAGA MEME-3 Description -------------------------------------------------------------------------------- Simplified A :a413a2a pos.-specific C ::6:4::: probability G a::92:8: matrix T :::::::: bits 2.1 * * * 1.8 ** * * 1.6 ** * * 1.4 ** * * * Relative 1.2 ** * *** Entropy 1.0 **** *** (12.2 bits) 0.8 **** *** 0.6 **** *** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GACGCAGA consensus A A A sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAMGVAGA MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:7728234-7728314 55 1.58e-05 GCCCGTGAGA GACGCAGA GACACAAACT chrIV:14128423-14128503 25 1.58e-05 GATCTCTAGA GACGCAGA TACTCGGAGC chrI:4032631-4032711 24 1.58e-05 GTCCTGTAGA GACGCAGA CGTAAAAAGA chrI:13495294-13495374 19 1.58e-05 agaggggaga gacgcaga gaaaagagag chrIV:17268843-17268923 12 1.58e-05 GTGGCAACGA GACGCAGA CATTGTTCTG chrX:4265720-4265800 58 1.58e-05 AGACAGAAGA GACGCAGA GGTACGACCT chrII:3547472-3547552 17 1.58e-05 CAGGGGTCGA GACGCAGA CAGGAAAGTA chrII:9308797-9308877 4 1.58e-05 TGA GACGCAGA GACACAGGGG chrI:11095910-11095990 20 4.63e-05 GGTAAGGGGA GACGAAGA GTTTCTGAGT chrV:12038939-12039019 72 4.63e-05 gacgaggagc gacgaaga a chrII:1105422-1105502 62 4.63e-05 GTGGGCAGTC GAAGCAGA AGTCGGAGGC chrV:12027016-12027096 67 6.11e-05 ATGAAGAAAA GAAGAAGA AGCAGG chrM:12399-12479 33 6.11e-05 AAGTTTGGTC GAAGAAGA TTTGAAGAAG chrI:7954948-7955028 41 6.11e-05 AACGAAGAAA GAAGAAGA AGCATAGTGT chrI:3648226-3648306 16 6.11e-05 gagaaggaga gaagaaga gaggtagaga chrI:2831477-2831557 10 6.11e-05 AGAAGGGGG GAAGAAGA CAAGAGGCGG chrI:1651445-1651525 55 7.78e-05 TGAGAGAGTA GACGGAGA AGACATCGTA chrI:3740500-3740580 66 7.78e-05 GACACAAAGA GACGGAGA CAACGCA chrV:14697030-14697110 25 7.78e-05 TTGTAGAAGA GACGGAGA GTTGAAGGAC chrIII:13564984-13565064 67 7.78e-05 CGAGAAGGGA GACGGAGA GCCCCT chrX:2094100-2094180 11 9.40e-05 TGATGGACCA GAAGGAGA CCATGGGCAT chrV:6030702-6030782 25 9.40e-05 CGATGGGAAA GAAGGAGA AGATGAAGGG chrX:9296786-9296866 52 1.08e-04 ATTTATTGAG GACGCAAA ACCCCACCGC chrIV:7387307-7387387 9 1.36e-04 TTGGGGAC GAAGCAAA ACGAGAGAGT chrV:13808612-13808692 64 1.36e-04 gtgagtgagc gaAGCAAA ATGAAAAAA chrV:5991681-5991761 54 1.36e-04 ACCAGAGCAT GACGAAAA TTGACAGCGA chrIV:5974233-5974313 4 1.36e-04 gaa gaagcaaa agCTCTTTTT chrI:10469115-10469195 40 1.50e-04 GTATCTTCTA GAAGAAAA TTTCAAAAAT chrX:10435675-10435755 62 1.65e-04 GAGCGAGGCT GACGGAAA GGACGGGACT chrI:5420489-5420569 26 1.80e-04 AATTATAAGA GACACAGA CGCTGAATCA chrX:15630948-15631028 41 1.95e-04 CGGAGAAGTA GAAGGAAA TGGGAGGAGA chrIII:9084448-9084528 67 2.23e-04 CCGATGGGAG GACAAAGA GCAAAG chrII:8499219-8499299 63 2.23e-04 GCAGAGACAT GAAACAGA AGGCTGTATA chrI:9500879-9500959 22 2.36e-04 GAGTCAGATG GAAAAAGA AAGAGTGAGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAMGVAGA MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:7728234-7728314 1.6e-05 54_[+3]_18 chrIV:14128423-14128503 1.6e-05 24_[+3]_48 chrI:4032631-4032711 1.6e-05 23_[+3]_49 chrI:13495294-13495374 1.6e-05 18_[+3]_54 chrIV:17268843-17268923 1.6e-05 11_[+3]_61 chrX:4265720-4265800 1.6e-05 57_[+3]_15 chrII:3547472-3547552 1.6e-05 16_[+3]_56 chrII:9308797-9308877 1.6e-05 3_[+3]_69 chrI:11095910-11095990 4.6e-05 19_[+3]_53 chrV:12038939-12039019 4.6e-05 71_[+3]_1 chrII:1105422-1105502 4.6e-05 61_[+3]_11 chrV:12027016-12027096 6.1e-05 66_[+3]_6 chrM:12399-12479 6.1e-05 32_[+3]_40 chrI:7954948-7955028 6.1e-05 40_[+3]_32 chrI:3648226-3648306 6.1e-05 15_[+3]_57 chrI:2831477-2831557 6.1e-05 9_[+3]_63 chrI:1651445-1651525 7.8e-05 54_[+3]_18 chrI:3740500-3740580 7.8e-05 65_[+3]_7 chrV:14697030-14697110 7.8e-05 24_[+3]_48 chrIII:13564984-13565064 7.8e-05 66_[+3]_6 chrX:2094100-2094180 9.4e-05 10_[+3]_62 chrV:6030702-6030782 9.4e-05 24_[+3]_48 chrX:9296786-9296866 0.00011 51_[+3]_21 chrIV:7387307-7387387 0.00014 8_[+3]_64 chrV:13808612-13808692 0.00014 63_[+3]_9 chrV:5991681-5991761 0.00014 53_[+3]_19 chrIV:5974233-5974313 0.00014 3_[+3]_69 chrI:10469115-10469195 0.00015 39_[+3]_33 chrX:10435675-10435755 0.00017 61_[+3]_11 chrI:5420489-5420569 0.00018 25_[+3]_47 chrX:15630948-15631028 0.00019 40_[+3]_32 chrIII:9084448-9084528 0.00022 66_[+3]_6 chrII:8499219-8499299 0.00022 62_[+3]_10 chrI:9500879-9500959 0.00024 21_[+3]_51 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAMGVAGA MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GAMGVAGA width=8 seqs=34 chrV:7728234-7728314 ( 55) GACGCAGA 1 chrIV:14128423-14128503 ( 25) GACGCAGA 1 chrI:4032631-4032711 ( 24) GACGCAGA 1 chrI:13495294-13495374 ( 19) GACGCAGA 1 chrIV:17268843-17268923 ( 12) GACGCAGA 1 chrX:4265720-4265800 ( 58) GACGCAGA 1 chrII:3547472-3547552 ( 17) GACGCAGA 1 chrII:9308797-9308877 ( 4) GACGCAGA 1 chrI:11095910-11095990 ( 20) GACGAAGA 1 chrV:12038939-12039019 ( 72) GACGAAGA 1 chrII:1105422-1105502 ( 62) GAAGCAGA 1 chrV:12027016-12027096 ( 67) GAAGAAGA 1 chrM:12399-12479 ( 33) GAAGAAGA 1 chrI:7954948-7955028 ( 41) GAAGAAGA 1 chrI:3648226-3648306 ( 16) GAAGAAGA 1 chrI:2831477-2831557 ( 10) GAAGAAGA 1 chrI:1651445-1651525 ( 55) GACGGAGA 1 chrI:3740500-3740580 ( 66) GACGGAGA 1 chrV:14697030-14697110 ( 25) GACGGAGA 1 chrIII:13564984-13565064 ( 67) GACGGAGA 1 chrX:2094100-2094180 ( 11) GAAGGAGA 1 chrV:6030702-6030782 ( 25) GAAGGAGA 1 chrX:9296786-9296866 ( 52) GACGCAAA 1 chrIV:7387307-7387387 ( 9) GAAGCAAA 1 chrV:13808612-13808692 ( 64) GAAGCAAA 1 chrV:5991681-5991761 ( 54) GACGAAAA 1 chrIV:5974233-5974313 ( 4) GAAGCAAA 1 chrI:10469115-10469195 ( 40) GAAGAAAA 1 chrX:10435675-10435755 ( 62) GACGGAAA 1 chrI:5420489-5420569 ( 26) GACACAGA 1 chrX:15630948-15631028 ( 41) GAAGGAAA 1 chrIII:9084448-9084528 ( 67) GACAAAGA 1 chrII:8499219-8499299 ( 63) GAAACAGA 1 chrI:9500879-9500959 ( 22) GAAAAAGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAMGVAGA MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.86128 E= 1.6e-003 -1173 -1173 192 -1173 205 -1173 -1173 -1173 87 117 -1173 -1173 -103 -1173 174 -1173 43 82 -16 -1173 205 -1173 -1173 -1173 -3 -1173 154 -1173 205 -1173 -1173 -1173 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAMGVAGA MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 34 E= 1.6e-003 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.441176 0.558824 0.000000 0.000000 0.117647 0.000000 0.882353 0.000000 0.323529 0.441176 0.235294 0.000000 1.000000 0.000000 0.000000 0.000000 0.235294 0.000000 0.764706 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAMGVAGA MEME-3 regular expression -------------------------------------------------------------------------------- GA[CA]G[CAG]A[GA]A -------------------------------------------------------------------------------- Time 16.20 secs. ******************************************************************************** ******************************************************************************** MOTIF CTTCYTCT MEME-4 width = 8 sites = 48 llr = 360 E-value = 3.0e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTTCYTCT MEME-4 Description -------------------------------------------------------------------------------- Simplified A :1:::::: pos.-specific C 82:73:a: probability G :22::::: matrix T 25836a:a bits 2.1 *** 1.8 *** 1.6 *** 1.4 *** Relative 1.2 * *** Entropy 1.0 * ****** (10.8 bits) 0.8 * ****** 0.6 * ****** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CTTCTTCT consensus TCGTC sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTCYTCT MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:14016882-14016962 39 1.42e-05 TGGCTAGCGT CTTCTTCT ACTTGCCCCG chrV:1471301-1471381 19 1.42e-05 TATTTCGCAT CTTCTTCT CTTAATGTGA chrII:11632890-11632970 60 1.42e-05 CCACTATGCT CTTCTTCT CTGCGTCTTT chrII:11537195-11537275 43 1.42e-05 CCTTCTCCTT CTTCTTCT CCCCTCTTTC chrIV:6645927-6646007 57 1.42e-05 CTCCCTGCCC CTTCTTCT CCTCTTCCAC chrX:16392322-16392402 35 1.42e-05 TCATCTTGTG CTTCTTCT CGGCGAGATA chrX:6134546-6134626 64 2.85e-05 CCATCTGCCG CTTCCTCT CCATCCACT chrV:6893822-6893902 49 2.85e-05 CTTCAGCCTT CTTCCTCT TTTCTCTTTT chrIII:10520625-10520705 19 2.85e-05 TTGCGGACCC CTTCCTCT CCCGGGACAG chrV:12465496-12465576 65 4.26e-05 CTTTTCATAT CTTTTTCT GTTTCTCT chrIV:5974233-5974313 16 4.26e-05 agcaaaagCT CTTTTTCT CTATTTCTCT chrV:6880818-6880898 44 4.26e-05 GCTTCTACGT CTTTTTCT TCTTGTCCTC chrI:4941357-4941437 52 5.69e-05 tccttcccgc cctcttct tgatctctct chrM:6253-6333 67 7.20e-05 TAATTTTTTA CGTCTTCT AAAAAA chrV:8785701-8785781 53 7.20e-05 CCGTCGTCGC CGTCTTCT GTGGACACTG chrX:17315054-17315134 28 1.01e-04 TCACCGCCGT TTTCTTCT CGGCGTCTCG chrI:14863535-14863615 4 1.01e-04 TGC CTGCTTCT TCCTCGGCAG chrII:10384818-10384898 71 1.15e-04 gtttctattt ctttctct tt chrI:933476-933556 34 1.15e-04 CACCAATTAT CTTTCTCT CTGtggcttc chrIV:16498144-16498224 53 1.30e-04 ctcaactttt cctcctct atctctatcc chrII:6943862-6943942 58 1.30e-04 GCGGGTACGT CCTCCTCT CACTTCGATC chrI:4490591-4490671 55 1.58e-04 TGCGTGTTTT CATCTTCT ATtgctgctg chrV:20241688-20241768 50 1.58e-04 CCGAAGTATC CATCTTCT CTGGAATCGC chrX:5818320-5818400 8 1.58e-04 CAATCTT CATCTTCT TCCGCGAGAC chrIV:9269002-9269082 1 1.73e-04 . CGTCCTCT TCATCAAAAG chrX:2432597-2432677 6 1.73e-04 CACCT CGTCCTCT TCCTCTCCTC chrIII:9703904-9703984 72 1.73e-04 TGTGTGTGTG CGTCCTCT C chrV:11844990-11845070 59 1.73e-04 CTTGCCTCTT CGTCCTCT ATTCCCGCCG chrII:6828683-6828763 67 2.18e-04 GAAGTCACCA TTTCCTCT CGGGTG chrX:5686214-5686294 42 2.18e-04 TTCATACTCC CGTTTTCT CTAGTTCCCG chrIV:7235518-7235598 42 2.46e-04 TTCTCTGTAT CTGTTTCT GCTCACTCCT chrM:12399-12479 7 2.46e-04 CTATAT TTTTTTCT AGCTTAGCAA chrIV:17268843-17268923 27 2.46e-04 AGACATTGTT CTGTTTCT CCCCGCCTCT chrIV:5369031-5369111 19 2.76e-04 TCTGCACTCT CCGCTTCT CACACACTCT chrIV:12771633-12771713 14 2.76e-04 GATCTTCGCA CCGCTTCT GGTGTGCCCC chrX:13948263-13948343 45 2.76e-04 CTCTCTCCCC CCGCTTCT CTGTGTCTCT chrX:15725652-15725732 23 2.90e-04 TCCCCCCCAT CCTTCTCT GAAATCGATA chrI:7954948-7955028 59 3.49e-04 AGCATAGTGT TGTCTTCT TCTTCTCCCT chrIII:9180572-9180652 48 3.79e-04 TATGCTCAAT TTGCTTCT CCAGACAGGG chrX:2598971-2599051 33 4.08e-04 cactctctct ttttctct ctttctAGTC chrM:3172-3252 24 4.08e-04 CAAAGTTATA TTTTCTCT CGTTTAATTT chrII:6492005-6492085 49 4.38e-04 GACCAGCCGG CCGCCTCT AGCTGTCCAG chrI:6175215-6175295 64 4.67e-04 GTGCTCTAAG TCTTTTCT GCCTCCAAT chrIII:10094678-10094758 56 4.67e-04 TCCGTGCCGC CCGTTTCT GTCCGCGTCC chrI:10469115-10469195 31 4.96e-04 TTGTTAAGCG TATCTTCT AGAAGAAAAT chrIV:14032771-14032851 61 6.31e-04 CCCCGTCCTC CTACTTCT CATCGTAAAC chrI:1559279-1559359 63 6.31e-04 CTCGTTTCGC TTGTTTCT TCGCACTGCC chrX:1064171-1064251 37 6.31e-04 CTCTCTGCTC CTTCGTCT TGGGGTGCCA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTCYTCT MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:14016882-14016962 1.4e-05 38_[+4]_34 chrV:1471301-1471381 1.4e-05 18_[+4]_54 chrII:11632890-11632970 1.4e-05 59_[+4]_13 chrII:11537195-11537275 1.4e-05 42_[+4]_30 chrIV:6645927-6646007 1.4e-05 56_[+4]_16 chrX:16392322-16392402 1.4e-05 34_[+4]_38 chrX:6134546-6134626 2.9e-05 63_[+4]_9 chrV:6893822-6893902 2.9e-05 48_[+4]_24 chrIII:10520625-10520705 2.9e-05 18_[+4]_54 chrV:12465496-12465576 4.3e-05 64_[+4]_8 chrIV:5974233-5974313 4.3e-05 15_[+4]_57 chrV:6880818-6880898 4.3e-05 43_[+4]_29 chrI:4941357-4941437 5.7e-05 51_[+4]_21 chrM:6253-6333 7.2e-05 66_[+4]_6 chrV:8785701-8785781 7.2e-05 52_[+4]_20 chrX:17315054-17315134 0.0001 27_[+4]_45 chrI:14863535-14863615 0.0001 3_[+4]_69 chrII:10384818-10384898 0.00012 70_[+4]_2 chrI:933476-933556 0.00012 33_[+4]_39 chrIV:16498144-16498224 0.00013 52_[+4]_20 chrII:6943862-6943942 0.00013 57_[+4]_15 chrI:4490591-4490671 0.00016 54_[+4]_18 chrV:20241688-20241768 0.00016 49_[+4]_23 chrX:5818320-5818400 0.00016 7_[+4]_65 chrIV:9269002-9269082 0.00017 [+4]_72 chrX:2432597-2432677 0.00017 5_[+4]_67 chrIII:9703904-9703984 0.00017 71_[+4]_1 chrV:11844990-11845070 0.00017 58_[+4]_14 chrII:6828683-6828763 0.00022 66_[+4]_6 chrX:5686214-5686294 0.00022 41_[+4]_31 chrIV:7235518-7235598 0.00025 41_[+4]_31 chrM:12399-12479 0.00025 6_[+4]_66 chrIV:17268843-17268923 0.00025 26_[+4]_46 chrIV:5369031-5369111 0.00028 18_[+4]_54 chrIV:12771633-12771713 0.00028 13_[+4]_59 chrX:13948263-13948343 0.00028 44_[+4]_28 chrX:15725652-15725732 0.00029 22_[+4]_50 chrI:7954948-7955028 0.00035 58_[+4]_14 chrIII:9180572-9180652 0.00038 47_[+4]_25 chrX:2598971-2599051 0.00041 32_[+4]_40 chrM:3172-3252 0.00041 23_[+4]_49 chrII:6492005-6492085 0.00044 48_[+4]_24 chrI:6175215-6175295 0.00047 63_[+4]_9 chrIII:10094678-10094758 0.00047 55_[+4]_17 chrI:10469115-10469195 0.0005 30_[+4]_42 chrIV:14032771-14032851 0.00063 60_[+4]_12 chrI:1559279-1559359 0.00063 62_[+4]_10 chrX:1064171-1064251 0.00063 36_[+4]_36 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTCYTCT MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTTCYTCT width=8 seqs=48 chrX:14016882-14016962 ( 39) CTTCTTCT 1 chrV:1471301-1471381 ( 19) CTTCTTCT 1 chrII:11632890-11632970 ( 60) CTTCTTCT 1 chrII:11537195-11537275 ( 43) CTTCTTCT 1 chrIV:6645927-6646007 ( 57) CTTCTTCT 1 chrX:16392322-16392402 ( 35) CTTCTTCT 1 chrX:6134546-6134626 ( 64) CTTCCTCT 1 chrV:6893822-6893902 ( 49) CTTCCTCT 1 chrIII:10520625-10520705 ( 19) CTTCCTCT 1 chrV:12465496-12465576 ( 65) CTTTTTCT 1 chrIV:5974233-5974313 ( 16) CTTTTTCT 1 chrV:6880818-6880898 ( 44) CTTTTTCT 1 chrI:4941357-4941437 ( 52) CCTCTTCT 1 chrM:6253-6333 ( 67) CGTCTTCT 1 chrV:8785701-8785781 ( 53) CGTCTTCT 1 chrX:17315054-17315134 ( 28) TTTCTTCT 1 chrI:14863535-14863615 ( 4) CTGCTTCT 1 chrII:10384818-10384898 ( 71) CTTTCTCT 1 chrI:933476-933556 ( 34) CTTTCTCT 1 chrIV:16498144-16498224 ( 53) CCTCCTCT 1 chrII:6943862-6943942 ( 58) CCTCCTCT 1 chrI:4490591-4490671 ( 55) CATCTTCT 1 chrV:20241688-20241768 ( 50) CATCTTCT 1 chrX:5818320-5818400 ( 8) CATCTTCT 1 chrIV:9269002-9269082 ( 1) CGTCCTCT 1 chrX:2432597-2432677 ( 6) CGTCCTCT 1 chrIII:9703904-9703984 ( 72) CGTCCTCT 1 chrV:11844990-11845070 ( 59) CGTCCTCT 1 chrII:6828683-6828763 ( 67) TTTCCTCT 1 chrX:5686214-5686294 ( 42) CGTTTTCT 1 chrIV:7235518-7235598 ( 42) CTGTTTCT 1 chrM:12399-12479 ( 7) TTTTTTCT 1 chrIV:17268843-17268923 ( 27) CTGTTTCT 1 chrIV:5369031-5369111 ( 19) CCGCTTCT 1 chrIV:12771633-12771713 ( 14) CCGCTTCT 1 chrX:13948263-13948343 ( 45) CCGCTTCT 1 chrX:15725652-15725732 ( 23) CCTTCTCT 1 chrI:7954948-7955028 ( 59) TGTCTTCT 1 chrIII:9180572-9180652 ( 48) TTGCTTCT 1 chrX:2598971-2599051 ( 33) TTTTCTCT 1 chrM:3172-3252 ( 24) TTTTCTCT 1 chrII:6492005-6492085 ( 49) CCGCCTCT 1 chrI:6175215-6175295 ( 64) TCTTTTCT 1 chrIII:10094678-10094758 ( 56) CCGTTTCT 1 chrI:10469115-10469195 ( 31) TATCTTCT 1 chrIV:14032771-14032851 ( 61) CTACTTCT 1 chrI:1559279-1559359 ( 63) TTGTTTCT 1 chrX:1064171-1064251 ( 37) CTTCGTCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTCYTCT MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.01532 E= 3.0e+003 -1223 167 -1223 -24 -153 -26 -66 113 -353 -1223 -34 164 -1223 146 -1223 34 -1223 42 -366 139 -1223 -1223 -1223 202 -1223 200 -1223 -1223 -1223 -1223 -1223 202 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTCYTCT MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 48 E= 3.0e+003 0.000000 0.791667 0.000000 0.208333 0.083333 0.208333 0.166667 0.541667 0.020833 0.000000 0.208333 0.770833 0.000000 0.687500 0.000000 0.312500 0.000000 0.333333 0.020833 0.645833 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTCYTCT MEME-4 regular expression -------------------------------------------------------------------------------- [CT][TC][TG][CT][TC]TCT -------------------------------------------------------------------------------- Time 19.69 secs. ******************************************************************************** ******************************************************************************** MOTIF GAGAGAGT MEME-5 width = 8 sites = 10 llr = 102 E-value = 8.2e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GAGAGAGT MEME-5 Description -------------------------------------------------------------------------------- Simplified A :a:a:a:: pos.-specific C ::::::21 probability G a:a:a:8: matrix T :::::::9 bits 2.1 * * * 1.8 ****** 1.6 ****** * 1.4 ****** * Relative 1.2 ******** Entropy 1.0 ******** (14.7 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GAGAGAGT consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAGAGT MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrI:1651445-1651525 46 1.65e-05 CCTAAAGAAT GAGAGAGT AGACGGAGAA chrX:14297370-14297450 33 1.65e-05 GAAGACAAGT GAGAGAGT GCCAATTAGA chrIV:7387307-7387387 19 1.65e-05 GAAGCAAAAC GAGAGAGT ATTGGGATAG chrV:14697030-14697110 1 1.65e-05 . GAGAGAGT GAACAGTTGT chrII:10169535-10169615 68 1.65e-05 gtgagtgagt gagagagt gtctg chrV:13808612-13808692 48 1.65e-05 gtgagtgagt gagagagt gagtgagcga chrIII:931565-931645 37 1.65e-05 tgggaagcca gagagagt aaaatatggt chrV:6099089-6099169 4 3.22e-05 TAG GAGAGACT TGAATGCGGG chrI:14628202-14628282 16 3.22e-05 agagaagcta gagagact tagagaTTAG chrIV:4028265-4028345 44 4.89e-05 AGGACGAGGC GAGAGAGC GGCAGACACA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAGAGT MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:1651445-1651525 1.7e-05 45_[+5]_27 chrX:14297370-14297450 1.7e-05 32_[+5]_40 chrIV:7387307-7387387 1.7e-05 18_[+5]_54 chrV:14697030-14697110 1.7e-05 [+5]_72 chrII:10169535-10169615 1.7e-05 67_[+5]_5 chrV:13808612-13808692 1.7e-05 47_[+5]_25 chrIII:931565-931645 1.7e-05 36_[+5]_36 chrV:6099089-6099169 3.2e-05 3_[+5]_69 chrI:14628202-14628282 3.2e-05 15_[+5]_57 chrIV:4028265-4028345 4.9e-05 43_[+5]_29 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAGAGT MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GAGAGAGT width=8 seqs=10 chrI:1651445-1651525 ( 46) GAGAGAGT 1 chrX:14297370-14297450 ( 33) GAGAGAGT 1 chrIV:7387307-7387387 ( 19) GAGAGAGT 1 chrV:14697030-14697110 ( 1) GAGAGAGT 1 chrII:10169535-10169615 ( 68) GAGAGAGT 1 chrV:13808612-13808692 ( 48) GAGAGAGT 1 chrIII:931565-931645 ( 37) GAGAGAGT 1 chrV:6099089-6099169 ( 4) GAGAGACT 1 chrI:14628202-14628282 ( 16) GAGAGACT 1 chrIV:4028265-4028345 ( 44) GAGAGAGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAGAGT MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.0846 E= 8.2e+003 -997 -997 192 -997 205 -997 -997 -997 -997 -997 192 -997 205 -997 -997 -997 -997 -997 192 -997 205 -997 -997 -997 -997 -32 160 -997 -997 -131 -997 187 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAGAGT MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 8.2e+003 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.800000 0.000000 0.000000 0.100000 0.000000 0.900000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAGAGT MEME-5 regular expression -------------------------------------------------------------------------------- GAGAGA[GC]T -------------------------------------------------------------------------------- Time 23.11 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIII:9007329-9007409 6.09e-02 80 chrX:7214967-7215047 5.99e-01 80 chrX:7224680-7224760 1.49e-01 80 chrX:5818320-5818400 8.46e-02 80 chrM:1736-1816 9.96e-01 80 chrV:13393502-13393582 9.28e-01 80 chrI:14768874-14768954 4.36e-01 80 chrX:16392322-16392402 1.59e-02 34_[+4(1.42e-05)]_38 chrX:12693498-12693578 5.70e-01 80 chrX:7232456-7232536 9.80e-02 80 chrX:7651345-7651425 1.77e-02 56_[+2(9.02e-05)]_16 chrX:17456921-17457001 4.96e-02 80 chrV:6204273-6204353 3.67e-01 80 chrIII:13564984-13565064 6.07e-06 22_[+1(8.67e-05)]_36_[+3(7.78e-05)]_\ 6 chrIII:8127208-8127288 2.31e-01 80 chrX:11257177-11257257 2.13e-01 80 chrX:11379429-11379509 9.55e-01 80 chrV:8785701-8785781 3.09e-02 52_[+4(7.20e-05)]_20 chrV:6880818-6880898 9.72e-02 43_[+4(4.26e-05)]_29 chrII:5901831-5901911 7.27e-01 80 chrI:14863535-14863615 2.61e-02 80 chrM:5032-5112 8.11e-01 80 chrV:18706775-18706855 9.74e-01 80 chrIII:10520625-10520705 1.66e-02 18_[+4(2.85e-05)]_54 chrX:3472474-3472554 7.34e-01 80 chrV:11844990-11845070 1.83e-01 80 chrX:9668697-9668777 3.31e-02 80 chrII:1105422-1105502 2.18e-01 61_[+3(4.63e-05)]_11 chrV:16553049-16553129 6.48e-01 80 chrII:9308797-9308877 4.44e-03 3_[+3(1.58e-05)]_69 chrI:6283597-6283677 1.60e-01 80 chrV:9219230-9219310 2.94e-02 80 chrII:7810938-7811018 3.22e-01 80 chrI:933476-933556 2.06e-02 37_[+1(4.36e-05)]_19_[+1(4.36e-05)]_\ 8 chrIII:9180572-9180652 1.36e-03 5_[+1(2.85e-05)]_67 chrM:10002-10082 9.63e-01 80 chrM:8189-8269 8.66e-01 80 chrIII:3500028-3500108 1.07e-01 80 chrIV:12010540-12010620 8.78e-01 80 chrX:16389342-16389422 9.19e-03 80 chrI:4941357-4941437 5.93e-03 51_[+4(5.69e-05)]_4_[+1(1.43e-05)]_\ [+1(1.43e-05)]_1 chrX:2885506-2885586 2.17e-03 52_[+2(1.48e-05)]_20 chrV:10717005-10717085 5.43e-01 80 chrI:2831477-2831557 7.26e-02 9_[+3(6.11e-05)]_63 chrI:14628202-14628282 3.17e-03 [+2(4.45e-05)]_7_[+5(3.22e-05)]_57 chrII:8128830-8128910 1.47e-01 80 chrI:5589689-5589769 5.07e-01 80 chrIV:5964676-5964756 1.98e-01 80 chrIII:9052755-9052835 1.54e-01 80 chrIII:6537391-6537471 4.26e-01 80 chrV:12038939-12039019 1.30e-02 71_[+3(4.63e-05)]_1 chrII:6645819-6645899 2.24e-01 80 chrIII:8417362-8417442 3.25e-01 80 chrII:3547472-3547552 4.35e-02 16_[+3(1.58e-05)]_56 chrM:3172-3252 3.07e-02 80 chrI:11203423-11203503 4.78e-02 46_[+1(1.43e-05)]_26 chrIII:2535191-2535271 8.13e-01 80 chrV:14153799-14153879 8.04e-05 28_[+3(6.11e-05)]_44 chrM:7328-7408 1.00e+00 80 chrIII:9703904-9703984 1.17e-01 80 chrIII:11093619-11093699 6.31e-01 80 chrIII:8262679-8262759 9.65e-01 80 chrI:8046523-8046603 1.90e-01 29_[+1(4.36e-05)]_43 chrI:9374813-9374893 2.30e-01 71_[+1(7.25e-05)]_1 chrV:6030702-6030782 6.22e-02 24_[+3(9.40e-05)]_48 chrX:10435675-10435755 7.36e-03 [+2(9.02e-05)]_72 chrV:6893822-6893902 1.71e-02 48_[+4(2.85e-05)]_24 chrI:10469115-10469195 9.61e-04 72_[+2(2.83e-05)] chrIV:11871199-11871279 2.70e-01 80 chrX:5686214-5686294 2.47e-01 80 chrIII:9640167-9640247 9.52e-01 80 chrIII:9176012-9176092 5.04e-02 45_[+2(2.83e-05)]_27 chrIII:4037474-4037554 9.84e-02 80 chrIII:2532794-2532874 3.89e-02 2_[+1(1.43e-05)]_10_[+1(1.43e-05)]_\ 52 chrII:6943862-6943942 8.11e-02 80 chrV:20793963-20794043 6.56e-01 80 chrX:6410457-6410537 4.11e-04 69_[+1(8.67e-05)]_3 chrV:725417-725497 1.73e-01 80 chrIV:6809832-6809912 9.55e-02 80 chrX:5995723-5995803 4.19e-01 80 chrIII:11877406-11877486 6.53e-01 80 chrX:14557530-14557610 1.67e-02 80 chrX:16611466-16611546 8.53e-01 80 chrX:5592034-5592114 1.28e-01 80 chrIII:10856986-10857066 9.90e-01 80 chrIV:1824205-1824285 1.32e-02 80 chrI:9500879-9500959 9.44e-04 43_[+2(1.48e-05)]_29 chrIII:13713055-13713135 1.20e-02 61_[+1(4.36e-05)]_11 chrX:13948263-13948343 8.26e-02 80 chrX:1064171-1064251 2.60e-03 24_[+1(1.43e-05)]_48 chrX:2094100-2094180 5.92e-03 10_[+3(9.40e-05)]_32_[+2(7.54e-05)]_\ 22 chrII:8499219-8499299 1.12e-01 80 chrX:1120418-1120498 1.01e-05 48_[+2(4.45e-05)]_24 chrX:15725652-15725732 2.15e-01 80 chrX:8995525-8995605 5.75e-02 64_[+4(5.69e-05)]_8 chrX:10336829-10336909 4.67e-01 80 chrIV:12771633-12771713 4.00e-01 80 chrIII:2455601-2455681 9.94e-01 80 chrM:6037-6117 9.88e-01 80 chrX:9078307-9078387 1.28e-02 80 chrM:8398-8478 6.30e-01 80 chrM:1051-1131 5.19e-01 80 chrIV:14496570-14496650 9.99e-01 80 chrII:15256027-15256107 6.98e-03 1_[+1(1.43e-05)]_[+1(1.43e-05)]_63 chrIV:1687221-1687301 4.06e-01 80 chrX:2598971-2599051 1.58e-03 24_[+1(1.43e-05)]_4_[+1(2.85e-05)]_\ 36 chrIV:14371770-14371850 7.79e-01 80 chrIII:9046226-9046306 9.35e-03 10_[+2(2.83e-05)]_62 chrIV:6645927-6646007 1.03e-03 56_[+4(1.42e-05)]_16 chrX:4265720-4265800 2.90e-03 57_[+3(1.58e-05)]_15 chrII:11015982-11016062 9.65e-01 80 chrX:8569340-8569420 6.55e-02 80 chrX:5764019-5764099 8.68e-02 80 chrX:6134546-6134626 2.31e-03 12_[+1(5.80e-05)]_43_[+4(2.85e-05)]_\ 9 chrIV:17268843-17268923 1.65e-04 11_[+3(1.58e-05)]_61 chrII:4672685-4672765 1.68e-01 80 chrII:9262192-9262272 1.02e-02 1_[+3(6.11e-05)]_71 chrV:20241688-20241768 1.50e-01 80 chrIII:931565-931645 2.19e-02 36_[+5(1.65e-05)]_36 chrV:12510126-12510206 1.00e+00 80 chrII:11537195-11537275 1.03e-02 39_[+4(1.42e-05)]_33 chrX:13687233-13687313 3.15e-02 46_[+1(1.43e-05)]_26 chrX:8789269-8789349 9.95e-01 80 chrIV:10084809-10084889 1.00e+00 80 chrX:10990696-10990776 4.64e-01 80 chrIII:11361336-11361416 2.09e-01 80 chrX:6378606-6378686 7.63e-01 80 chrV:18720189-18720269 7.71e-01 80 chrM:3499-3579 4.59e-01 80 chrX:601502-601582 4.42e-01 80 chrIV:5974233-5974313 5.98e-04 15_[+4(4.26e-05)]_57 chrM:9075-9155 8.76e-01 80 chrV:13396578-13396658 1.62e-01 80 chrX:14292664-14292744 1.02e-03 67_[+1(2.85e-05)]_5 chrIV:536978-537058 2.42e-01 80 chrI:7383227-7383307 1.92e-04 6_[+1(4.36e-05)]_66 chrII:6492005-6492085 6.20e-02 80 chrV:5991681-5991761 1.35e-02 80 chrII:6828683-6828763 1.77e-01 80 chrM:2100-2180 3.19e-01 80 chrII:2220080-2220160 2.36e-01 80 chrII:11534681-11534761 8.70e-02 80 chrV:12819175-12819255 1.52e-01 15_[+5(6.47e-05)]_57 chrIII:8971791-8971871 8.06e-01 80 chrI:13495294-13495374 2.78e-04 3_[+2(4.45e-05)]_7_[+3(1.58e-05)]_5_\ [+2(7.54e-05)]_41 chrI:9268951-9269031 8.44e-02 80 chrX:5816520-5816600 5.67e-01 80 chrIV:2998757-2998837 6.34e-02 80 chrI:4032631-4032711 7.90e-03 23_[+3(1.58e-05)]_49 chrII:10202432-10202512 5.32e-02 66_[+5(9.54e-05)]_6 chrI:14181153-14181233 1.62e-07 14_[+2(6.06e-05)]_33_[+4(1.42e-05)]_\ 17 chrX:11384748-11384828 4.81e-03 1_[+1(2.85e-05)]_71 chrV:1474645-1474725 7.63e-02 80 chrI:3648226-3648306 3.42e-04 1_[+2(4.45e-05)]_6_[+3(6.11e-05)]_6_\ [+2(1.48e-05)]_2_[+2(4.45e-05)]_33 chrIII:4947490-4947570 6.15e-01 80 chrV:12465496-12465576 1.67e-03 39_[+1(8.67e-05)]_3_[+1(2.85e-05)]_\ 6_[+4(4.26e-05)]_8 chrI:9475064-9475144 2.57e-02 21_[+2(9.02e-05)]_51 chrM:4623-4703 9.88e-01 80 chrV:14501225-14501305 1.79e-01 80 chrX:15275239-15275319 9.07e-02 80 chrV:1197446-1197526 1.91e-02 30_[+2(2.83e-05)]_42 chrIII:3820290-3820370 2.70e-02 80 chrIII:10094678-10094758 4.83e-02 30_[+1(5.80e-05)]_42 chrV:13808612-13808692 2.13e-03 47_[+5(1.65e-05)]_25 chrI:11095910-11095990 9.80e-03 19_[+3(4.63e-05)]_53 chrX:12407479-12407559 5.27e-01 80 chrII:10707735-10707815 9.48e-01 80 chrIII:8653022-8653102 2.93e-01 80 chrI:1559279-1559359 2.28e-02 2_[+1(1.43e-05)]_70 chrIII:5136341-5136421 9.73e-01 80 chrX:3887658-3887738 2.73e-01 80 chrII:11632890-11632970 2.03e-02 59_[+4(1.42e-05)]_13 chrX:12890257-12890337 1.17e-02 80 chrI:10037705-10037785 5.40e-03 69_[+5(9.54e-05)]_3 chrI:4005755-4005835 1.49e-02 3_[+1(8.67e-05)]_14_[+1(1.43e-05)]_\ 2_[+1(5.80e-05)]_37 chrV:1471301-1471381 3.44e-02 18_[+4(1.42e-05)]_54 chrIV:11594408-11594488 5.13e-01 80 chrII:6734840-6734920 3.53e-02 80 chrV:11080491-11080571 6.48e-03 80 chrX:14016882-14016962 1.02e-01 38_[+4(1.42e-05)]_34 chrIII:10432259-10432339 3.41e-01 80 chrX:15189379-15189459 4.70e-03 49_[+2(4.45e-05)]_10_[+2(4.45e-05)]_\ 5 chrIV:1358314-1358394 2.12e-01 80 chrX:12367696-12367776 4.00e-02 21_[+5(6.47e-05)]_51 chrI:7711717-7711797 7.30e-03 61_[+2(9.02e-05)]_11 chrIV:14128423-14128503 4.19e-02 24_[+3(1.58e-05)]_48 chrX:2432597-2432677 3.71e-02 11_[+4(2.85e-05)]_61 chrII:1520043-1520123 4.95e-01 80 chrM:6253-6333 3.53e-01 66_[+4(7.20e-05)]_6 chrII:10169535-10169615 4.94e-03 67_[+5(1.65e-05)]_5 chrIII:3664391-3664471 9.60e-01 80 chrIV:5369031-5369111 1.81e-01 80 chrIV:10175274-10175354 2.48e-01 80 chrIV:16498144-16498224 1.05e-02 25_[+1(1.43e-05)]_[+1(2.85e-05)]_39 chrV:5271610-5271690 1.66e-01 80 chrIII:7729794-7729874 2.87e-03 15_[+1(2.85e-05)]_57 chrI:5420489-5420569 4.23e-02 80 chrI:14845788-14845868 1.59e-01 80 chrIV:3521142-3521222 4.69e-02 80 chrX:16771008-16771088 9.88e-02 80 chrIII:4010296-4010376 5.98e-02 80 chrIII:5769897-5769977 5.89e-01 80 chrIII:9084448-9084528 7.21e-02 80 chrIII:8874375-8874455 1.65e-03 62_[+5(1.65e-05)]_10 chrV:14697030-14697110 1.37e-03 [+5(1.65e-05)]_16_[+3(7.78e-05)]_48 chrI:4933167-4933247 2.89e-01 80 chrX:9737924-9738004 2.02e-01 80 chrX:15566816-15566896 9.81e-01 80 chrIV:4028265-4028345 5.64e-02 43_[+5(4.89e-05)]_29 chrX:17315054-17315134 1.39e-01 80 chrI:6136601-6136681 7.64e-01 80 chrX:13754709-13754789 4.88e-02 12_[+4(4.26e-05)]_60 chrIII:4666873-4666953 5.39e-03 48_[+1(1.43e-05)]_24 chrII:12042377-12042457 9.87e-01 80 chrII:7072712-7072792 2.20e-02 80 chrIV:7387307-7387387 3.03e-04 18_[+5(1.65e-05)]_21_[+2(9.02e-05)]_\ 25 chrV:6879716-6879796 7.17e-02 35_[+1(1.43e-05)]_37 chrI:7954948-7955028 8.41e-07 1_[+2(2.83e-05)]_31_[+3(6.11e-05)]_\ 13_[+4(1.42e-05)]_11 chrI:6532116-6532196 3.21e-01 80 chrV:11375271-11375351 1.90e-01 80 chrIV:1108219-1108299 7.17e-01 80 chrIV:14032771-14032851 3.64e-02 22_[+1(4.36e-05)]_50 chrX:14297370-14297450 2.62e-03 32_[+5(1.65e-05)]_40 chrII:10384818-10384898 3.84e-03 44_[+1(2.85e-05)]_[+1(1.43e-05)]_20 chrI:6175215-6175295 2.53e-01 80 chrX:15630948-15631028 2.66e-02 7_[+2(6.06e-05)]_65 chrII:9307099-9307179 5.81e-01 80 chrIV:9269002-9269082 8.87e-05 80 chrI:3740500-3740580 6.56e-04 31_[+2(4.45e-05)]_26_[+3(7.78e-05)]_\ 7 chrM:12399-12479 1.14e-02 32_[+3(6.11e-05)]_40 chrI:2299681-2299761 2.96e-03 80 chrII:6741592-6741672 6.97e-02 80 chrI:11609208-11609288 6.37e-01 80 chrV:6099089-6099169 1.18e-01 3_[+5(3.22e-05)]_69 chrV:8001043-8001123 5.68e-03 80 chrV:15554093-15554173 7.97e-01 80 chrI:8305449-8305529 7.74e-01 80 chrV:14506028-14506108 1.55e-01 80 chrII:7708718-7708798 9.16e-01 80 chrV:11239331-11239411 8.17e-01 80 chrX:9296786-9296866 2.99e-01 80 chrX:8723933-8724013 6.50e-01 80 chrX:9622812-9622892 4.77e-01 80 chrI:1651445-1651525 8.20e-05 45_[+5(1.65e-05)]_1_[+3(7.78e-05)]_\ 18 chrI:9373123-9373203 4.86e-01 80 chrIV:7235518-7235598 9.71e-02 80 chrV:12027016-12027096 1.09e-03 47_[+2(1.48e-05)]_11_[+3(6.11e-05)]_\ 6 chrM:4828-4908 9.96e-01 80 chrV:7728234-7728314 3.14e-03 54_[+3(1.58e-05)]_18 chrI:4490591-4490671 3.19e-02 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n12.farnam.hpc.yale.internal ********************************************************************************