******************************************************************************** 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/dao-5.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrM:5233-5313 1.0000 80 chrM:1810-1890 1.0000 80 chrM:4988-5068 1.0000 80 chrIII:6888625-6888705 1.0000 80 chrI:4790666-4790746 1.0000 80 chrIV:8261486-8261566 1.0000 80 chrII:13780854-13780934 1.0000 80 chrX:13714909-13714989 1.0000 80 chrX:9024427-9024507 1.0000 80 chrM:10117-10197 1.0000 80 chrII:8441635-8441715 1.0000 80 chrX:4247142-4247222 1.0000 80 chrM:10798-10878 1.0000 80 chrM:8468-8548 1.0000 80 chrX:8838352-8838432 1.0000 80 chrIII:881586-881666 1.0000 80 chrV:8415286-8415366 1.0000 80 chrM:3208-3288 1.0000 80 chrIII:11830730-11830810 1.0000 80 chrII:9056257-9056337 1.0000 80 chrIV:292908-292988 1.0000 80 chrM:2979-3059 1.0000 80 chrX:15619449-15619529 1.0000 80 chrII:14617060-14617140 1.0000 80 chrIII:698971-699051 1.0000 80 chrM:8213-8293 1.0000 80 chrIV:7083448-7083528 1.0000 80 chrIV:5038935-5039015 1.0000 80 chrI:2069400-2069480 1.0000 80 chrII:8603780-8603860 1.0000 80 chrI:7139884-7139964 1.0000 80 chrV:14354591-14354671 1.0000 80 chrX:6522923-6523003 1.0000 80 chrI:14625846-14625926 1.0000 80 chrIII:7495597-7495677 1.0000 80 chrIII:9510019-9510099 1.0000 80 chrII:1152678-1152758 1.0000 80 chrV:13415718-13415798 1.0000 80 chrIII:4449565-4449645 1.0000 80 chrII:12541729-12541809 1.0000 80 chrIII:13606127-13606207 1.0000 80 chrX:4145748-4145828 1.0000 80 chrI:6847133-6847213 1.0000 80 chrX:15200899-15200979 1.0000 80 chrM:7199-7279 1.0000 80 chrIII:3249194-3249274 1.0000 80 chrX:3116327-3116407 1.0000 80 chrIII:13344842-13344922 1.0000 80 chrM:6054-6134 1.0000 80 chrII:11917694-11917774 1.0000 80 chrII:6783065-6783145 1.0000 80 chrII:5931307-5931387 1.0000 80 chrI:8530186-8530266 1.0000 80 chrX:9622805-9622885 1.0000 80 chrV:9326994-9327074 1.0000 80 chrI:852128-852208 1.0000 80 chrM:9060-9140 1.0000 80 chrX:16298340-16298420 1.0000 80 chrIV:14822364-14822444 1.0000 80 chrI:7656761-7656841 1.0000 80 chrI:6163497-6163577 1.0000 80 chrX:11790851-11790931 1.0000 80 chrIV:6481138-6481218 1.0000 80 chrX:8155679-8155759 1.0000 80 chrIII:9704050-9704130 1.0000 80 chrIII:11185651-11185731 1.0000 80 chrIV:3636744-3636824 1.0000 80 chrIII:8981293-8981373 1.0000 80 chrX:6867865-6867945 1.0000 80 chrIV:2664926-2665006 1.0000 80 chrII:2860440-2860520 1.0000 80 chrX:17611311-17611391 1.0000 80 chrX:4445017-4445097 1.0000 80 chrV:11821360-11821440 1.0000 80 chrX:16930881-16930961 1.0000 80 chrI:1050878-1050958 1.0000 80 chrI:11579728-11579808 1.0000 80 chrIII:10746509-10746589 1.0000 80 chrX:12348053-12348133 1.0000 80 chrX:14478866-14478946 1.0000 80 chrII:14351079-14351159 1.0000 80 chrV:2664728-2664808 1.0000 80 chrV:9318213-9318293 1.0000 80 chrIII:6970138-6970218 1.0000 80 chrM:4633-4713 1.0000 80 chrM:6259-6339 1.0000 80 chrIII:5942572-5942652 1.0000 80 chrIII:13224494-13224574 1.0000 80 chrX:7725839-7725919 1.0000 80 chrV:15000400-15000480 1.0000 80 chrX:16619314-16619394 1.0000 80 chrII:3062275-3062355 1.0000 80 chrV:6551941-6552021 1.0000 80 chrI:3638908-3638988 1.0000 80 chrIII:10506237-10506317 1.0000 80 chrII:14635258-14635338 1.0000 80 chrI:108576-108656 1.0000 80 chrV:11076550-11076630 1.0000 80 chrX:7773821-7773901 1.0000 80 chrV:3634970-3635050 1.0000 80 chrM:2325-2405 1.0000 80 chrX:11465388-11465468 1.0000 80 chrX:3793607-3793687 1.0000 80 chrIV:842804-842884 1.0000 80 chrII:10707813-10707893 1.0000 80 chrX:7323670-7323750 1.0000 80 chrIII:13016122-13016202 1.0000 80 chrX:2531463-2531543 1.0000 80 chrII:5353808-5353888 1.0000 80 chrIV:11527785-11527865 1.0000 80 chrX:11872282-11872362 1.0000 80 chrIV:8263200-8263280 1.0000 80 chrM:1187-1267 1.0000 80 chrM:12387-12467 1.0000 80 chrIII:3869419-3869499 1.0000 80 chrII:3439343-3439423 1.0000 80 chrII:14155611-14155691 1.0000 80 chrI:6164247-6164327 1.0000 80 chrI:15041561-15041641 1.0000 80 chrV:6335346-6335426 1.0000 80 chrI:9327598-9327678 1.0000 80 chrIII:1616930-1617010 1.0000 80 chrX:5101150-5101230 1.0000 80 chrIV:7487659-7487739 1.0000 80 chrIII:10214614-10214694 1.0000 80 chrI:1698015-1698095 1.0000 80 chrIV:16400864-16400944 1.0000 80 chrV:6655519-6655599 1.0000 80 chrIII:13464711-13464791 1.0000 80 chrV:8936220-8936300 1.0000 80 chrX:8018594-8018674 1.0000 80 chrI:13953292-13953372 1.0000 80 chrI:9624765-9624845 1.0000 80 chrX:10145181-10145261 1.0000 80 chrX:14162154-14162234 1.0000 80 chrIV:1711197-1711277 1.0000 80 chrIV:16400084-16400164 1.0000 80 chrIV:322627-322707 1.0000 80 chrV:1474717-1474797 1.0000 80 chrI:7059309-7059389 1.0000 80 chrIII:535375-535455 1.0000 80 chrIII:4195518-4195598 1.0000 80 chrIII:13626263-13626343 1.0000 80 chrII:2861595-2861675 1.0000 80 chrV:6559728-6559808 1.0000 80 chrIV:15933285-15933365 1.0000 80 chrX:5354628-5354708 1.0000 80 chrII:8016801-8016881 1.0000 80 chrX:9238831-9238911 1.0000 80 chrI:2878461-2878541 1.0000 80 chrI:5104886-5104966 1.0000 80 chrIV:16775175-16775255 1.0000 80 chrIII:12614960-12615040 1.0000 80 chrIII:4369646-4369726 1.0000 80 chrI:9051308-9051388 1.0000 80 chrIV:8377664-8377744 1.0000 80 chrX:15606938-15607018 1.0000 80 chrI:7493107-7493187 1.0000 80 chrIII:8425333-8425413 1.0000 80 chrX:9078228-9078308 1.0000 80 chrII:6348539-6348619 1.0000 80 chrII:7757149-7757229 1.0000 80 chrII:7001573-7001653 1.0000 80 chrIII:5211375-5211455 1.0000 80 chrX:9822768-9822848 1.0000 80 chrIII:7278722-7278802 1.0000 80 chrX:8623920-8624000 1.0000 80 chrX:2527968-2528048 1.0000 80 chrIV:14611385-14611465 1.0000 80 chrI:7872268-7872348 1.0000 80 chrIV:15693442-15693522 1.0000 80 chrI:3740554-3740634 1.0000 80 chrIII:9717253-9717333 1.0000 80 chrX:13038867-13038947 1.0000 80 chrII:8547117-8547197 1.0000 80 chrX:12458148-12458228 1.0000 80 chrIII:10634191-10634271 1.0000 80 chrIV:4470213-4470293 1.0000 80 chrI:7518514-7518594 1.0000 80 chrIV:11692438-11692518 1.0000 80 chrX:12872449-12872529 1.0000 80 chrIV:11147297-11147377 1.0000 80 chrIV:16389243-16389323 1.0000 80 chrIV:12417890-12417970 1.0000 80 chrIV:16776116-16776196 1.0000 80 chrX:8608872-8608952 1.0000 80 chrX:4222952-4223032 1.0000 80 chrX:11473340-11473420 1.0000 80 chrV:20694112-20694192 1.0000 80 chrX:5319330-5319410 1.0000 80 chrII:5336209-5336289 1.0000 80 chrX:12889926-12890006 1.0000 80 chrIV:2805666-2805746 1.0000 80 chrX:13653734-13653814 1.0000 80 chrII:6926526-6926606 1.0000 80 chrX:15354011-15354091 1.0000 80 chrX:15297518-15297598 1.0000 80 chrIII:931519-931599 1.0000 80 chrX:14790592-14790672 1.0000 80 chrX:9373194-9373274 1.0000 80 chrV:6889004-6889084 1.0000 80 chrII:5293390-5293470 1.0000 80 chrX:5022817-5022897 1.0000 80 chrX:16378166-16378246 1.0000 80 chrII:11620121-11620201 1.0000 80 chrX:10821319-10821399 1.0000 80 chrIV:9477727-9477807 1.0000 80 chrV:13649996-13650076 1.0000 80 chrIV:7845660-7845740 1.0000 80 chrII:10395576-10395656 1.0000 80 chrII:11157791-11157871 1.0000 80 chrII:5577181-5577261 1.0000 80 chrIV:12032540-12032620 1.0000 80 chrV:11532231-11532311 1.0000 80 chrX:7794588-7794668 1.0000 80 chrIII:6606265-6606345 1.0000 80 chrII:9566207-9566287 1.0000 80 chrI:3852-3932 1.0000 80 chrX:13264712-13264792 1.0000 80 chrX:17151328-17151408 1.0000 80 chrII:10542111-10542191 1.0000 80 chrX:6255642-6255722 1.0000 80 chrI:4769526-4769606 1.0000 80 chrII:8128764-8128844 1.0000 80 chrIV:14225055-14225135 1.0000 80 chrV:14028438-14028518 1.0000 80 chrI:7084508-7084588 1.0000 80 chrIII:2172172-2172252 1.0000 80 chrX:13511991-13512071 1.0000 80 chrIV:16503752-16503832 1.0000 80 chrII:9282961-9283041 1.0000 80 chrIV:9191348-9191428 1.0000 80 chrX:14476851-14476931 1.0000 80 chrIII:12598522-12598602 1.0000 80 chrII:5182495-5182575 1.0000 80 chrV:15505207-15505287 1.0000 80 chrIV:16399227-16399307 1.0000 80 chrI:9854069-9854149 1.0000 80 chrX:1837802-1837882 1.0000 80 chrIII:8865555-8865635 1.0000 80 chrIII:5305853-5305933 1.0000 80 chrX:10963787-10963867 1.0000 80 chrX:10637556-10637636 1.0000 80 chrX:2553540-2553620 1.0000 80 chrIV:4748632-4748712 1.0000 80 chrX:11757900-11757980 1.0000 80 chrII:9061977-9062057 1.0000 80 chrIV:14838326-14838406 1.0000 80 chrII:3567720-3567800 1.0000 80 chrI:10593073-10593153 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_dao-5/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/dao-5.fasta model: mod= zoops nmotifs= 5 evt= inf objective function: em= E-value of product of p-values starts= E-value of product of p-values strands: + width: minw= 8 maxw= 8 nsites: minsites= 2 maxsites= 250 wnsites= 0.8 theta: spmap= uni spfuzz= 0.5 em: prior= dirichlet b= 0.01 maxiter= 50 distance= 1e-05 trim: wg= 11 ws= 1 endgaps= yes data: n= 20000 N= 250 sample: seed= 0 hsfrac= 0 searchsize= 20000 norand= no csites= 1000 Letter frequencies in dataset: A 0.269 C 0.234 G 0.232 T 0.265 Background letter frequencies (from file dataset with add-one prior applied): A 0.269 C 0.234 G 0.232 T 0.265 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GGGTTCGA MEME-1 width = 8 sites = 27 llr = 250 E-value = 1.2e-007 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGGTTCGA MEME-1 Description -------------------------------------------------------------------------------- Simplified A 1:::::1a pos.-specific C 1::2:a:: probability G 6aa:::9: matrix T 1::8a::: bits 2.1 ** * 1.9 ** ** * 1.7 ** ** * 1.5 ** **** Relative 1.3 ******* Entropy 1.1 ******* (13.4 bits) 0.8 ******* 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GGGTTCGA consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGTTCGA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:14838326-14838406 5 1.28e-05 GGAC GGGTTCGA ACCCAGGACA chrX:7794588-7794668 64 1.28e-05 CATTCGACGG GGGTTCGA TTCCCCCCG chrII:5577181-5577261 30 1.28e-05 GGTCCTAGCC GGGTTCGA ACCGGCGATC chrIV:16776116-16776196 21 1.28e-05 CATTCGACGG GGGTTCGA TTCCCCCCGA chrIV:16775175-16775255 56 1.28e-05 CATTCGACGG GGGTTCGA TTCCCCCCGA chrIV:842804-842884 54 1.28e-05 CACGCGGCCC GGGTTCGA TTCCCGGCAT chrI:852128-852208 46 1.28e-05 AGGGAGTCGC GGGTTCGA ACCAGTGAGG chrIII:3249194-3249274 73 1.28e-05 CAACACACCG GGGTTCGA chrIV:5038935-5039015 35 1.28e-05 TTAAGGTCAG GGGTTCGA GTCCCCTAGG chrX:13714909-13714989 29 1.28e-05 TGGTTGTCGC GGGTTCGA GCCCCGCATT chrII:3567720-3567800 55 2.41e-05 GCCCAATGCG GGGCTCGA ACCCGCGACA chrII:11157791-11157871 22 2.41e-05 GCCCAATGCG GGGCTCGA ACCCGCGACA chrII:3439343-3439423 62 2.41e-05 GCCCAATGCG GGGCTCGA ACCCGCGACA chrX:14478866-14478946 22 2.41e-05 GCCCAATGCG GGGCTCGA ACCCGCGACA chrX:15297518-15297598 4 5.36e-05 CGC AGGTTCGA CCCCTGCTGG chrX:12889926-12890006 73 5.36e-05 TTGCCCGCGT AGGTTCGA chrIII:535375-535455 68 5.36e-05 CTTAGGTCAC TGGTTCGA ATCCG chrX:10145181-10145261 25 5.36e-05 AGAAGATTGT AGGTTCGA ATCCTGCCGT chrX:4445017-4445097 46 5.36e-05 AGAAGGTCGC TGGTTCGA TTCCAGCATG chrX:17611311-17611391 28 5.36e-05 AGAAGGTCGG TGGTTCGA GCCCGCCCGA chrIV:16399227-16399307 6 6.84e-05 GGCTG GGGTTCAA TTCCCCATAC chrIV:2805666-2805746 10 6.84e-05 gcgagaccc gggttcaa ttcccggccg chrV:9318213-9318293 38 6.84e-05 GAGAAGTCTG GGGTTCAA TTCCCCATAC chrIV:6481138-6481218 73 8.14e-05 AGAAGGTCGC CGGTTCGA chrX:16298340-16298420 51 8.14e-05 AGAAGGTCGG CGGTTCGA TCCCGCCCGA chrIV:15693442-15693522 64 1.07e-04 GTTTTGAGTC AGGCTCGA CTCCCCCCA chrX:15619449-15619529 35 1.66e-04 GAGAGGTCGC TGGTTCAA TATCGCTCTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGTTCGA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:14838326-14838406 1.3e-05 4_[+1]_68 chrX:7794588-7794668 1.3e-05 63_[+1]_9 chrII:5577181-5577261 1.3e-05 29_[+1]_43 chrIV:16776116-16776196 1.3e-05 20_[+1]_52 chrIV:16775175-16775255 1.3e-05 55_[+1]_17 chrIV:842804-842884 1.3e-05 53_[+1]_19 chrI:852128-852208 1.3e-05 45_[+1]_27 chrIII:3249194-3249274 1.3e-05 72_[+1] chrIV:5038935-5039015 1.3e-05 34_[+1]_38 chrX:13714909-13714989 1.3e-05 28_[+1]_44 chrII:3567720-3567800 2.4e-05 54_[+1]_18 chrII:11157791-11157871 2.4e-05 21_[+1]_51 chrII:3439343-3439423 2.4e-05 61_[+1]_11 chrX:14478866-14478946 2.4e-05 21_[+1]_51 chrX:15297518-15297598 5.4e-05 3_[+1]_69 chrX:12889926-12890006 5.4e-05 72_[+1] chrIII:535375-535455 5.4e-05 67_[+1]_5 chrX:10145181-10145261 5.4e-05 24_[+1]_48 chrX:4445017-4445097 5.4e-05 45_[+1]_27 chrX:17611311-17611391 5.4e-05 27_[+1]_45 chrIV:16399227-16399307 6.8e-05 5_[+1]_67 chrIV:2805666-2805746 6.8e-05 9_[+1]_63 chrV:9318213-9318293 6.8e-05 37_[+1]_35 chrIV:6481138-6481218 8.1e-05 72_[+1] chrX:16298340-16298420 8.1e-05 50_[+1]_22 chrIV:15693442-15693522 0.00011 63_[+1]_9 chrX:15619449-15619529 0.00017 34_[+1]_38 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGTTCGA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGGTTCGA width=8 seqs=27 chrIV:14838326-14838406 ( 5) GGGTTCGA 1 chrX:7794588-7794668 ( 64) GGGTTCGA 1 chrII:5577181-5577261 ( 30) GGGTTCGA 1 chrIV:16776116-16776196 ( 21) GGGTTCGA 1 chrIV:16775175-16775255 ( 56) GGGTTCGA 1 chrIV:842804-842884 ( 54) GGGTTCGA 1 chrI:852128-852208 ( 46) GGGTTCGA 1 chrIII:3249194-3249274 ( 73) GGGTTCGA 1 chrIV:5038935-5039015 ( 35) GGGTTCGA 1 chrX:13714909-13714989 ( 29) GGGTTCGA 1 chrII:3567720-3567800 ( 55) GGGCTCGA 1 chrII:11157791-11157871 ( 22) GGGCTCGA 1 chrII:3439343-3439423 ( 62) GGGCTCGA 1 chrX:14478866-14478946 ( 22) GGGCTCGA 1 chrX:15297518-15297598 ( 4) AGGTTCGA 1 chrX:12889926-12890006 ( 73) AGGTTCGA 1 chrIII:535375-535455 ( 68) TGGTTCGA 1 chrX:10145181-10145261 ( 25) AGGTTCGA 1 chrX:4445017-4445097 ( 46) TGGTTCGA 1 chrX:17611311-17611391 ( 28) TGGTTCGA 1 chrIV:16399227-16399307 ( 6) GGGTTCAA 1 chrIV:2805666-2805746 ( 10) GGGTTCAA 1 chrV:9318213-9318293 ( 38) GGGTTCAA 1 chrIV:6481138-6481218 ( 73) CGGTTCGA 1 chrX:16298340-16298420 ( 51) CGGTTCGA 1 chrIV:15693442-15693522 ( 64) AGGCTCGA 1 chrX:15619449-15619529 ( 35) TGGTTCAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGTTCGA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.594 E= 1.2e-007 -86 -166 144 -84 -1140 -1140 210 -1140 -1140 -1140 210 -1140 -1140 -34 -1140 162 -1140 -1140 -1140 192 -1140 210 -1140 -1140 -86 -1140 187 -1140 189 -1140 -1140 -1140 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGTTCGA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 27 E= 1.2e-007 0.148148 0.074074 0.629630 0.148148 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.185185 0.000000 0.814815 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.148148 0.000000 0.851852 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGTTCGA MEME-1 regular expression -------------------------------------------------------------------------------- GGGTTCGA -------------------------------------------------------------------------------- Time 6.96 secs. ******************************************************************************** ******************************************************************************** MOTIF ACTGAGCT MEME-2 width = 8 sites = 14 llr = 143 E-value = 2.2e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif ACTGAGCT MEME-2 Description -------------------------------------------------------------------------------- Simplified A 9:::8::: pos.-specific C :a::1:a: probability G :::a1a:: matrix T 1:a::::a bits 2.1 * * ** 1.9 *** *** 1.7 *** *** 1.5 **** *** Relative 1.3 **** *** Entropy 1.1 ******** (14.8 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel ACTGAGCT consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACTGAGCT MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:13264712-13264792 39 1.50e-05 CGCTCTACCA ACTGAGCT ATCGACGGCA chrII:11157791-11157871 68 1.50e-05 TGCTCTACCG ACTGAGCT AACCG chrV:20694112-20694192 65 1.50e-05 ATGCTCTGCC ACTGAGCT ATACCCCC chrIV:16389243-16389323 24 1.50e-05 GCGCTCTACC ACTGAGCT ATACCCCCGC chrIII:13016122-13016202 41 1.50e-05 ACGCTCTGCC ACTGAGCT ATACGGGCAT chrX:14478866-14478946 68 1.50e-05 TGCTCTACCG ACTGAGCT AACCG chrI:11579728-11579808 35 1.50e-05 TGCTCTACCG ACTGAGCT AACCGGGCGG chrI:6163497-6163577 32 1.50e-05 GCTCTAACCG ACTGAGCT ATGGCGGCCA chrII:12541729-12541809 16 1.50e-05 CGCTCTACCA ACTGAGCT AAGGAGGCCA chrX:9024427-9024507 42 1.50e-05 ACGCTCTACC ACTGAGCT ATAAGGGCGA chrV:6889004-6889084 58 2.80e-05 CGATTGTTCG ACTGCGCT TGCTGGCCTC chrI:3638908-3638988 1 2.80e-05 . ACTGCGCT ACGGAAGCGG chrX:7773821-7773901 8 4.09e-05 TCCATTA ACTGGGCT CATAAAAAAA chrX:5101150-5101230 31 5.57e-05 ATCCGCTTCC TCTGAGCT TTCCCAATCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACTGAGCT MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:13264712-13264792 1.5e-05 38_[+2]_34 chrII:11157791-11157871 1.5e-05 67_[+2]_5 chrV:20694112-20694192 1.5e-05 64_[+2]_8 chrIV:16389243-16389323 1.5e-05 23_[+2]_49 chrIII:13016122-13016202 1.5e-05 40_[+2]_32 chrX:14478866-14478946 1.5e-05 67_[+2]_5 chrI:11579728-11579808 1.5e-05 34_[+2]_38 chrI:6163497-6163577 1.5e-05 31_[+2]_41 chrII:12541729-12541809 1.5e-05 15_[+2]_57 chrX:9024427-9024507 1.5e-05 41_[+2]_31 chrV:6889004-6889084 2.8e-05 57_[+2]_15 chrI:3638908-3638988 2.8e-05 [+2]_72 chrX:7773821-7773901 4.1e-05 7_[+2]_65 chrX:5101150-5101230 5.6e-05 30_[+2]_42 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACTGAGCT MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF ACTGAGCT width=8 seqs=14 chrX:13264712-13264792 ( 39) ACTGAGCT 1 chrII:11157791-11157871 ( 68) ACTGAGCT 1 chrV:20694112-20694192 ( 65) ACTGAGCT 1 chrIV:16389243-16389323 ( 24) ACTGAGCT 1 chrIII:13016122-13016202 ( 41) ACTGAGCT 1 chrX:14478866-14478946 ( 68) ACTGAGCT 1 chrI:11579728-11579808 ( 35) ACTGAGCT 1 chrI:6163497-6163577 ( 32) ACTGAGCT 1 chrII:12541729-12541809 ( 16) ACTGAGCT 1 chrX:9024427-9024507 ( 42) ACTGAGCT 1 chrV:6889004-6889084 ( 58) ACTGCGCT 1 chrI:3638908-3638988 ( 1) ACTGCGCT 1 chrX:7773821-7773901 ( 8) ACTGGGCT 1 chrX:5101150-5101230 ( 31) TCTGAGCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACTGAGCT MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.1909 E= 2.2e-001 179 -1045 -1045 -189 -1045 210 -1045 -1045 -1045 -1045 -1045 192 -1045 -1045 210 -1045 155 -71 -170 -1045 -1045 -1045 210 -1045 -1045 210 -1045 -1045 -1045 -1045 -1045 192 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACTGAGCT MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 14 E= 2.2e-001 0.928571 0.000000 0.000000 0.071429 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.785714 0.142857 0.071429 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACTGAGCT MEME-2 regular expression -------------------------------------------------------------------------------- ACTGAGCT -------------------------------------------------------------------------------- Time 10.69 secs. ******************************************************************************** ******************************************************************************** MOTIF GGKAGAGC MEME-3 width = 8 sites = 18 llr = 171 E-value = 8.7e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGKAGAGC MEME-3 Description -------------------------------------------------------------------------------- Simplified A ::1a:7:: pos.-specific C ::2::3:a probability G aa3:a:a: matrix T ::4::::: bits 2.1 ** * ** 1.9 ** ** ** 1.7 ** ** ** 1.5 ** ** ** Relative 1.3 ** ** ** Entropy 1.1 ** ***** (13.7 bits) 0.8 ** ***** 0.6 ** ***** 0.4 ** ***** 0.2 ******** 0.0 -------- Multilevel GGTAGAGC consensus G C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGKAGAGC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIII:5305853-5305933 68 1.30e-05 ATAGCTCAGT GGTAGAGC GTTGG chrX:13653734-13653814 10 1.30e-05 TAGCTCAGT GGTAGAGC GTTGGTCTTG chrII:7001573-7001653 70 1.30e-05 GTAGCTCAGG GGTAGAGC GCT chrX:9238831-9238911 49 1.30e-05 ATAGCTCAGT GGTAGAGC GCTCCCTTAG chrIII:535375-535455 24 1.30e-05 TAGCTCAGTT GGTAGAGC GGAGGACTGT chrV:9318213-9318293 5 1.30e-05 CAGG GGTAGAGC GCTCGCTTCG chrIV:5038935-5039015 2 1.30e-05 T GGTAGAGC GTGAGACTTT chrV:11821360-11821440 17 2.44e-05 AACACCTTCT GGGAGAGC TGGCGCTGGA chrII:14617060-14617140 37 3.57e-05 TGGCGCAGGC GGTAGCGC ATTTCGCTGT chrV:6559728-6559808 45 4.72e-05 ATAGCTCAGT GGCAGAGC ATTCGACTGC chrV:6335346-6335426 68 4.72e-05 ATAGCTCAGT GGCAGAGC ATTCG chrX:4445017-4445097 13 4.72e-05 TTGGCTCAGT GGCAGAGC GTCTGTCTAG chrX:1837802-1837882 60 5.71e-05 GGTCTTGTGA GGGAGCGC CAGGCGCGCT chrIV:16389243-16389323 10 5.71e-05 CCATGCTAA GGGAGCGC TCTACCACTG chrX:12458148-12458228 70 5.71e-05 CCCATGCTAA GGGAGCGC TCT chrX:9622805-9622885 61 5.71e-05 CCCATGCTAA GGGAGCGC TCTACCACTG chrI:9624765-9624845 65 7.03e-05 ATTTGATTTC GGAAGAGC AAGTAGAT chrIII:10506237-10506317 5 7.03e-05 GATT GGAAGAGC ACGAACGGTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGKAGAGC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIII:5305853-5305933 1.3e-05 67_[+3]_5 chrX:13653734-13653814 1.3e-05 9_[+3]_63 chrII:7001573-7001653 1.3e-05 69_[+3]_3 chrX:9238831-9238911 1.3e-05 48_[+3]_24 chrIII:535375-535455 1.3e-05 23_[+3]_49 chrV:9318213-9318293 1.3e-05 4_[+3]_68 chrIV:5038935-5039015 1.3e-05 1_[+3]_71 chrV:11821360-11821440 2.4e-05 16_[+3]_56 chrII:14617060-14617140 3.6e-05 36_[+3]_36 chrV:6559728-6559808 4.7e-05 44_[+3]_28 chrV:6335346-6335426 4.7e-05 67_[+3]_5 chrX:4445017-4445097 4.7e-05 12_[+3]_60 chrX:1837802-1837882 5.7e-05 59_[+3]_13 chrIV:16389243-16389323 5.7e-05 9_[+3]_63 chrX:12458148-12458228 5.7e-05 69_[+3]_3 chrX:9622805-9622885 5.7e-05 60_[+3]_12 chrI:9624765-9624845 7e-05 64_[+3]_8 chrIII:10506237-10506317 7e-05 4_[+3]_68 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGKAGAGC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGKAGAGC width=8 seqs=18 chrIII:5305853-5305933 ( 68) GGTAGAGC 1 chrX:13653734-13653814 ( 10) GGTAGAGC 1 chrII:7001573-7001653 ( 70) GGTAGAGC 1 chrX:9238831-9238911 ( 49) GGTAGAGC 1 chrIII:535375-535455 ( 24) GGTAGAGC 1 chrV:9318213-9318293 ( 5) GGTAGAGC 1 chrIV:5038935-5039015 ( 2) GGTAGAGC 1 chrV:11821360-11821440 ( 17) GGGAGAGC 1 chrII:14617060-14617140 ( 37) GGTAGCGC 1 chrV:6559728-6559808 ( 45) GGCAGAGC 1 chrV:6335346-6335426 ( 68) GGCAGAGC 1 chrX:4445017-4445097 ( 13) GGCAGAGC 1 chrX:1837802-1837882 ( 60) GGGAGCGC 1 chrIV:16389243-16389323 ( 10) GGGAGCGC 1 chrX:12458148-12458228 ( 70) GGGAGCGC 1 chrX:9622805-9622885 ( 61) GGGAGCGC 1 chrI:9624765-9624845 ( 65) GGAAGAGC 1 chrIII:10506237-10506317 ( 5) GGAAGAGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGKAGAGC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.3895 E= 8.7e-001 -1081 -1081 210 -1081 -1081 -1081 210 -1081 -127 -49 26 75 189 -1081 -1081 -1081 -1081 -1081 210 -1081 142 25 -1081 -1081 -1081 -1081 210 -1081 -1081 210 -1081 -1081 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGKAGAGC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 18 E= 8.7e-001 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.111111 0.166667 0.277778 0.444444 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.722222 0.277778 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGKAGAGC MEME-3 regular expression -------------------------------------------------------------------------------- GG[TG]AG[AC]GC -------------------------------------------------------------------------------- Time 14.35 secs. ******************************************************************************** ******************************************************************************** MOTIF GTGGTGTA MEME-4 width = 8 sites = 14 llr = 139 E-value = 3.1e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif GTGGTGTA MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::::::9 pos.-specific C :::::21: probability G a:aa:8:: matrix T :a::a:91 bits 2.1 * ** 1.9 ***** 1.7 ***** 1.5 ***** * Relative 1.3 ******** Entropy 1.1 ******** (14.4 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GTGGTGTA consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGGTGTA MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:10963787-10963867 47 1.45e-05 CAGCGCGTTC GTGGTGTA ATGGTCAGCA chrX:7794588-7794668 21 1.45e-05 AACAGCGTTC GTGGTGTA ATGGTCAGCA chrII:8547117-8547197 36 1.45e-05 TGCTGCTTTT GTGGTGTA TTGGTTAACA chrIV:16775175-16775255 13 1.45e-05 CACCGCGTTC GTGGTGTA ATGGTCAGCA chrIV:16400084-16400164 52 1.45e-05 CAGCGGTCTC GTGGTGTA GTGGTTATCA chrI:9327598-9327678 45 1.45e-05 CGCCGCGTTC GTGGTGTA ATGGTCAGCA chrIV:6481138-6481218 29 1.45e-05 TCGCGGTCCT GTGGTGTA GTGGTTATCA chrX:16298340-16298420 7 1.45e-05 GGTCTC GTGGTGTA GTGGTTATCA chrII:5293390-5293470 68 2.91e-05 CGTCTCCGTT GTGGTCTA GTGGT chrIV:4470213-4470293 54 2.91e-05 AATTTCCGAT GTGGTCTA TGATTTGATG chrIV:842804-842884 11 2.91e-05 CGGATCCCAT GTGGTCTA GTGGTTAGGA chrIII:10506237-10506317 20 4.34e-05 AGCACGAACG GTGGTGTT GGAGCCGGTC chrM:6054-6134 30 4.34e-05 TTATTAAGGA GTGGTGTT ACAGTAACTT chrIII:5211375-5211455 66 5.62e-05 AAGCGACCGC GTGGTGCA GTGGCCG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGGTGTA MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:10963787-10963867 1.5e-05 46_[+4]_26 chrX:7794588-7794668 1.5e-05 20_[+4]_52 chrII:8547117-8547197 1.5e-05 35_[+4]_37 chrIV:16775175-16775255 1.5e-05 12_[+4]_60 chrIV:16400084-16400164 1.5e-05 51_[+4]_21 chrI:9327598-9327678 1.5e-05 44_[+4]_28 chrIV:6481138-6481218 1.5e-05 28_[+4]_44 chrX:16298340-16298420 1.5e-05 6_[+4]_66 chrII:5293390-5293470 2.9e-05 67_[+4]_5 chrIV:4470213-4470293 2.9e-05 53_[+4]_19 chrIV:842804-842884 2.9e-05 10_[+4]_62 chrIII:10506237-10506317 4.3e-05 19_[+4]_53 chrM:6054-6134 4.3e-05 29_[+4]_43 chrIII:5211375-5211455 5.6e-05 65_[+4]_7 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGGTGTA MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GTGGTGTA width=8 seqs=14 chrX:10963787-10963867 ( 47) GTGGTGTA 1 chrX:7794588-7794668 ( 21) GTGGTGTA 1 chrII:8547117-8547197 ( 36) GTGGTGTA 1 chrIV:16775175-16775255 ( 13) GTGGTGTA 1 chrIV:16400084-16400164 ( 52) GTGGTGTA 1 chrI:9327598-9327678 ( 45) GTGGTGTA 1 chrIV:6481138-6481218 ( 29) GTGGTGTA 1 chrX:16298340-16298420 ( 7) GTGGTGTA 1 chrII:5293390-5293470 ( 68) GTGGTCTA 1 chrIV:4470213-4470293 ( 54) GTGGTCTA 1 chrIV:842804-842884 ( 11) GTGGTCTA 1 chrIII:10506237-10506317 ( 20) GTGGTGTT 1 chrM:6054-6134 ( 30) GTGGTGTT 1 chrIII:5211375-5211455 ( 66) GTGGTGCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGGTGTA MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.9532 E= 3.1e+000 -1045 -1045 210 -1045 -1045 -1045 -1045 192 -1045 -1045 210 -1045 -1045 -1045 210 -1045 -1045 -1045 -1045 192 -1045 -13 176 -1045 -1045 -171 -1045 181 167 -1045 -1045 -89 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGGTGTA MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 14 E= 3.1e+000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.214286 0.785714 0.000000 0.000000 0.071429 0.000000 0.928571 0.857143 0.000000 0.000000 0.142857 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGGTGTA MEME-4 regular expression -------------------------------------------------------------------------------- GTGGT[GC]TA -------------------------------------------------------------------------------- Time 17.99 secs. ******************************************************************************** ******************************************************************************** MOTIF TRGCKCAG MEME-5 width = 8 sites = 18 llr = 164 E-value = 4.0e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif TRGCKCAG MEME-5 Description -------------------------------------------------------------------------------- Simplified A :4::::a: pos.-specific C :1:7:a:: probability G :5a:3::a matrix T a::37::: bits 2.1 * * * 1.9 * * *** 1.7 * * *** 1.5 * * *** Relative 1.3 * ** *** Entropy 1.1 * ****** (13.1 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TGGCTCAG consensus A TG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TRGCKCAG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:4445017-4445097 4 1.29e-05 CAT TGGCTCAG TGGCAGAGCG chrIII:5305853-5305933 59 2.79e-05 GGCGCCCTTA TAGCTCAG TGGTAGAGCG chrX:13653734-13653814 1 2.79e-05 . TAGCTCAG TGGTAGAGCG chrII:7001573-7001653 61 2.79e-05 GTTACCTGTG TAGCTCAG GGGTAGAGCG chrX:9238831-9238911 40 2.79e-05 AGCGGGGGTA TAGCTCAG TGGTAGAGCG chrV:6559728-6559808 36 2.79e-05 CATGGGGGTA TAGCTCAG TGGCAGAGCA chrIII:535375-535455 14 2.79e-05 GTGCCGTCGA TAGCTCAG TTGGTAGAGC chrV:6335346-6335426 59 2.79e-05 TCGTGGGGTA TAGCTCAG TGGCAGAGCA chrV:6889004-6889084 8 3.92e-05 GCACGGG TGGCGCAG TTGGTTATCG chrIV:2664926-2665006 54 3.92e-05 TGGTGCTGGT TGGCGCAG CCGGCAACAC chrII:14617060-14617140 27 3.92e-05 TGGACTCGCG TGGCGCAG GCGGTAGCGC chrIII:12598522-12598602 21 5.23e-05 AATGAAGAAA TAGCGCAG AAAATTGACG chrI:10593073-10593153 71 6.69e-05 GTCgcatcgg tggttcag tg chrIII:5211375-5211455 28 6.69e-05 GAGTCGTGGA TGGTTCAG GACCGAAAGG chrIII:4369646-4369726 5 6.69e-05 TGGA TGGTTCAG GACCGAAAGG chrIV:14611385-14611465 34 9.67e-05 CTTACACCAC TGGTGCAG CGCCCAACAT chrIII:6970138-6970218 13 9.67e-05 ACTTCTTCTT TGGTGCAG CCTTTTGGGC chrI:3852-3932 15 1.25e-04 GCCATCCTTC TCGCTCAG AGAATGGATT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TRGCKCAG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:4445017-4445097 1.3e-05 3_[+5]_69 chrIII:5305853-5305933 2.8e-05 58_[+5]_14 chrX:13653734-13653814 2.8e-05 [+5]_72 chrII:7001573-7001653 2.8e-05 60_[+5]_12 chrX:9238831-9238911 2.8e-05 39_[+5]_33 chrV:6559728-6559808 2.8e-05 35_[+5]_37 chrIII:535375-535455 2.8e-05 13_[+5]_59 chrV:6335346-6335426 2.8e-05 58_[+5]_14 chrV:6889004-6889084 3.9e-05 7_[+5]_65 chrIV:2664926-2665006 3.9e-05 53_[+5]_19 chrII:14617060-14617140 3.9e-05 26_[+5]_46 chrIII:12598522-12598602 5.2e-05 20_[+5]_52 chrI:10593073-10593153 6.7e-05 70_[+5]_2 chrIII:5211375-5211455 6.7e-05 27_[+5]_45 chrIII:4369646-4369726 6.7e-05 4_[+5]_68 chrIV:14611385-14611465 9.7e-05 33_[+5]_39 chrIII:6970138-6970218 9.7e-05 12_[+5]_60 chrI:3852-3932 0.00012 14_[+5]_58 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TRGCKCAG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TRGCKCAG width=8 seqs=18 chrX:4445017-4445097 ( 4) TGGCTCAG 1 chrIII:5305853-5305933 ( 59) TAGCTCAG 1 chrX:13653734-13653814 ( 1) TAGCTCAG 1 chrII:7001573-7001653 ( 61) TAGCTCAG 1 chrX:9238831-9238911 ( 40) TAGCTCAG 1 chrV:6559728-6559808 ( 36) TAGCTCAG 1 chrIII:535375-535455 ( 14) TAGCTCAG 1 chrV:6335346-6335426 ( 59) TAGCTCAG 1 chrV:6889004-6889084 ( 8) TGGCGCAG 1 chrIV:2664926-2665006 ( 54) TGGCGCAG 1 chrII:14617060-14617140 ( 27) TGGCGCAG 1 chrIII:12598522-12598602 ( 21) TAGCGCAG 1 chrI:10593073-10593153 ( 71) TGGTTCAG 1 chrIII:5211375-5211455 ( 28) TGGTTCAG 1 chrIII:4369646-4369726 ( 5) TGGTTCAG 1 chrIV:14611385-14611465 ( 34) TGGTGCAG 1 chrIII:6970138-6970218 ( 13) TGGTGCAG 1 chrI:3852-3932 ( 15) TCGCTCAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TRGCKCAG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.8329 E= 4.0e+003 -1081 -1081 -1081 192 72 -207 110 -1081 -1081 -1081 210 -1081 -1081 163 -1081 7 -1081 -1081 52 133 -1081 210 -1081 -1081 189 -1081 -1081 -1081 -1081 -1081 210 -1081 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TRGCKCAG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 18 E= 4.0e+003 0.000000 0.000000 0.000000 1.000000 0.444444 0.055556 0.500000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.722222 0.000000 0.277778 0.000000 0.000000 0.333333 0.666667 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TRGCKCAG MEME-5 regular expression -------------------------------------------------------------------------------- T[GA]G[CT][TG]CAG -------------------------------------------------------------------------------- Time 21.60 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrM:5233-5313 2.92e-01 80 chrM:1810-1890 9.05e-01 80 chrM:4988-5068 3.78e-01 80 chrIII:6888625-6888705 9.70e-01 80 chrI:4790666-4790746 1.13e-01 80 chrIV:8261486-8261566 9.69e-01 80 chrII:13780854-13780934 7.11e-01 80 chrX:13714909-13714989 5.44e-03 28_[+1(1.28e-05)]_44 chrX:9024427-9024507 4.92e-02 41_[+2(1.50e-05)]_31 chrM:10117-10197 9.90e-01 80 chrII:8441635-8441715 6.38e-01 80 chrX:4247142-4247222 3.53e-01 80 chrM:10798-10878 6.61e-01 80 chrM:8468-8548 8.32e-01 80 chrX:8838352-8838432 9.98e-01 80 chrIII:881586-881666 9.43e-01 80 chrV:8415286-8415366 9.91e-01 80 chrM:3208-3288 1.00e+00 80 chrIII:11830730-11830810 9.49e-01 80 chrII:9056257-9056337 6.81e-01 80 chrIV:292908-292988 8.92e-01 80 chrM:2979-3059 7.75e-01 80 chrX:15619449-15619529 3.45e-03 80 chrII:14617060-14617140 7.97e-05 26_[+5(3.92e-05)]_2_[+3(3.57e-05)]_\ 36 chrIII:698971-699051 9.81e-01 80 chrM:8213-8293 7.49e-01 80 chrIV:7083448-7083528 6.89e-01 80 chrIV:5038935-5039015 4.88e-04 1_[+3(1.30e-05)]_25_[+1(1.28e-05)]_\ 38 chrI:2069400-2069480 4.69e-01 80 chrII:8603780-8603860 7.77e-01 80 chrI:7139884-7139964 4.19e-03 23_[+4(9.62e-05)]_49 chrV:14354591-14354671 4.55e-01 80 chrX:6522923-6523003 9.45e-01 80 chrI:14625846-14625926 3.55e-01 80 chrIII:7495597-7495677 7.16e-01 80 chrIII:9510019-9510099 9.35e-01 80 chrII:1152678-1152758 6.61e-01 80 chrV:13415718-13415798 4.28e-01 80 chrIII:4449565-4449645 8.91e-01 80 chrII:12541729-12541809 8.20e-02 15_[+2(1.50e-05)]_57 chrIII:13606127-13606207 6.81e-01 80 chrX:4145748-4145828 7.03e-01 80 chrI:6847133-6847213 5.33e-01 80 chrX:15200899-15200979 7.26e-01 80 chrM:7199-7279 6.14e-01 80 chrIII:3249194-3249274 2.26e-02 72_[+1(1.28e-05)] chrX:3116327-3116407 4.22e-01 80 chrIII:13344842-13344922 9.12e-01 80 chrM:6054-6134 1.90e-01 29_[+4(4.34e-05)]_43 chrII:11917694-11917774 9.84e-01 80 chrII:6783065-6783145 9.00e-01 80 chrII:5931307-5931387 5.81e-01 80 chrI:8530186-8530266 2.56e-01 80 chrX:9622805-9622885 1.19e-01 60_[+3(5.71e-05)]_12 chrV:9326994-9327074 4.77e-01 80 chrI:852128-852208 6.92e-02 45_[+1(1.28e-05)]_27 chrM:9060-9140 7.15e-01 80 chrX:16298340-16298420 1.06e-03 6_[+4(1.45e-05)]_36_[+1(8.14e-05)]_\ 22 chrIV:14822364-14822444 9.88e-01 80 chrI:7656761-7656841 3.45e-01 80 chrI:6163497-6163577 4.94e-02 31_[+2(1.50e-05)]_41 chrX:11790851-11790931 9.93e-01 80 chrIV:6481138-6481218 1.16e-03 28_[+4(1.45e-05)]_36_[+1(8.14e-05)] chrX:8155679-8155759 9.60e-01 80 chrIII:9704050-9704130 9.59e-01 80 chrIII:11185651-11185731 9.29e-02 80 chrIV:3636744-3636824 8.08e-01 80 chrIII:8981293-8981373 5.87e-01 80 chrX:6867865-6867945 7.99e-03 80 chrIV:2664926-2665006 5.99e-03 42_[+4(9.62e-05)]_3_[+5(3.92e-05)]_\ 19 chrII:2860440-2860520 8.21e-01 80 chrX:17611311-17611391 7.14e-02 27_[+1(5.36e-05)]_45 chrX:4445017-4445097 4.61e-05 3_[+5(1.29e-05)]_1_[+3(4.72e-05)]_\ 25_[+1(5.36e-05)]_27 chrV:11821360-11821440 8.05e-03 16_[+3(2.44e-05)]_56 chrX:16930881-16930961 9.92e-01 80 chrI:1050878-1050958 3.16e-01 80 chrI:11579728-11579808 7.89e-03 34_[+2(1.50e-05)]_38 chrIII:10746509-10746589 9.10e-01 80 chrX:12348053-12348133 7.62e-01 80 chrX:14478866-14478946 1.42e-04 21_[+1(2.41e-05)]_38_[+2(1.50e-05)]_\ 5 chrII:14351079-14351159 4.61e-01 80 chrV:2664728-2664808 6.70e-01 80 chrV:9318213-9318293 5.50e-04 4_[+3(1.30e-05)]_25_[+1(6.84e-05)]_\ 35 chrIII:6970138-6970218 2.27e-02 12_[+5(9.67e-05)]_60 chrM:4633-4713 5.98e-01 80 chrM:6259-6339 5.74e-01 80 chrIII:5942572-5942652 7.09e-01 80 chrIII:13224494-13224574 7.21e-01 80 chrX:7725839-7725919 9.91e-01 80 chrV:15000400-15000480 1.92e-01 80 chrX:16619314-16619394 9.33e-01 80 chrII:3062275-3062355 9.42e-01 80 chrV:6551941-6552021 8.21e-01 80 chrI:3638908-3638988 3.99e-02 [+2(2.80e-05)]_72 chrIII:10506237-10506317 2.33e-03 4_[+3(7.03e-05)]_7_[+4(4.34e-05)]_\ 53 chrII:14635258-14635338 6.12e-01 80 chrI:108576-108656 6.71e-01 80 chrV:11076550-11076630 8.24e-01 80 chrX:7773821-7773901 6.30e-02 7_[+2(4.09e-05)]_65 chrV:3634970-3635050 2.87e-01 80 chrM:2325-2405 4.05e-01 80 chrX:11465388-11465468 2.92e-01 80 chrX:3793607-3793687 5.57e-01 80 chrIV:842804-842884 1.47e-03 10_[+4(2.91e-05)]_35_[+1(1.28e-05)]_\ 19 chrII:10707813-10707893 8.95e-01 80 chrX:7323670-7323750 9.99e-01 80 chrIII:13016122-13016202 7.22e-02 40_[+2(1.50e-05)]_32 chrX:2531463-2531543 3.95e-01 80 chrII:5353808-5353888 6.64e-01 80 chrIV:11527785-11527865 9.48e-01 80 chrX:11872282-11872362 9.99e-01 80 chrIV:8263200-8263280 9.04e-01 80 chrM:1187-1267 9.11e-01 80 chrM:12387-12467 3.28e-01 80 chrIII:3869419-3869499 7.17e-01 80 chrII:3439343-3439423 1.04e-01 61_[+1(2.41e-05)]_11 chrII:14155611-14155691 9.74e-01 80 chrI:6164247-6164327 9.59e-01 80 chrI:15041561-15041641 2.34e-01 80 chrV:6335346-6335426 3.02e-04 58_[+5(2.79e-05)]_1_[+3(4.72e-05)]_\ 5 chrI:9327598-9327678 7.65e-02 44_[+4(1.45e-05)]_28 chrIII:1616930-1617010 7.75e-01 80 chrX:5101150-5101230 2.06e-01 30_[+2(5.57e-05)]_42 chrIV:7487659-7487739 7.47e-01 80 chrIII:10214614-10214694 4.49e-01 80 chrI:1698015-1698095 3.48e-01 80 chrIV:16400864-16400944 3.28e-01 80 chrV:6655519-6655599 9.90e-01 80 chrIII:13464711-13464791 5.49e-02 80 chrV:8936220-8936300 9.94e-01 80 chrX:8018594-8018674 5.39e-01 80 chrI:13953292-13953372 4.96e-01 80 chrI:9624765-9624845 1.34e-01 64_[+3(7.03e-05)]_8 chrX:10145181-10145261 9.27e-03 24_[+1(5.36e-05)]_48 chrX:14162154-14162234 4.02e-01 80 chrIV:1711197-1711277 3.29e-01 80 chrIV:16400084-16400164 1.15e-02 51_[+4(1.45e-05)]_21 chrIV:322627-322707 9.13e-01 80 chrV:1474717-1474797 2.24e-01 80 chrI:7059309-7059389 8.72e-01 80 chrIII:535375-535455 2.32e-05 13_[+5(2.79e-05)]_2_[+3(1.30e-05)]_\ 36_[+1(5.36e-05)]_5 chrIII:4195518-4195598 9.42e-01 80 chrIII:13626263-13626343 2.91e-01 80 chrII:2861595-2861675 2.57e-01 80 chrV:6559728-6559808 6.76e-04 35_[+5(2.79e-05)]_1_[+3(4.72e-05)]_\ 28 chrIV:15933285-15933365 5.21e-01 80 chrX:5354628-5354708 1.00e+00 80 chrII:8016801-8016881 8.16e-01 80 chrX:9238831-9238911 3.45e-04 39_[+5(2.79e-05)]_1_[+3(1.30e-05)]_\ 24 chrI:2878461-2878541 8.46e-01 80 chrI:5104886-5104966 7.51e-01 80 chrIV:16775175-16775255 5.42e-04 12_[+4(1.45e-05)]_35_[+1(1.28e-05)]_\ 17 chrIII:12614960-12615040 7.78e-01 80 chrIII:4369646-4369726 7.97e-04 4_[+5(6.69e-05)]_68 chrI:9051308-9051388 4.12e-01 80 chrIV:8377664-8377744 5.19e-01 80 chrX:15606938-15607018 9.14e-01 80 chrI:7493107-7493187 7.83e-01 80 chrIII:8425333-8425413 7.87e-01 80 chrX:9078228-9078308 4.30e-01 80 chrII:6348539-6348619 7.32e-01 80 chrII:7757149-7757229 8.28e-01 80 chrII:7001573-7001653 4.75e-04 60_[+5(2.79e-05)]_1_[+3(1.30e-05)]_\ 3 chrIII:5211375-5211455 2.91e-03 27_[+5(6.69e-05)]_30_[+4(5.62e-05)]_\ 7 chrX:9822768-9822848 7.01e-01 80 chrIII:7278722-7278802 9.52e-01 80 chrX:8623920-8624000 1.56e-01 80 chrX:2527968-2528048 7.36e-01 80 chrIV:14611385-14611465 3.16e-02 33_[+5(9.67e-05)]_39 chrI:7872268-7872348 5.72e-01 80 chrIV:15693442-15693522 3.67e-02 80 chrI:3740554-3740634 9.86e-01 80 chrIII:9717253-9717333 4.47e-01 80 chrX:13038867-13038947 4.48e-01 80 chrII:8547117-8547197 1.71e-02 35_[+4(1.45e-05)]_37 chrX:12458148-12458228 2.41e-01 69_[+3(5.71e-05)]_3 chrIII:10634191-10634271 5.44e-01 80 chrIV:4470213-4470293 1.03e-01 53_[+4(2.91e-05)]_19 chrI:7518514-7518594 6.03e-01 80 chrIV:11692438-11692518 6.76e-01 80 chrX:12872449-12872529 2.69e-01 80 chrIV:11147297-11147377 5.10e-01 80 chrIV:16389243-16389323 1.59e-04 9_[+3(5.71e-05)]_6_[+2(1.50e-05)]_\ 49 chrIV:12417890-12417970 4.48e-01 80 chrIV:16776116-16776196 7.16e-02 20_[+1(1.28e-05)]_52 chrX:8608872-8608952 9.08e-01 80 chrX:4222952-4223032 7.24e-01 80 chrX:11473340-11473420 3.73e-01 80 chrV:20694112-20694192 8.39e-02 64_[+2(1.50e-05)]_8 chrX:5319330-5319410 5.72e-01 80 chrII:5336209-5336289 2.68e-01 80 chrX:12889926-12890006 5.14e-03 72_[+1(5.36e-05)] chrIV:2805666-2805746 1.02e-01 9_[+1(6.84e-05)]_63 chrX:13653734-13653814 1.71e-04 [+5(2.79e-05)]_1_[+3(1.30e-05)]_63 chrII:6926526-6926606 8.65e-01 80 chrX:15354011-15354091 7.19e-01 80 chrX:15297518-15297598 2.50e-01 3_[+1(5.36e-05)]_69 chrIII:931519-931599 9.17e-01 80 chrX:14790592-14790672 2.14e-01 80 chrX:9373194-9373274 1.12e-01 80 chrV:6889004-6889084 1.01e-05 7_[+5(3.92e-05)]_42_[+2(2.80e-05)]_\ 15 chrII:5293390-5293470 4.42e-02 67_[+4(2.91e-05)]_5 chrX:5022817-5022897 1.40e-01 80 chrX:16378166-16378246 9.98e-01 80 chrII:11620121-11620201 8.04e-01 80 chrX:10821319-10821399 9.40e-01 80 chrIV:9477727-9477807 9.12e-01 80 chrV:13649996-13650076 6.50e-02 80 chrIV:7845660-7845740 6.57e-01 80 chrII:10395576-10395656 4.09e-01 80 chrII:11157791-11157871 1.42e-04 21_[+1(2.41e-05)]_38_[+2(1.50e-05)]_\ 5 chrII:5577181-5577261 3.28e-02 29_[+1(1.28e-05)]_43 chrIV:12032540-12032620 3.70e-01 80 chrV:11532231-11532311 5.98e-01 80 chrX:7794588-7794668 3.84e-04 20_[+4(1.45e-05)]_35_[+1(1.28e-05)]_\ 9 chrIII:6606265-6606345 4.79e-01 80 chrII:9566207-9566287 1.79e-01 80 chrI:3852-3932 1.73e-01 80 chrX:13264712-13264792 1.33e-01 38_[+2(1.50e-05)]_34 chrX:17151328-17151408 8.14e-01 80 chrII:10542111-10542191 9.95e-01 80 chrX:6255642-6255722 8.68e-01 80 chrI:4769526-4769606 8.39e-01 80 chrII:8128764-8128844 8.73e-01 80 chrIV:14225055-14225135 4.15e-01 80 chrV:14028438-14028518 6.51e-01 80 chrI:7084508-7084588 2.62e-01 80 chrIII:2172172-2172252 7.70e-01 80 chrX:13511991-13512071 9.86e-01 80 chrIV:16503752-16503832 7.34e-01 80 chrII:9282961-9283041 3.14e-01 80 chrIV:9191348-9191428 9.53e-01 80 chrX:14476851-14476931 5.86e-01 80 chrIII:12598522-12598602 7.35e-02 20_[+5(5.23e-05)]_52 chrII:5182495-5182575 5.76e-01 80 chrV:15505207-15505287 6.22e-01 80 chrIV:16399227-16399307 1.75e-03 5_[+1(6.84e-05)]_67 chrI:9854069-9854149 8.94e-01 80 chrX:1837802-1837882 1.51e-01 59_[+3(5.71e-05)]_13 chrIII:8865555-8865635 1.66e-01 80 chrIII:5305853-5305933 1.59e-04 58_[+5(2.79e-05)]_1_[+3(1.30e-05)]_\ 5 chrX:10963787-10963867 3.30e-02 46_[+4(1.45e-05)]_26 chrX:10637556-10637636 1.19e-01 80 chrX:2553540-2553620 7.41e-01 80 chrIV:4748632-4748712 8.19e-01 80 chrX:11757900-11757980 3.69e-01 80 chrII:9061977-9062057 7.75e-01 80 chrIV:14838326-14838406 9.06e-02 4_[+1(1.28e-05)]_68 chrII:3567720-3567800 8.30e-02 54_[+1(2.41e-05)]_18 chrI:10593073-10593153 6.30e-03 70_[+5(6.69e-05)]_2 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n09.farnam.hpc.yale.internal ********************************************************************************