******************************************************************************** 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/ztf-22.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrII:13299603-13299683 1.0000 80 chrII:15251781-15251861 1.0000 80 chrV:6523014-6523094 1.0000 80 chrV:7748116-7748196 1.0000 80 chrV:15298744-15298824 1.0000 80 chrIV:552038-552118 1.0000 80 chrX:2422279-2422359 1.0000 80 chrII:9740794-9740874 1.0000 80 chrII:5185126-5185206 1.0000 80 chrIII:12318952-12319032 1.0000 80 chrIII:5146920-5147000 1.0000 80 chrV:11009246-11009326 1.0000 80 chrV:1456803-1456883 1.0000 80 chrIV:3613389-3613469 1.0000 80 chrX:3403324-3403404 1.0000 80 chrII:13304520-13304600 1.0000 80 chrX:6607179-6607259 1.0000 80 chrV:5284433-5284513 1.0000 80 chrX:10480748-10480828 1.0000 80 chrV:10334046-10334126 1.0000 80 chrII:7277376-7277456 1.0000 80 chrI:3834210-3834290 1.0000 80 chrV:10802205-10802285 1.0000 80 chrX:7296502-7296582 1.0000 80 chrIV:6880569-6880649 1.0000 80 chrII:12052254-12052334 1.0000 80 chrX:14071180-14071260 1.0000 80 chrIII:6179217-6179297 1.0000 80 chrV:2731177-2731257 1.0000 80 chrX:12869468-12869548 1.0000 80 chrV:2308438-2308518 1.0000 80 chrX:13339317-13339397 1.0000 80 chrV:10855551-10855631 1.0000 80 chrV:15354787-15354867 1.0000 80 chrV:11975371-11975451 1.0000 80 chrI:2688152-2688232 1.0000 80 chrIV:9682663-9682743 1.0000 80 chrIV:2709772-2709852 1.0000 80 chrV:13372938-13373018 1.0000 80 chrII:8388232-8388312 1.0000 80 chrV:17721920-17722000 1.0000 80 chrV:2872297-2872377 1.0000 80 chrV:7744201-7744281 1.0000 80 chrX:3290231-3290311 1.0000 80 chrIV:10970534-10970614 1.0000 80 chrII:915397-915477 1.0000 80 chrX:16798765-16798845 1.0000 80 chrIV:3900017-3900097 1.0000 80 chrII:13298681-13298761 1.0000 80 chrX:11962589-11962669 1.0000 80 chrV:13262906-13262986 1.0000 80 chrIV:7183015-7183095 1.0000 80 chrIV:12601097-12601177 1.0000 80 chrIV:8032285-8032365 1.0000 80 chrX:13368452-13368532 1.0000 80 chrII:9502149-9502229 1.0000 80 chrX:6456804-6456884 1.0000 80 chrX:14500808-14500888 1.0000 80 chrV:8768627-8768707 1.0000 80 chrII:1851881-1851961 1.0000 80 chrV:11069447-11069527 1.0000 80 chrV:8651521-8651601 1.0000 80 chrII:5104278-5104358 1.0000 80 chrV:6524899-6524979 1.0000 80 chrII:7287309-7287389 1.0000 80 chrV:8769320-8769400 1.0000 80 chrX:4794159-4794239 1.0000 80 chrV:10561742-10561822 1.0000 80 chrX:4971132-4971212 1.0000 80 chrII:7060365-7060445 1.0000 80 chrII:6328879-6328959 1.0000 80 chrIV:12842260-12842340 1.0000 80 chrX:3572716-3572796 1.0000 80 chrII:9891984-9892064 1.0000 80 chrIV:12689857-12689937 1.0000 80 chrI:15040898-15040978 1.0000 80 chrII:5186109-5186189 1.0000 80 chrII:3786658-3786738 1.0000 80 chrX:978442-978522 1.0000 80 chrV:6243433-6243513 1.0000 80 chrIV:10256438-10256518 1.0000 80 chrV:7742724-7742804 1.0000 80 chrIV:3158311-3158391 1.0000 80 chrV:6665811-6665891 1.0000 80 chrX:3153340-3153420 1.0000 80 chrIII:6850376-6850456 1.0000 80 chrI:9169475-9169555 1.0000 80 chrV:10693929-10694009 1.0000 80 chrIV:9801640-9801720 1.0000 80 chrII:6701676-6701756 1.0000 80 chrX:8718929-8719009 1.0000 80 chrII:5202081-5202161 1.0000 80 chrX:7725796-7725876 1.0000 80 chrX:2865273-2865353 1.0000 80 chrIV:14883929-14884009 1.0000 80 chrI:6582718-6582798 1.0000 80 chrX:16192773-16192853 1.0000 80 chrV:6413260-6413340 1.0000 80 chrI:6294109-6294189 1.0000 80 chrV:9080099-9080179 1.0000 80 chrII:8016287-8016367 1.0000 80 chrV:13212782-13212862 1.0000 80 chrI:11690556-11690636 1.0000 80 chrV:16046015-16046095 1.0000 80 chrII:4769193-4769273 1.0000 80 chrV:19205576-19205656 1.0000 80 chrV:6614520-6614600 1.0000 80 chrV:10878299-10878379 1.0000 80 chrII:1103854-1103934 1.0000 80 chrIII:1214829-1214909 1.0000 80 chrV:3632480-3632560 1.0000 80 chrIV:8528508-8528588 1.0000 80 chrIII:5814965-5815045 1.0000 80 chrX:7989608-7989688 1.0000 80 chrX:13159130-13159210 1.0000 80 chrI:9385964-9386044 1.0000 80 chrV:10801310-10801390 1.0000 80 chrX:14539659-14539739 1.0000 80 chrX:2014660-2014740 1.0000 80 chrI:1914037-1914117 1.0000 80 chrV:6221613-6221693 1.0000 80 chrIV:11284252-11284332 1.0000 80 chrX:13420062-13420142 1.0000 80 chrX:3832239-3832319 1.0000 80 chrV:17659402-17659482 1.0000 80 chrX:5839766-5839846 1.0000 80 chrV:4024941-4025021 1.0000 80 chrIII:154342-154422 1.0000 80 chrX:17636438-17636518 1.0000 80 chrII:9683648-9683728 1.0000 80 chrX:9850615-9850695 1.0000 80 chrV:18346210-18346290 1.0000 80 chrII:2378699-2378779 1.0000 80 chrX:1272659-1272739 1.0000 80 chrX:6905777-6905857 1.0000 80 chrV:15888000-15888080 1.0000 80 chrII:13956679-13956759 1.0000 80 chrIV:3612071-3612151 1.0000 80 chrII:7238303-7238383 1.0000 80 chrII:7075733-7075813 1.0000 80 chrIII:9289937-9290017 1.0000 80 chrIII:10533469-10533549 1.0000 80 chrX:8022852-8022932 1.0000 80 chrX:10142108-10142188 1.0000 80 chrIV:17245385-17245465 1.0000 80 chrII:11966934-11967014 1.0000 80 chrX:5346419-5346499 1.0000 80 chrIV:8151868-8151948 1.0000 80 chrV:19512908-19512988 1.0000 80 chrX:5106491-5106571 1.0000 80 chrX:2569245-2569325 1.0000 80 chrX:7200537-7200617 1.0000 80 chrV:8661780-8661860 1.0000 80 chrX:3824045-3824125 1.0000 80 chrV:19158826-19158906 1.0000 80 chrX:8932547-8932627 1.0000 80 chrV:12638139-12638219 1.0000 80 chrX:9676236-9676316 1.0000 80 chrIV:17263851-17263931 1.0000 80 chrIV:12834065-12834145 1.0000 80 chrI:11746902-11746982 1.0000 80 chrX:5213711-5213791 1.0000 80 chrX:1010891-1010971 1.0000 80 chrX:13767418-13767498 1.0000 80 chrIII:9326712-9326792 1.0000 80 chrIII:3520496-3520576 1.0000 80 chrII:7290074-7290154 1.0000 80 chrII:14602544-14602624 1.0000 80 chrV:13716729-13716809 1.0000 80 chrIII:10534280-10534360 1.0000 80 chrV:12935102-12935182 1.0000 80 chrV:3777065-3777145 1.0000 80 chrX:6932492-6932572 1.0000 80 chrV:9489552-9489632 1.0000 80 chrV:4186569-4186649 1.0000 80 chrV:10968172-10968252 1.0000 80 chrII:10447536-10447616 1.0000 80 chrI:5037463-5037543 1.0000 80 chrV:8425279-8425359 1.0000 80 chrX:13528757-13528837 1.0000 80 chrX:8719984-8720064 1.0000 80 chrX:14538902-14538982 1.0000 80 chrV:19527722-19527802 1.0000 80 chrX:11481024-11481104 1.0000 80 chrIV:16181011-16181091 1.0000 80 chrV:20412440-20412520 1.0000 80 chrV:18577654-18577734 1.0000 80 chrI:6578594-6578674 1.0000 80 chrIV:13919399-13919479 1.0000 80 chrI:9047092-9047172 1.0000 80 chrIV:297064-297144 1.0000 80 chrX:6338608-6338688 1.0000 80 chrX:17482061-17482141 1.0000 80 chrIV:6552181-6552261 1.0000 80 chrII:13468126-13468206 1.0000 80 chrX:6536811-6536891 1.0000 80 chrX:8069444-8069524 1.0000 80 chrII:12353952-12354032 1.0000 80 chrIII:10151899-10151979 1.0000 80 chrIV:4408874-4408954 1.0000 80 chrX:14502291-14502371 1.0000 80 chrX:15076318-15076398 1.0000 80 chrV:8270105-8270185 1.0000 80 chrI:2686354-2686434 1.0000 80 chrIV:6328071-6328151 1.0000 80 chrII:13275871-13275951 1.0000 80 chrV:15666891-15666971 1.0000 80 chrII:8020728-8020808 1.0000 80 chrX:7320451-7320531 1.0000 80 chrII:11150043-11150123 1.0000 80 chrII:9501072-9501152 1.0000 80 chrX:5523029-5523109 1.0000 80 chrV:20712416-20712496 1.0000 80 chrV:13085447-13085527 1.0000 80 chrIII:7453784-7453864 1.0000 80 chrII:14536212-14536292 1.0000 80 chrV:6276340-6276420 1.0000 80 chrX:16725080-16725160 1.0000 80 chrV:12003226-12003306 1.0000 80 chrII:10389205-10389285 1.0000 80 chrIII:6361698-6361778 1.0000 80 chrIV:8260967-8261047 1.0000 80 chrI:8864242-8864322 1.0000 80 chrIII:9060408-9060488 1.0000 80 chrII:13006430-13006510 1.0000 80 chrII:8625322-8625402 1.0000 80 chrIV:8530769-8530849 1.0000 80 chrIV:12866081-12866161 1.0000 80 chrIV:15187733-15187813 1.0000 80 chrX:9214123-9214203 1.0000 80 chrIV:8266593-8266673 1.0000 80 chrV:20717187-20717267 1.0000 80 chrII:9622202-9622282 1.0000 80 chrX:13257733-13257813 1.0000 80 chrX:13221484-13221564 1.0000 80 chrX:7962323-7962403 1.0000 80 chrX:14783624-14783704 1.0000 80 chrI:946111-946191 1.0000 80 chrV:5271601-5271681 1.0000 80 chrIII:1279305-1279385 1.0000 80 chrIV:10631054-10631134 1.0000 80 chrII:9791397-9791477 1.0000 80 chrIII:4496193-4496273 1.0000 80 chrI:7857867-7857947 1.0000 80 chrIV:4029441-4029521 1.0000 80 chrX:6609448-6609528 1.0000 80 chrIII:12839180-12839260 1.0000 80 chrII:3246034-3246114 1.0000 80 chrI:10752130-10752210 1.0000 80 chrV:19053456-19053536 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_ztf-22/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/ztf-22.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 0.288 C 0.211 G 0.205 T 0.296 Background letter frequencies (from file dataset with add-one prior applied): A 0.288 C 0.211 G 0.205 T 0.296 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF YCTTATCA MEME-1 width = 8 sites = 52 llr = 434 E-value = 4.4e-019 ******************************************************************************** -------------------------------------------------------------------------------- Motif YCTTATCA MEME-1 Description -------------------------------------------------------------------------------- Simplified A ::::a::9 pos.-specific C 37::::a: probability G :2:::::: matrix T 72aa:a:1 bits 2.3 * 2.1 * 1.8 * ** 1.6 ***** Relative 1.4 ****** Entropy 1.1 ****** (12.0 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TCTTATCA consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YCTTATCA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:19053456-19053536 58 2.83e-05 CTTACCTGGC TCTTATCA CCAACTATCT chrIV:10631054-10631134 40 2.83e-05 TTTCGTGTCT TCTTATCA CAGACCATAT chrV:13085447-13085527 54 2.83e-05 ATTCACGGTT TCTTATCA TCATCGATAA chrII:9501072-9501152 38 2.83e-05 GCGCCGACGT TCTTATCA AACCGCTGGC chrI:9047092-9047172 66 2.83e-05 CCACAGTCTT TCTTATCA CTCATCA chrIV:16181011-16181091 62 2.83e-05 TCCTGTTCTT TCTTATCA GTTAATGGCC chrI:5037463-5037543 26 2.83e-05 CTAACCTACT TCTTATCA TTGAATCGAG chrII:10447536-10447616 20 2.83e-05 GCACTCATTT TCTTATCA TTTTTGCAGA chrIII:9326712-9326792 44 2.83e-05 TCGCAACATT TCTTATCA GCAACTATCA chrIV:17263851-17263931 11 2.83e-05 GAATTACCCG TCTTATCA CCACGCTCTC chrV:17659402-17659482 52 2.83e-05 AATTTCGTTG TCTTATCA CTTGACTTTT chrV:10801310-10801390 14 2.83e-05 CTTTTTCGGG TCTTATCA CAATCAAATG chrIV:8528508-8528588 55 2.83e-05 TCGAGAGATT TCTTATCA CTAACACAAC chrIII:1214829-1214909 48 2.83e-05 ACGTTTGCTA TCTTATCA ATTCACTCTT chrV:10878299-10878379 22 2.83e-05 AAATGAGTGC TCTTATCA GCTGACGTCG chrV:8768627-8768707 13 2.83e-05 CGCCAATTTT TCTTATCA CTAGTCAAGA chrII:7277376-7277456 40 2.83e-05 CTTTTCACTG TCTTATCA GTGTCACCGA chrII:3246034-3246114 19 4.86e-05 GTCACACCAC CCTTATCA GTTTAACTAT chrII:2378699-2378779 42 4.86e-05 TAAGCCATAC CCTTATCA ACAGCAACGC chrII:3786658-3786738 44 4.86e-05 ACACATACGC CCTTATCA CCTCATAACT chrIV:3900017-3900097 2 4.86e-05 T CCTTATCA GAATTGCTTC chrIV:10970534-10970614 15 4.86e-05 GTTTCGGGAT CCTTATCA CTGTACACAT chrV:17721920-17722000 16 4.86e-05 AAAACTTGCG CCTTATCA CTTGGGGTCA chrV:15354787-15354867 25 4.86e-05 ATGTCTCTCT CCTTATCA GTTCAAAAAC chrIII:12318952-12319032 53 4.86e-05 TTTCTCTGGC CCTTATCA GTGCCTTTTT chrX:978442-978522 44 7.61e-05 AAAAATGCCT TGTTATCA CCGAAAAAAC chrII:13298681-13298761 44 7.61e-05 ATAAGGCACG TGTTATCA GTATCGCAAC chrII:915397-915477 67 7.61e-05 AAATTGATCG TGTTATCA GCTATC chrV:7744201-7744281 4 7.61e-05 AAT TGTTATCA GTCGGGTCTT chrX:11481024-11481104 66 9.57e-05 TTATAGGTTT CGTTATCA TAACCGT chrIII:10534280-10534360 49 9.57e-05 GACCCACGTG CGTTATCA GTTTCTTTTG chrIII:154342-154422 4 9.57e-05 CAT CGTTATCA TATTACACAA chrV:3632480-3632560 41 9.57e-05 GAAAACAGTA CGTTATCA GTGTGATTGT chrII:8016287-8016367 31 9.57e-05 TCACCCATCC CGTTATCA TGATCACATG chrI:946111-946191 64 1.35e-04 CAACCCTACG TTTTATCA GTGGAGCGC chrIV:12834065-12834145 58 1.35e-04 TTTTCCAACT TTTTATCA TCGAATTTTG chrX:8022852-8022932 5 1.35e-04 CCCG TTTTATCA CAACTCAAAG chrV:18346210-18346290 5 1.35e-04 GTGA TTTTATCA CCGATTCTAT chrX:9850615-9850695 33 1.35e-04 TTTCTAAAAC TTTTATCA TACCATGTTA chrIV:12601097-12601177 45 1.35e-04 CTTTGAACAT TTTTATCA TTATGGGTGA chrX:13339317-13339397 62 1.35e-04 CCTCGGAGGA TTTTATCA ACCAGTAGGA chrII:1103854-1103934 6 1.64e-04 TAACT CTTTATCA GTGTTAAGCT chrV:6276340-6276420 31 1.93e-04 CCGCCCATCT TCTTATCT CTTGAAGTGG chrX:6536811-6536891 50 2.14e-04 GATCACAATT CCTTATCT CAAAACCCGG chrII:13468126-13468206 14 2.14e-04 ACAAACAAGT CCTTATCT CTGGAACTCG chrV:16046015-16046095 5 2.14e-04 TGTC CCTTATCT GGAACAAATT chrV:6243433-6243513 43 2.14e-04 GGGCTCGAAG CCTTATCT CCTGCGACAA chrX:6338608-6338688 72 2.34e-04 TTTTGTGTCC TCTCATCA C chrIII:6850376-6850456 36 2.34e-04 TTCTCTGGGC TCTCATCA TCTCTCACGT chrI:9385964-9386044 43 3.06e-04 TTCCGTTCTC TCTTTTCA AGTCAGCTTG chrV:6524899-6524979 45 3.06e-04 GGGAAGTGGG TGTTATCT AATGCGGAAA chrX:10480748-10480828 46 3.06e-04 ACACCATCTT TCTTTTCA AACCAATACG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YCTTATCA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:19053456-19053536 2.8e-05 57_[+1]_15 chrIV:10631054-10631134 2.8e-05 39_[+1]_33 chrV:13085447-13085527 2.8e-05 53_[+1]_19 chrII:9501072-9501152 2.8e-05 37_[+1]_35 chrI:9047092-9047172 2.8e-05 65_[+1]_7 chrIV:16181011-16181091 2.8e-05 61_[+1]_11 chrI:5037463-5037543 2.8e-05 25_[+1]_47 chrII:10447536-10447616 2.8e-05 19_[+1]_53 chrIII:9326712-9326792 2.8e-05 43_[+1]_29 chrIV:17263851-17263931 2.8e-05 10_[+1]_62 chrV:17659402-17659482 2.8e-05 51_[+1]_21 chrV:10801310-10801390 2.8e-05 13_[+1]_59 chrIV:8528508-8528588 2.8e-05 54_[+1]_18 chrIII:1214829-1214909 2.8e-05 47_[+1]_25 chrV:10878299-10878379 2.8e-05 21_[+1]_51 chrV:8768627-8768707 2.8e-05 12_[+1]_60 chrII:7277376-7277456 2.8e-05 39_[+1]_33 chrII:3246034-3246114 4.9e-05 18_[+1]_54 chrII:2378699-2378779 4.9e-05 41_[+1]_31 chrII:3786658-3786738 4.9e-05 43_[+1]_29 chrIV:3900017-3900097 4.9e-05 1_[+1]_71 chrIV:10970534-10970614 4.9e-05 14_[+1]_58 chrV:17721920-17722000 4.9e-05 15_[+1]_57 chrV:15354787-15354867 4.9e-05 24_[+1]_48 chrIII:12318952-12319032 4.9e-05 52_[+1]_20 chrX:978442-978522 7.6e-05 43_[+1]_29 chrII:13298681-13298761 7.6e-05 43_[+1]_29 chrII:915397-915477 7.6e-05 66_[+1]_6 chrV:7744201-7744281 7.6e-05 3_[+1]_69 chrX:11481024-11481104 9.6e-05 65_[+1]_7 chrIII:10534280-10534360 9.6e-05 48_[+1]_24 chrIII:154342-154422 9.6e-05 3_[+1]_69 chrV:3632480-3632560 9.6e-05 40_[+1]_32 chrII:8016287-8016367 9.6e-05 30_[+1]_42 chrI:946111-946191 0.00014 63_[+1]_9 chrIV:12834065-12834145 0.00014 57_[+1]_15 chrX:8022852-8022932 0.00014 4_[+1]_68 chrV:18346210-18346290 0.00014 4_[+1]_68 chrX:9850615-9850695 0.00014 32_[+1]_40 chrIV:12601097-12601177 0.00014 44_[+1]_28 chrX:13339317-13339397 0.00014 61_[+1]_11 chrII:1103854-1103934 0.00016 5_[+1]_67 chrV:6276340-6276420 0.00019 30_[+1]_42 chrX:6536811-6536891 0.00021 49_[+1]_23 chrII:13468126-13468206 0.00021 13_[+1]_59 chrV:16046015-16046095 0.00021 4_[+1]_68 chrV:6243433-6243513 0.00021 42_[+1]_30 chrX:6338608-6338688 0.00023 71_[+1]_1 chrIII:6850376-6850456 0.00023 35_[+1]_37 chrI:9385964-9386044 0.00031 42_[+1]_30 chrV:6524899-6524979 0.00031 44_[+1]_28 chrX:10480748-10480828 0.00031 45_[+1]_27 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YCTTATCA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF YCTTATCA width=8 seqs=52 chrV:19053456-19053536 ( 58) TCTTATCA 1 chrIV:10631054-10631134 ( 40) TCTTATCA 1 chrV:13085447-13085527 ( 54) TCTTATCA 1 chrII:9501072-9501152 ( 38) TCTTATCA 1 chrI:9047092-9047172 ( 66) TCTTATCA 1 chrIV:16181011-16181091 ( 62) TCTTATCA 1 chrI:5037463-5037543 ( 26) TCTTATCA 1 chrII:10447536-10447616 ( 20) TCTTATCA 1 chrIII:9326712-9326792 ( 44) TCTTATCA 1 chrIV:17263851-17263931 ( 11) TCTTATCA 1 chrV:17659402-17659482 ( 52) TCTTATCA 1 chrV:10801310-10801390 ( 14) TCTTATCA 1 chrIV:8528508-8528588 ( 55) TCTTATCA 1 chrIII:1214829-1214909 ( 48) TCTTATCA 1 chrV:10878299-10878379 ( 22) TCTTATCA 1 chrV:8768627-8768707 ( 13) TCTTATCA 1 chrII:7277376-7277456 ( 40) TCTTATCA 1 chrII:3246034-3246114 ( 19) CCTTATCA 1 chrII:2378699-2378779 ( 42) CCTTATCA 1 chrII:3786658-3786738 ( 44) CCTTATCA 1 chrIV:3900017-3900097 ( 2) CCTTATCA 1 chrIV:10970534-10970614 ( 15) CCTTATCA 1 chrV:17721920-17722000 ( 16) CCTTATCA 1 chrV:15354787-15354867 ( 25) CCTTATCA 1 chrIII:12318952-12319032 ( 53) CCTTATCA 1 chrX:978442-978522 ( 44) TGTTATCA 1 chrII:13298681-13298761 ( 44) TGTTATCA 1 chrII:915397-915477 ( 67) TGTTATCA 1 chrV:7744201-7744281 ( 4) TGTTATCA 1 chrX:11481024-11481104 ( 66) CGTTATCA 1 chrIII:10534280-10534360 ( 49) CGTTATCA 1 chrIII:154342-154422 ( 4) CGTTATCA 1 chrV:3632480-3632560 ( 41) CGTTATCA 1 chrII:8016287-8016367 ( 31) CGTTATCA 1 chrI:946111-946191 ( 64) TTTTATCA 1 chrIV:12834065-12834145 ( 58) TTTTATCA 1 chrX:8022852-8022932 ( 5) TTTTATCA 1 chrV:18346210-18346290 ( 5) TTTTATCA 1 chrX:9850615-9850695 ( 33) TTTTATCA 1 chrIV:12601097-12601177 ( 45) TTTTATCA 1 chrX:13339317-13339397 ( 62) TTTTATCA 1 chrII:1103854-1103934 ( 6) CTTTATCA 1 chrV:6276340-6276420 ( 31) TCTTATCT 1 chrX:6536811-6536891 ( 50) CCTTATCT 1 chrII:13468126-13468206 ( 14) CCTTATCT 1 chrV:16046015-16046095 ( 5) CCTTATCT 1 chrV:6243433-6243513 ( 43) CCTTATCT 1 chrX:6338608-6338688 ( 72) TCTCATCA 1 chrIII:6850376-6850456 ( 36) TCTCATCA 1 chrI:9385964-9386044 ( 43) TCTTTTCA 1 chrV:6524899-6524979 ( 45) TGTTATCT 1 chrX:10480748-10480828 ( 46) TCTTTTCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YCTTATCA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 8.98284 E= 4.4e-019 -1234 71 -1234 114 -1234 163 -9 -94 -1234 -1234 -1234 176 -1234 -246 -1234 170 174 -1234 -1234 -294 -1234 -1234 -1234 176 -1234 224 -1234 -1234 162 -1234 -1234 -136 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YCTTATCA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 52 E= 4.4e-019 0.000000 0.346154 0.000000 0.653846 0.000000 0.653846 0.192308 0.153846 0.000000 0.000000 0.000000 1.000000 0.000000 0.038462 0.000000 0.961538 0.961538 0.000000 0.000000 0.038462 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.884615 0.000000 0.000000 0.115385 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YCTTATCA MEME-1 regular expression -------------------------------------------------------------------------------- [TC]CTTATCA -------------------------------------------------------------------------------- Time 6.89 secs. ******************************************************************************** ******************************************************************************** MOTIF CTGATAAS MEME-2 width = 8 sites = 49 llr = 401 E-value = 4.2e-013 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTGATAAS MEME-2 Description -------------------------------------------------------------------------------- Simplified A :::a1aa1 pos.-specific C 71:::::3 probability G 1:a::::5 matrix T 39::9::2 bits 2.3 * 2.1 * 1.8 ** ** 1.6 ** ** Relative 1.4 ****** Entropy 1.1 ****** (11.8 bits) 0.9 ******* 0.7 ******* 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CTGATAAG consensus T C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGATAAS MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:4029441-4029521 63 1.86e-05 CCGCCGCCAA CTGATAAG CGCGGCGCCT chrIV:8260967-8261047 47 1.86e-05 GTCTCAATGA CTGATAAG CATGCTGAGT chrII:11966934-11967014 15 1.86e-05 AATCAATTAA CTGATAAG AAAATGAATT chrIV:17245385-17245465 70 1.86e-05 TGTCTATTCA CTGATAAG GTG chrIV:8032285-8032365 43 1.86e-05 GAGACGTAAA CTGATAAG AACGACAACT chrII:13298681-13298761 31 1.86e-05 CTCGAGTGTA CTGATAAG GCACGTGTTA chrV:11975371-11975451 32 1.86e-05 CGATCAAATA CTGATAAG AAGAAAAGGA chrV:2731177-2731257 62 1.86e-05 GACCCGAAAA CTGATAAG ACTCCTGGTC chrII:13299603-13299683 33 1.86e-05 CGCTCACAAA CTGATAAG ACTTGCTCCT chrII:13956679-13956759 11 3.77e-05 AGAGACGGTG CTGATAAC AATTATTTGT chrIII:154342-154422 33 3.77e-05 ACTCTATCAG CTGATAAC CCGTTCTTCC chrIV:9801640-9801720 13 3.77e-05 TTTTCCATAA CTGATAAC GAATGAGGTA chrIV:3158311-3158391 38 3.77e-05 GATTGAGCAG CTGATAAC AGAGAAATGT chrX:978442-978522 10 3.77e-05 CTTGAAGAT CTGATAAC AGTGCCGTTT chrII:5186109-5186189 29 3.77e-05 GAGAGAAAAA CTGATAAC AGTTTAACAC chrV:13262906-13262986 22 3.77e-05 ATACCTCAAA CTGATAAC TGCTCCGTTT chrIV:552038-552118 20 3.77e-05 ATTAAACCTA CTGATAAC AATTATGGAG chrI:8864242-8864322 5 6.37e-05 GAAA TTGATAAG ATAAGGCAAA chrX:7320451-7320531 26 6.37e-05 ACTTGACCAT TTGATAAG AAGCAGCGTC chrII:13468126-13468206 58 6.37e-05 CGTTAATACC TTGATAAG AGTTGTACCA chrV:18577654-18577734 71 6.37e-05 GAAATTGCAC TTGATAAG GG chrX:8932547-8932627 20 6.37e-05 TGGCAGTTCA TTGATAAG ATAAAATGCA chrII:1851881-1851961 2 6.37e-05 A TTGATAAG CCTCGGTATT chrX:14500808-14500888 29 6.37e-05 TTATTACCAC TTGATAAG AACTGATTGT chrII:7075733-7075813 33 9.05e-05 GGTTAAATTA CTGATAAT GAAATTTTGA chrX:6905777-6905857 12 9.05e-05 GTAATGCAAA CTGATAAT ACCCGTTTTT chrIV:11284252-11284332 72 9.05e-05 GAGGTACGTG CTGATAAT G chrIV:12842260-12842340 1 9.05e-05 . CTGATAAT TTCTAGATCT chrX:3403324-3403404 20 9.05e-05 TCAGTTTCAA CTGATAAT GCGGTAAAAG chrV:15666891-15666971 10 1.17e-04 GTGGTTGTC TTGATAAC GTCTATCAGA chrIV:10970534-10970614 35 1.17e-04 GTACACATTT TTGATAAC AAAGTGCTGC chrV:19053456-19053536 4 1.49e-04 CAA GTGATAAG AGGTGCTGGA chrIV:8530769-8530849 38 1.49e-04 ATAGAGAAAG GTGATAAG AATCTTCTGA chrX:6338608-6338688 42 1.49e-04 CCCAAACCCC CCGATAAG ATAACAGTTT chrIII:9289937-9290017 2 1.49e-04 T CCGATAAG GCGCGGCGAC chrV:18346210-18346290 73 1.49e-04 GCGGGGGCTA GTGATAAG chrV:9080099-9080179 43 1.49e-04 GACAGTTTCA CCGATAAG ACGACGGTGT chrX:3153340-3153420 51 1.49e-04 GATTTCAGTG GTGATAAG GAAGCGTATG chrX:13257733-13257813 51 1.93e-04 ATAATTTTAT CTGATAAA CCATCATTCT chrII:13275871-13275951 72 1.93e-04 ATAGGAAATC CTGAAAAG A chrII:9502149-9502229 50 1.93e-04 TTCAATTACA CTGATAAA AAGAAGATAA chrX:6607179-6607259 9 1.93e-04 AAAGCATG CTGATAAA AGCGAGCAGT chrI:9169475-9169555 55 2.62e-04 AACCACCATC TTGATAAT TTTGATTGAT chrX:13368452-13368532 33 2.62e-04 GGTGACTGGG TTGATAAT GATACCGAAA chrII:915397-915477 45 2.62e-04 TGAATTTTTT TTGATAAT GCCAAAATTG chrIV:6552181-6552261 49 2.81e-04 CGTCGTCTTG CTGAAAAC TATCGAAATT chrX:7296502-7296582 6 2.81e-04 TTGTC CTGAAAAC AACCAATTTG chrIV:3613389-3613469 23 2.81e-04 ATTGAAGGTG CTGAAAAC GACGTTTCAG chrV:13085447-13085527 65 3.00e-04 CTTATCATCA TCGATAAG GCTGATTA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGATAAS MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:4029441-4029521 1.9e-05 62_[+2]_10 chrIV:8260967-8261047 1.9e-05 46_[+2]_26 chrII:11966934-11967014 1.9e-05 14_[+2]_58 chrIV:17245385-17245465 1.9e-05 69_[+2]_3 chrIV:8032285-8032365 1.9e-05 42_[+2]_30 chrII:13298681-13298761 1.9e-05 30_[+2]_42 chrV:11975371-11975451 1.9e-05 31_[+2]_41 chrV:2731177-2731257 1.9e-05 61_[+2]_11 chrII:13299603-13299683 1.9e-05 32_[+2]_40 chrII:13956679-13956759 3.8e-05 10_[+2]_62 chrIII:154342-154422 3.8e-05 32_[+2]_40 chrIV:9801640-9801720 3.8e-05 12_[+2]_60 chrIV:3158311-3158391 3.8e-05 37_[+2]_35 chrX:978442-978522 3.8e-05 9_[+2]_63 chrII:5186109-5186189 3.8e-05 28_[+2]_44 chrV:13262906-13262986 3.8e-05 21_[+2]_51 chrIV:552038-552118 3.8e-05 19_[+2]_53 chrI:8864242-8864322 6.4e-05 4_[+2]_68 chrX:7320451-7320531 6.4e-05 25_[+2]_47 chrII:13468126-13468206 6.4e-05 57_[+2]_15 chrV:18577654-18577734 6.4e-05 70_[+2]_2 chrX:8932547-8932627 6.4e-05 19_[+2]_53 chrII:1851881-1851961 6.4e-05 1_[+2]_71 chrX:14500808-14500888 6.4e-05 28_[+2]_44 chrII:7075733-7075813 9e-05 32_[+2]_40 chrX:6905777-6905857 9e-05 11_[+2]_61 chrIV:11284252-11284332 9e-05 71_[+2]_1 chrIV:12842260-12842340 9e-05 [+2]_72 chrX:3403324-3403404 9e-05 19_[+2]_53 chrV:15666891-15666971 0.00012 9_[+2]_63 chrIV:10970534-10970614 0.00012 34_[+2]_38 chrV:19053456-19053536 0.00015 3_[+2]_69 chrIV:8530769-8530849 0.00015 37_[+2]_35 chrX:6338608-6338688 0.00015 41_[+2]_31 chrIII:9289937-9290017 0.00015 1_[+2]_71 chrV:18346210-18346290 0.00015 72_[+2] chrV:9080099-9080179 0.00015 42_[+2]_30 chrX:3153340-3153420 0.00015 50_[+2]_22 chrX:13257733-13257813 0.00019 50_[+2]_22 chrII:13275871-13275951 0.00019 71_[+2]_1 chrII:9502149-9502229 0.00019 49_[+2]_23 chrX:6607179-6607259 0.00019 8_[+2]_64 chrI:9169475-9169555 0.00026 54_[+2]_18 chrX:13368452-13368532 0.00026 32_[+2]_40 chrII:915397-915477 0.00026 44_[+2]_28 chrIV:6552181-6552261 0.00028 48_[+2]_24 chrX:7296502-7296582 0.00028 5_[+2]_67 chrIV:3613389-3613469 0.00028 22_[+2]_50 chrV:13085447-13085527 0.0003 64_[+2]_8 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGATAAS MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTGATAAS width=8 seqs=49 chrIV:4029441-4029521 ( 63) CTGATAAG 1 chrIV:8260967-8261047 ( 47) CTGATAAG 1 chrII:11966934-11967014 ( 15) CTGATAAG 1 chrIV:17245385-17245465 ( 70) CTGATAAG 1 chrIV:8032285-8032365 ( 43) CTGATAAG 1 chrII:13298681-13298761 ( 31) CTGATAAG 1 chrV:11975371-11975451 ( 32) CTGATAAG 1 chrV:2731177-2731257 ( 62) CTGATAAG 1 chrII:13299603-13299683 ( 33) CTGATAAG 1 chrII:13956679-13956759 ( 11) CTGATAAC 1 chrIII:154342-154422 ( 33) CTGATAAC 1 chrIV:9801640-9801720 ( 13) CTGATAAC 1 chrIV:3158311-3158391 ( 38) CTGATAAC 1 chrX:978442-978522 ( 10) CTGATAAC 1 chrII:5186109-5186189 ( 29) CTGATAAC 1 chrV:13262906-13262986 ( 22) CTGATAAC 1 chrIV:552038-552118 ( 20) CTGATAAC 1 chrI:8864242-8864322 ( 5) TTGATAAG 1 chrX:7320451-7320531 ( 26) TTGATAAG 1 chrII:13468126-13468206 ( 58) TTGATAAG 1 chrV:18577654-18577734 ( 71) TTGATAAG 1 chrX:8932547-8932627 ( 20) TTGATAAG 1 chrII:1851881-1851961 ( 2) TTGATAAG 1 chrX:14500808-14500888 ( 29) TTGATAAG 1 chrII:7075733-7075813 ( 33) CTGATAAT 1 chrX:6905777-6905857 ( 12) CTGATAAT 1 chrIV:11284252-11284332 ( 72) CTGATAAT 1 chrIV:12842260-12842340 ( 1) CTGATAAT 1 chrX:3403324-3403404 ( 20) CTGATAAT 1 chrV:15666891-15666971 ( 10) TTGATAAC 1 chrIV:10970534-10970614 ( 35) TTGATAAC 1 chrV:19053456-19053536 ( 4) GTGATAAG 1 chrIV:8530769-8530849 ( 38) GTGATAAG 1 chrX:6338608-6338688 ( 42) CCGATAAG 1 chrIII:9289937-9290017 ( 2) CCGATAAG 1 chrV:18346210-18346290 ( 73) GTGATAAG 1 chrV:9080099-9080179 ( 43) CCGATAAG 1 chrX:3153340-3153420 ( 51) GTGATAAG 1 chrX:13257733-13257813 ( 51) CTGATAAA 1 chrII:13275871-13275951 ( 72) CTGAAAAG 1 chrII:9502149-9502229 ( 50) CTGATAAA 1 chrX:6607179-6607259 ( 9) CTGATAAA 1 chrI:9169475-9169555 ( 55) TTGATAAT 1 chrX:13368452-13368532 ( 33) TTGATAAT 1 chrII:915397-915477 ( 45) TTGATAAT 1 chrIV:6552181-6552261 ( 49) CTGAAAAC 1 chrX:7296502-7296582 ( 6) CTGAAAAC 1 chrIV:3613389-3613469 ( 23) CTGAAAAC 1 chrV:13085447-13085527 ( 65) TCGATAAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGATAAS MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.1364 E= 4.2e-013 -1226 163 -133 -16 -1226 -137 -1226 164 -1226 -1226 228 -1226 180 -1226 -1226 -1226 -182 -1226 -1226 164 180 -1226 -1226 -1226 180 -1226 -1226 -1226 -223 33 131 -86 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGATAAS MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 49 E= 4.2e-013 0.000000 0.653061 0.081633 0.265306 0.000000 0.081633 0.000000 0.918367 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.081633 0.000000 0.000000 0.918367 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.061224 0.265306 0.510204 0.163265 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGATAAS MEME-2 regular expression -------------------------------------------------------------------------------- [CT]TGATAA[GC] -------------------------------------------------------------------------------- Time 10.55 secs. ******************************************************************************** ******************************************************************************** MOTIF GMCGCCAA MEME-3 width = 8 sites = 10 llr = 103 E-value = 1.0e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GMCGCCAA MEME-3 Description -------------------------------------------------------------------------------- Simplified A :3::::aa pos.-specific C :6a:8a:: probability G a1:a:::: matrix T ::::2::: bits 2.3 * ** * 2.1 * ** * 1.8 * ** *** 1.6 * ** *** Relative 1.4 * ****** Entropy 1.1 * ****** (14.9 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GCCGCCAA consensus A T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GMCGCCAA MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:4029441-4029521 55 6.91e-06 TCGGCCTCCC GCCGCCAA CTGATAAGCG chrX:5106491-5106571 20 6.91e-06 TGTAGGGGCT GCCGCCAA AACACCAATC chrIII:9289937-9290017 28 6.91e-06 ACCCAACATC GCCGCCAA CAAATTATTT chrX:4794159-4794239 50 6.91e-06 ACCATTCTCT GCCGCCAA TCCTCATAGA chrI:1914037-1914117 64 1.63e-05 GTTTGGACGC GACGCCAA CTGTTTTCT chrV:6614520-6614600 73 1.63e-05 TTTAATCCCG GACGCCAA chrX:6607179-6607259 64 1.63e-05 GCTGACCGTC GACGCCAA CATGGTAGG chrV:12003226-12003306 43 2.60e-05 CGGCCTTGTC GCCGTCAA CGCCTACAAT chrV:19158826-19158906 42 2.60e-05 TGGGGTTCTG GCCGTCAA ATAAACATTT chrIV:14883929-14884009 17 3.27e-05 ATCCCTGCTC GGCGCCAA TTCCTGTCTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GMCGCCAA MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:4029441-4029521 6.9e-06 54_[+3]_18 chrX:5106491-5106571 6.9e-06 19_[+3]_53 chrIII:9289937-9290017 6.9e-06 27_[+3]_45 chrX:4794159-4794239 6.9e-06 49_[+3]_23 chrI:1914037-1914117 1.6e-05 63_[+3]_9 chrV:6614520-6614600 1.6e-05 72_[+3] chrX:6607179-6607259 1.6e-05 63_[+3]_9 chrV:12003226-12003306 2.6e-05 42_[+3]_30 chrV:19158826-19158906 2.6e-05 41_[+3]_31 chrIV:14883929-14884009 3.3e-05 16_[+3]_56 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GMCGCCAA MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GMCGCCAA width=8 seqs=10 chrIV:4029441-4029521 ( 55) GCCGCCAA 1 chrX:5106491-5106571 ( 20) GCCGCCAA 1 chrIII:9289937-9290017 ( 28) GCCGCCAA 1 chrX:4794159-4794239 ( 50) GCCGCCAA 1 chrI:1914037-1914117 ( 64) GACGCCAA 1 chrV:6614520-6614600 ( 73) GACGCCAA 1 chrX:6607179-6607259 ( 64) GACGCCAA 1 chrV:12003226-12003306 ( 43) GCCGTCAA 1 chrV:19158826-19158906 ( 42) GCCGTCAA 1 chrIV:14883929-14884009 ( 17) GGCGCCAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GMCGCCAA MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.0846 E= 1.0e+003 -997 -997 228 -997 6 150 -104 -997 -997 224 -997 -997 -997 -997 228 -997 -997 192 -997 -56 -997 224 -997 -997 180 -997 -997 -997 180 -997 -997 -997 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GMCGCCAA MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 1.0e+003 0.000000 0.000000 1.000000 0.000000 0.300000 0.600000 0.100000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.800000 0.000000 0.200000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GMCGCCAA MEME-3 regular expression -------------------------------------------------------------------------------- G[CA]CG[CT]CAA -------------------------------------------------------------------------------- Time 14.13 secs. ******************************************************************************** ******************************************************************************** MOTIF GGGGGTGG MEME-4 width = 8 sites = 2 llr = 25 E-value = 1.1e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGGGGTGG MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C :::::::: probability G aaaaa:aa matrix T :::::a:: bits 2.3 ***** ** 2.1 ***** ** 1.8 ******** 1.6 ******** Relative 1.4 ******** Entropy 1.1 ******** (17.8 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GGGGGTGG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGTGG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:10142108-10142188 31 4.50e-06 AATCATTTGT GGGGGTGG GCTCCACACA chrIV:6880569-6880649 41 4.50e-06 ATGATTATAT GGGGGTGG AGCCTTTGTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGTGG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:10142108-10142188 4.5e-06 30_[+4]_42 chrIV:6880569-6880649 4.5e-06 40_[+4]_32 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGTGG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGGGGTGG width=8 seqs=2 chrX:10142108-10142188 ( 31) GGGGGTGG 1 chrIV:6880569-6880649 ( 41) GGGGGTGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGTGG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 13.1555 E= 1.1e+004 -765 -765 228 -765 -765 -765 228 -765 -765 -765 228 -765 -765 -765 228 -765 -765 -765 228 -765 -765 -765 -765 175 -765 -765 228 -765 -765 -765 228 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGTGG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 1.1e+004 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGTGG MEME-4 regular expression -------------------------------------------------------------------------------- GGGGGTGG -------------------------------------------------------------------------------- Time 17.66 secs. ******************************************************************************** ******************************************************************************** MOTIF GCGGGGGS MEME-5 width = 8 sites = 2 llr = 24 E-value = 2.2e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCGGGGGS MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C :a:::::5 probability G a:aaaaa5 matrix T :::::::: bits 2.3 ******* 2.1 ******* 1.8 ******* 1.6 ******* Relative 1.4 ******** Entropy 1.1 ******** (17.2 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GCGGGGGC consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGGGGGS MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:18346210-18346290 63 6.51e-06 TGCGGAACGC GCGGGGGC TAGTGATAAG chrV:17659402-17659482 14 6.51e-06 TCTATAAATT GCGGGGGG TACCCCAACA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGGGGGS MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:18346210-18346290 6.5e-06 62_[+5]_10 chrV:17659402-17659482 6.5e-06 13_[+5]_59 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGGGGGS MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCGGGGGS width=8 seqs=2 chrV:18346210-18346290 ( 63) GCGGGGGC 1 chrV:17659402-17659482 ( 14) GCGGGGGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGGGGGS MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 13.1555 E= 2.2e+004 -765 -765 228 -765 -765 224 -765 -765 -765 -765 228 -765 -765 -765 228 -765 -765 -765 228 -765 -765 -765 228 -765 -765 -765 228 -765 -765 124 128 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGGGGGS MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 2.2e+004 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.500000 0.500000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGGGGGS MEME-5 regular expression -------------------------------------------------------------------------------- GCGGGGG[CG] -------------------------------------------------------------------------------- Time 21.17 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrII:13299603-13299683 6.33e-02 32_[+2(1.86e-05)]_40 chrII:15251781-15251861 4.29e-01 45_[+3(9.92e-05)]_27 chrV:6523014-6523094 6.13e-01 80 chrV:7748116-7748196 3.03e-01 80 chrV:15298744-15298824 5.73e-01 80 chrIV:552038-552118 4.56e-02 19_[+2(3.77e-05)]_53 chrX:2422279-2422359 6.54e-01 80 chrII:9740794-9740874 5.70e-01 80 chrII:5185126-5185206 9.29e-01 80 chrIII:12318952-12319032 3.53e-02 52_[+1(4.86e-05)]_20 chrIII:5146920-5147000 1.18e-02 80 chrV:11009246-11009326 9.09e-01 80 chrV:1456803-1456883 3.29e-01 80 chrIV:3613389-3613469 5.65e-03 80 chrX:3403324-3403404 1.31e-01 19_[+2(9.05e-05)]_53 chrII:13304520-13304600 9.99e-01 80 chrX:6607179-6607259 1.00e-02 63_[+3(1.63e-05)]_9 chrV:5284433-5284513 1.00e+00 80 chrX:10480748-10480828 3.34e-01 80 chrV:10334046-10334126 9.35e-03 80 chrII:7277376-7277456 4.56e-02 39_[+1(2.83e-05)]_33 chrI:3834210-3834290 8.87e-01 80 chrV:10802205-10802285 7.57e-01 80 chrX:7296502-7296582 1.20e-01 80 chrIV:6880569-6880649 1.22e-04 40_[+4(4.50e-06)]_32 chrII:12052254-12052334 2.09e-01 80 chrX:14071180-14071260 9.51e-01 80 chrIII:6179217-6179297 1.40e-01 80 chrV:2731177-2731257 9.01e-06 14_[+4(4.50e-06)]_39_[+2(1.86e-05)]_\ 11 chrX:12869468-12869548 7.30e-01 80 chrV:2308438-2308518 3.04e-01 80 chrX:13339317-13339397 2.43e-01 80 chrV:10855551-10855631 4.15e-01 80 chrV:15354787-15354867 3.60e-02 24_[+1(4.86e-05)]_48 chrV:11975371-11975451 1.49e-01 31_[+2(1.86e-05)]_41 chrI:2688152-2688232 1.54e-01 80 chrIV:9682663-9682743 6.26e-01 80 chrIV:2709772-2709852 3.13e-01 80 chrV:13372938-13373018 6.07e-01 80 chrII:8388232-8388312 6.82e-01 80 chrV:17721920-17722000 2.51e-02 15_[+1(4.86e-05)]_57 chrV:2872297-2872377 5.13e-01 80 chrV:7744201-7744281 1.53e-04 3_[+1(7.61e-05)]_69 chrX:3290231-3290311 7.42e-01 80 chrIV:10970534-10970614 1.71e-02 14_[+1(4.86e-05)]_58 chrII:915397-915477 2.36e-02 66_[+1(7.61e-05)]_6 chrX:16798765-16798845 4.12e-01 80 chrIV:3900017-3900097 5.98e-02 1_[+1(4.86e-05)]_71 chrII:13298681-13298761 7.52e-04 30_[+2(1.86e-05)]_5_[+1(7.61e-05)]_\ 29 chrX:11962589-11962669 4.30e-01 80 chrV:13262906-13262986 8.68e-02 21_[+2(3.77e-05)]_51 chrIV:7183015-7183095 6.49e-01 80 chrIV:12601097-12601177 1.29e-01 80 chrIV:8032285-8032365 2.64e-02 42_[+2(1.86e-05)]_30 chrX:13368452-13368532 4.57e-01 80 chrII:9502149-9502229 4.91e-02 80 chrX:6456804-6456884 8.99e-01 80 chrX:14500808-14500888 7.29e-02 28_[+2(6.37e-05)]_44 chrV:8768627-8768707 9.10e-03 12_[+1(2.83e-05)]_60 chrII:1851881-1851961 9.00e-02 1_[+2(6.37e-05)]_71 chrV:11069447-11069527 9.63e-01 80 chrV:8651521-8651601 4.56e-01 80 chrII:5104278-5104358 8.24e-01 80 chrV:6524899-6524979 8.49e-02 80 chrII:7287309-7287389 8.58e-01 80 chrV:8769320-8769400 9.83e-01 80 chrX:4794159-4794239 4.33e-02 49_[+3(6.91e-06)]_23 chrV:10561742-10561822 3.20e-01 80 chrX:4971132-4971212 7.94e-01 80 chrII:7060365-7060445 6.51e-01 80 chrII:6328879-6328959 3.62e-01 80 chrIV:12842260-12842340 1.25e-01 [+2(9.05e-05)]_72 chrX:3572716-3572796 9.69e-01 80 chrII:9891984-9892064 7.95e-01 80 chrIV:12689857-12689937 2.00e-01 80 chrI:15040898-15040978 8.50e-01 80 chrII:5186109-5186189 8.17e-02 28_[+2(3.77e-05)]_44 chrII:3786658-3786738 9.77e-02 24_[+1(4.86e-05)]_11_[+1(4.86e-05)]_\ 29 chrX:978442-978522 1.19e-02 9_[+2(3.77e-05)]_26_[+1(7.61e-05)]_\ 29 chrV:6243433-6243513 6.73e-03 80 chrIV:10256438-10256518 7.20e-01 80 chrV:7742724-7742804 9.90e-01 80 chrIV:3158311-3158391 1.01e-01 37_[+2(3.77e-05)]_35 chrV:6665811-6665891 2.91e-01 80 chrX:3153340-3153420 1.91e-01 80 chrIII:6850376-6850456 1.56e-01 80 chrI:9169475-9169555 1.98e-01 80 chrV:10693929-10694009 3.80e-01 80 chrIV:9801640-9801720 2.12e-01 12_[+2(3.77e-05)]_60 chrII:6701676-6701756 7.67e-01 80 chrX:8718929-8719009 8.11e-01 80 chrII:5202081-5202161 9.11e-01 80 chrX:7725796-7725876 6.20e-01 80 chrX:2865273-2865353 1.46e-01 80 chrIV:14883929-14884009 2.22e-01 16_[+3(3.27e-05)]_56 chrI:6582718-6582798 4.47e-01 80 chrX:16192773-16192853 7.21e-01 80 chrV:6413260-6413340 9.15e-01 80 chrI:6294109-6294189 7.14e-01 80 chrV:9080099-9080179 9.10e-03 80 chrII:8016287-8016367 1.62e-01 30_[+1(9.57e-05)]_42 chrV:13212782-13212862 8.54e-01 80 chrI:11690556-11690636 9.16e-01 80 chrV:16046015-16046095 7.39e-02 80 chrII:4769193-4769273 4.13e-01 80 chrV:19205576-19205656 7.25e-01 80 chrV:6614520-6614600 1.86e-02 72_[+3(1.63e-05)] chrV:10878299-10878379 2.45e-03 21_[+1(2.83e-05)]_51 chrII:1103854-1103934 2.96e-02 80 chrIII:1214829-1214909 1.42e-01 47_[+1(2.83e-05)]_25 chrV:3632480-3632560 5.93e-02 40_[+1(9.57e-05)]_32 chrIV:8528508-8528588 1.32e-01 54_[+1(2.83e-05)]_18 chrIII:5814965-5815045 9.23e-01 80 chrX:7989608-7989688 8.36e-01 80 chrX:13159130-13159210 3.95e-01 80 chrI:9385964-9386044 1.76e-01 80 chrV:10801310-10801390 1.34e-01 13_[+1(2.83e-05)]_59 chrX:14539659-14539739 1.90e-01 80 chrX:2014660-2014740 8.80e-01 80 chrI:1914037-1914117 1.29e-02 63_[+3(1.63e-05)]_9 chrV:6221613-6221693 1.66e-01 80 chrIV:11284252-11284332 1.96e-02 71_[+2(9.05e-05)]_1 chrX:13420062-13420142 7.12e-02 80 chrX:3832239-3832319 2.22e-01 80 chrV:17659402-17659482 3.80e-05 13_[+5(6.51e-06)]_30_[+1(2.83e-05)]_\ 13_[+1(2.83e-05)] chrX:5839766-5839846 2.70e-01 80 chrV:4024941-4025021 2.48e-02 80 chrIII:154342-154422 1.40e-02 3_[+1(9.57e-05)]_21_[+2(3.77e-05)]_\ 40 chrX:17636438-17636518 3.87e-01 80 chrII:9683648-9683728 9.24e-01 80 chrX:9850615-9850695 3.66e-01 80 chrV:18346210-18346290 1.65e-05 62_[+5(6.51e-06)]_10 chrII:2378699-2378779 1.56e-01 41_[+1(4.86e-05)]_31 chrX:1272659-1272739 6.82e-01 80 chrX:6905777-6905857 4.94e-02 11_[+2(9.05e-05)]_61 chrV:15888000-15888080 2.05e-01 80 chrII:13956679-13956759 8.74e-02 10_[+2(3.77e-05)]_62 chrIV:3612071-3612151 7.99e-01 80 chrII:7238303-7238383 6.60e-01 80 chrII:7075733-7075813 2.26e-01 32_[+2(9.05e-05)]_40 chrIII:9289937-9290017 8.00e-04 27_[+3(6.91e-06)]_45 chrIII:10533469-10533549 8.31e-01 80 chrX:8022852-8022932 2.25e-01 80 chrX:10142108-10142188 5.04e-03 30_[+4(4.50e-06)]_42 chrIV:17245385-17245465 8.15e-02 69_[+2(1.86e-05)]_3 chrII:11966934-11967014 1.62e-01 14_[+2(1.86e-05)]_58 chrX:5346419-5346499 1.78e-01 80 chrIV:8151868-8151948 6.72e-01 80 chrV:19512908-19512988 6.65e-01 80 chrX:5106491-5106571 8.15e-03 19_[+3(6.91e-06)]_53 chrX:2569245-2569325 3.15e-01 80 chrX:7200537-7200617 5.26e-01 80 chrV:8661780-8661860 7.21e-01 80 chrX:3824045-3824125 4.01e-01 80 chrV:19158826-19158906 4.49e-03 41_[+3(2.60e-05)]_31 chrX:8932547-8932627 8.21e-02 19_[+2(6.37e-05)]_53 chrV:12638139-12638219 6.56e-01 80 chrX:9676236-9676316 2.21e-01 80 chrIV:17263851-17263931 1.53e-01 10_[+1(2.83e-05)]_62 chrIV:12834065-12834145 1.26e-01 80 chrI:11746902-11746982 6.00e-01 80 chrX:5213711-5213791 1.51e-01 80 chrX:1010891-1010971 9.25e-01 80 chrX:13767418-13767498 4.85e-01 80 chrIII:9326712-9326792 1.88e-01 43_[+1(2.83e-05)]_29 chrIII:3520496-3520576 7.94e-01 80 chrII:7290074-7290154 9.23e-01 80 chrII:14602544-14602624 5.09e-01 80 chrV:13716729-13716809 6.85e-01 80 chrIII:10534280-10534360 1.86e-01 48_[+1(9.57e-05)]_24 chrV:12935102-12935182 5.91e-01 80 chrV:3777065-3777145 3.60e-01 80 chrX:6932492-6932572 4.25e-01 80 chrV:9489552-9489632 5.91e-01 80 chrV:4186569-4186649 5.12e-01 80 chrV:10968172-10968252 9.86e-01 80 chrII:10447536-10447616 1.34e-02 19_[+1(2.83e-05)]_53 chrI:5037463-5037543 4.97e-02 25_[+1(2.83e-05)]_47 chrV:8425279-8425359 4.39e-01 80 chrX:13528757-13528837 2.21e-01 80 chrX:8719984-8720064 9.97e-01 80 chrX:14538902-14538982 3.04e-01 80 chrV:19527722-19527802 4.18e-01 80 chrX:11481024-11481104 3.78e-01 65_[+1(9.57e-05)]_7 chrIV:16181011-16181091 1.72e-01 61_[+1(2.83e-05)]_11 chrV:20412440-20412520 3.65e-01 80 chrV:18577654-18577734 1.34e-02 33_[+3(4.60e-05)]_29_[+2(6.37e-05)]_\ 2 chrI:6578594-6578674 2.68e-01 80 chrIV:13919399-13919479 4.07e-01 80 chrI:9047092-9047172 3.83e-03 65_[+1(2.83e-05)]_7 chrIV:297064-297144 9.46e-01 80 chrX:6338608-6338688 1.34e-02 80 chrX:17482061-17482141 9.91e-01 80 chrIV:6552181-6552261 3.60e-01 80 chrII:13468126-13468206 1.74e-02 57_[+2(6.37e-05)]_15 chrX:6536811-6536891 2.67e-01 80 chrX:8069444-8069524 6.21e-01 80 chrII:12353952-12354032 2.40e-02 80 chrIII:10151899-10151979 9.72e-01 80 chrIV:4408874-4408954 6.75e-01 80 chrX:14502291-14502371 6.53e-01 80 chrX:15076318-15076398 4.28e-01 80 chrV:8270105-8270185 6.96e-01 80 chrI:2686354-2686434 9.90e-01 80 chrIV:6328071-6328151 4.52e-01 80 chrII:13275871-13275951 1.18e-01 80 chrV:15666891-15666971 2.08e-01 80 chrII:8020728-8020808 8.96e-01 80 chrX:7320451-7320531 1.02e-01 25_[+2(6.37e-05)]_47 chrII:11150043-11150123 1.87e-01 80 chrII:9501072-9501152 3.35e-03 37_[+1(2.83e-05)]_7_[+3(5.54e-05)]_\ 20 chrX:5523029-5523109 8.64e-01 80 chrV:20712416-20712496 9.27e-01 80 chrV:13085447-13085527 8.36e-03 53_[+1(2.83e-05)]_19 chrIII:7453784-7453864 9.37e-01 80 chrII:14536212-14536292 9.60e-02 80 chrV:6276340-6276420 1.46e-01 80 chrX:16725080-16725160 3.66e-01 80 chrV:12003226-12003306 8.24e-02 42_[+3(2.60e-05)]_30 chrII:10389205-10389285 3.81e-01 80 chrIII:6361698-6361778 7.50e-01 80 chrIV:8260967-8261047 1.88e-02 46_[+2(1.86e-05)]_26 chrI:8864242-8864322 1.96e-01 4_[+2(6.37e-05)]_68 chrIII:9060408-9060488 9.86e-01 80 chrII:13006430-13006510 9.74e-01 80 chrII:8625322-8625402 1.69e-01 80 chrIV:8530769-8530849 3.69e-01 80 chrIV:12866081-12866161 3.47e-01 80 chrIV:15187733-15187813 9.26e-01 80 chrX:9214123-9214203 9.98e-01 80 chrIV:8266593-8266673 3.50e-01 80 chrV:20717187-20717267 9.79e-01 80 chrII:9622202-9622282 9.81e-01 80 chrX:13257733-13257813 1.01e-01 80 chrX:13221484-13221564 3.04e-01 80 chrX:7962323-7962403 8.20e-01 80 chrX:14783624-14783704 7.23e-01 80 chrI:946111-946191 2.79e-01 80 chrV:5271601-5271681 5.94e-01 80 chrIII:1279305-1279385 4.76e-01 80 chrIV:10631054-10631134 1.21e-01 39_[+1(2.83e-05)]_33 chrII:9791397-9791477 7.58e-01 80 chrIII:4496193-4496273 1.21e-01 80 chrI:7857867-7857947 2.42e-01 80 chrIV:4029441-4029521 1.70e-04 54_[+3(6.91e-06)]_[+2(1.86e-05)]_10 chrX:6609448-6609528 1.03e-02 80 chrIII:12839180-12839260 1.14e-02 32_[+4(1.52e-05)]_[+4(1.52e-05)]_32 chrII:3246034-3246114 1.06e-01 18_[+1(4.86e-05)]_54 chrI:10752130-10752210 4.59e-01 80 chrV:19053456-19053536 3.22e-03 57_[+1(2.83e-05)]_15 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n08.farnam.hpc.yale.internal ********************************************************************************