******************************************************************************** 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/eor-1.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrIII:8796558-8796638 1.0000 80 chrM:6786-6866 1.0000 80 chrM:10506-10586 1.0000 80 chrM:13602-13682 1.0000 80 chrM:13031-13111 1.0000 80 chrIV:16382809-16382889 1.0000 80 chrM:6541-6621 1.0000 80 chrIII:13779000-13779080 1.0000 80 chrM:12142-12222 1.0000 80 chrM:4069-4149 1.0000 80 chrM:460-540 1.0000 80 chrM:12724-12804 1.0000 80 chrM:2637-2717 1.0000 80 chrV:5964482-5964562 1.0000 80 chrM:9746-9826 1.0000 80 chrM:11644-11724 1.0000 80 chrM:7802-7882 1.0000 80 chrX:6410909-6410989 1.0000 80 chrM:5534-5614 1.0000 80 chrX:16929319-16929399 1.0000 80 chrM:3870-3950 1.0000 80 chrM:258-338 1.0000 80 chrIV:11355728-11355808 1.0000 80 chrM:8555-8635 1.0000 80 chrIV:10503369-10503449 1.0000 80 chrM:1543-1623 1.0000 80 chrX:4904434-4904514 1.0000 80 chrV:6225409-6225489 1.0000 80 chrM:5750-5830 1.0000 80 chrIII:9663072-9663152 1.0000 80 chrI:9428530-9428610 1.0000 80 chrIII:5239936-5240016 1.0000 80 chrIII:10852374-10852454 1.0000 80 chrIV:11962282-11962362 1.0000 80 chrI:7478248-7478328 1.0000 80 chrX:15630595-15630675 1.0000 80 chrX:5804190-5804270 1.0000 80 chrI:9854911-9854991 1.0000 80 chrX:6203906-6203986 1.0000 80 chrV:1805106-1805186 1.0000 80 chrM:9388-9468 1.0000 80 chrV:1196149-1196229 1.0000 80 chrIV:12827877-12827957 1.0000 80 chrV:5851166-5851246 1.0000 80 chrX:2972092-2972172 1.0000 80 chrIII:8688438-8688518 1.0000 80 chrX:16611080-16611160 1.0000 80 chrI:9446138-9446218 1.0000 80 chrII:8919377-8919457 1.0000 80 chrIII:12614785-12614865 1.0000 80 chrM:8003-8083 1.0000 80 chrIII:6280709-6280789 1.0000 80 chrX:6751015-6751095 1.0000 80 chrX:8018330-8018410 1.0000 80 chrV:18704754-18704834 1.0000 80 chrI:7130234-7130314 1.0000 80 chrIII:5258831-5258911 1.0000 80 chrIV:11480545-11480625 1.0000 80 chrI:7159453-7159533 1.0000 80 chrII:10546527-10546607 1.0000 80 chrX:7982455-7982535 1.0000 80 chrM:1309-1389 1.0000 80 chrM:3031-3111 1.0000 80 chrIV:10252881-10252961 1.0000 80 chrII:6716613-6716693 1.0000 80 chrM:6991-7071 1.0000 80 chrII:12768459-12768539 1.0000 80 chrIV:828516-828596 1.0000 80 chrIV:2349086-2349166 1.0000 80 chrX:16727338-16727418 1.0000 80 chrI:8014066-8014146 1.0000 80 chrIV:9532539-9532619 1.0000 80 chrIV:16415748-16415828 1.0000 80 chrI:3823054-3823134 1.0000 80 chrX:16930714-16930794 1.0000 80 chrIII:7114152-7114232 1.0000 80 chrV:15082453-15082533 1.0000 80 chrV:10870509-10870589 1.0000 80 chrX:16931211-16931291 1.0000 80 chrV:10477285-10477365 1.0000 80 chrX:8022403-8022483 1.0000 80 chrV:17921574-17921654 1.0000 80 chrIV:15723036-15723116 1.0000 80 chrM:1051-1131 1.0000 80 chrV:13371466-13371546 1.0000 80 chrI:7021112-7021192 1.0000 80 chrM:2115-2195 1.0000 80 chrII:7326088-7326168 1.0000 80 chrI:3829259-3829339 1.0000 80 chrX:1504937-1505017 1.0000 80 chrIV:14033226-14033306 1.0000 80 chrX:8021541-8021621 1.0000 80 chrI:6574597-6574677 1.0000 80 chrIII:8443928-8444008 1.0000 80 chrX:16931723-16931803 1.0000 80 chrIV:6837338-6837418 1.0000 80 chrI:11578376-11578456 1.0000 80 chrI:6091940-6092020 1.0000 80 chrX:13349617-13349697 1.0000 80 chrV:11987397-11987477 1.0000 80 chrIV:3725991-3726071 1.0000 80 chrI:1273920-1274000 1.0000 80 chrI:13653911-13653991 1.0000 80 chrX:10687849-10687929 1.0000 80 chrI:11934281-11934361 1.0000 80 chrIII:9808239-9808319 1.0000 80 chrV:12549217-12549297 1.0000 80 chrM:11027-11107 1.0000 80 chrI:5377000-5377080 1.0000 80 chrM:4630-4710 1.0000 80 chrV:10342837-10342917 1.0000 80 chrII:9591233-9591313 1.0000 80 chrV:6229629-6229709 1.0000 80 chrIII:1601083-1601163 1.0000 80 chrX:13514525-13514605 1.0000 80 chrII:13369377-13369457 1.0000 80 chrI:7494455-7494535 1.0000 80 chrV:2127172-2127252 1.0000 80 chrII:2971895-2971975 1.0000 80 chrII:6913440-6913520 1.0000 80 chrII:12678758-12678838 1.0000 80 chrI:2096982-2097062 1.0000 80 chrIV:12559116-12559196 1.0000 80 chrIII:13061263-13061343 1.0000 80 chrX:14147072-14147152 1.0000 80 chrIII:3324088-3324168 1.0000 80 chrI:6562391-6562471 1.0000 80 chrII:11761989-11762069 1.0000 80 chrI:5379889-5379969 1.0000 80 chrIII:13466402-13466482 1.0000 80 chrIV:10483871-10483951 1.0000 80 chrI:12968626-12968706 1.0000 80 chrV:18981163-18981243 1.0000 80 chrX:6750233-6750313 1.0000 80 chrII:10552154-10552234 1.0000 80 chrX:8232155-8232235 1.0000 80 chrII:14399833-14399913 1.0000 80 chrX:4142266-4142346 1.0000 80 chrIII:9051451-9051531 1.0000 80 chrIV:6839170-6839250 1.0000 80 chrIV:10937033-10937113 1.0000 80 chrV:8936257-8936337 1.0000 80 chrIII:8447113-8447193 1.0000 80 chrX:6749608-6749688 1.0000 80 chrIII:7154025-7154105 1.0000 80 chrX:6743888-6743968 1.0000 80 chrM:6155-6235 1.0000 80 chrIV:2602139-2602219 1.0000 80 chrIII:11946496-11946576 1.0000 80 chrV:5592478-5592558 1.0000 80 chrIII:12273791-12273871 1.0000 80 chrI:13756525-13756605 1.0000 80 chrIV:15472550-15472630 1.0000 80 chrII:2974040-2974120 1.0000 80 chrIV:15471569-15471649 1.0000 80 chrV:6224546-6224626 1.0000 80 chrX:15607622-15607702 1.0000 80 chrX:6742202-6742282 1.0000 80 chrIV:8973692-8973772 1.0000 80 chrI:8786881-8786961 1.0000 80 chrIII:12598664-12598744 1.0000 80 chrII:13872632-13872712 1.0000 80 chrIV:10935532-10935612 1.0000 80 chrIII:8307536-8307616 1.0000 80 chrI:12039791-12039871 1.0000 80 chrX:2364841-2364921 1.0000 80 chrV:11824332-11824412 1.0000 80 chrII:6589058-6589138 1.0000 80 chrIV:10936201-10936281 1.0000 80 chrII:11545459-11545539 1.0000 80 chrIII:355017-355097 1.0000 80 chrI:14756755-14756835 1.0000 80 chrIV:2676419-2676499 1.0000 80 chrI:8133736-8133816 1.0000 80 chrIV:7047827-7047907 1.0000 80 chrI:8411334-8411414 1.0000 80 chrX:1344985-1345065 1.0000 80 chrX:16056531-16056611 1.0000 80 chrII:12678029-12678109 1.0000 80 chrIV:2219631-2219711 1.0000 80 chrX:11605820-11605900 1.0000 80 chrV:9546966-9547046 1.0000 80 chrX:9091612-9091692 1.0000 80 chrIV:12391343-12391423 1.0000 80 chrV:19522923-19523003 1.0000 80 chrX:12363142-12363222 1.0000 80 chrV:12318202-12318282 1.0000 80 chrIII:12612576-12612656 1.0000 80 chrII:14405289-14405369 1.0000 80 chrI:13663385-13663465 1.0000 80 chrX:6593523-6593603 1.0000 80 chrIV:6321847-6321927 1.0000 80 chrII:12102577-12102657 1.0000 80 chrV:14200130-14200210 1.0000 80 chrV:14685702-14685782 1.0000 80 chrX:2242818-2242898 1.0000 80 chrIII:13070573-13070653 1.0000 80 chrIV:14767856-14767936 1.0000 80 chrIII:640451-640531 1.0000 80 chrX:16682054-16682134 1.0000 80 chrV:15085570-15085650 1.0000 80 chrIII:783455-783535 1.0000 80 chrV:773425-773505 1.0000 80 chrI:3516271-3516351 1.0000 80 chrI:14469315-14469395 1.0000 80 chrII:7152123-7152203 1.0000 80 chrIV:192199-192279 1.0000 80 chrIII:13062423-13062503 1.0000 80 chrX:9467789-9467869 1.0000 80 chrIV:17278508-17278588 1.0000 80 chrX:9465818-9465898 1.0000 80 chrIV:3384739-3384819 1.0000 80 chrX:7068737-7068817 1.0000 80 chrX:8019938-8020018 1.0000 80 chrI:13373037-13373117 1.0000 80 chrX:489927-490007 1.0000 80 chrX:1880822-1880902 1.0000 80 chrIII:6421296-6421376 1.0000 80 chrIII:9546109-9546189 1.0000 80 chrV:1151441-1151521 1.0000 80 chrX:11937474-11937554 1.0000 80 chrX:1627074-1627154 1.0000 80 chrIV:1094310-1094390 1.0000 80 chrX:13700823-13700903 1.0000 80 chrX:806656-806736 1.0000 80 chrII:14251810-14251890 1.0000 80 chrII:13834510-13834590 1.0000 80 chrIV:16656418-16656498 1.0000 80 chrV:9344292-9344372 1.0000 80 chrX:14525877-14525957 1.0000 80 chrX:11094162-11094242 1.0000 80 chrII:10869027-10869107 1.0000 80 chrIII:13643726-13643806 1.0000 80 chrI:11374404-11374484 1.0000 80 chrX:2997060-2997140 1.0000 80 chrX:4209225-4209305 1.0000 80 chrII:11759402-11759482 1.0000 80 chrX:8036402-8036482 1.0000 80 chrV:5049455-5049535 1.0000 80 chrX:4190739-4190819 1.0000 80 chrIV:796711-796791 1.0000 80 chrX:6296521-6296601 1.0000 80 chrIII:1921450-1921530 1.0000 80 chrI:382516-382596 1.0000 80 chrI:14759515-14759595 1.0000 80 chrX:5801276-5801356 1.0000 80 chrIII:5080896-5080976 1.0000 80 chrII:5844786-5844866 1.0000 80 chrIII:12250426-12250506 1.0000 80 chrV:14055137-14055217 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_eor-1/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/eor-1.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 0.302 C 0.179 G 0.176 T 0.342 Background letter frequencies (from file dataset with add-one prior applied): A 0.302 C 0.179 G 0.177 T 0.342 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF CTGCGYST MEME-1 width = 8 sites = 33 llr = 309 E-value = 2.5e-015 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTGCGYST MEME-1 Description -------------------------------------------------------------------------------- Simplified A :1:::::2 pos.-specific C a::a:45: probability G ::a:a:4: matrix T :9:::618 bits 2.5 * ** 2.3 * *** 2.0 * *** 1.8 * *** Relative 1.5 * *** Entropy 1.3 * *** (13.5 bits) 1.0 ******* 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel CTGCGTCT consensus CG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGCGYST MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:806656-806736 36 1.09e-05 GTGTTTGTTG CTGCGTCT CTTGTGTGGT chrI:13373037-13373117 42 1.09e-05 ACAGTGTACT CTGCGTCT CTTCAATTCC chrIV:3384739-3384819 13 1.09e-05 CCGGACGGCG CTGCGTCT CCCCGCTCAC chrIII:13062423-13062503 69 1.09e-05 CTATACATAT CTGCGTCT CACC chrIV:14767856-14767936 31 1.09e-05 CTTGCATACT CTGCGTCT CGTCTTTTTG chrIV:2219631-2219711 34 1.09e-05 TTGGAGTACA CTGCGTCT CTCTCTGTAT chrI:8133736-8133816 71 1.09e-05 CTCGGCGTCT CTGCGTCT CT chrIV:10935532-10935612 42 1.09e-05 TGTCTGTCCT CTGCGTCT CTGACCTTTT chrV:5592478-5592558 53 1.09e-05 AGAAATATGC CTGCGTCT CTTCAGCGAA chrIV:2602139-2602219 38 1.09e-05 CTTTGCCTGT CTGCGTCT CCTCCGTAGT chrIV:10937033-10937113 42 1.09e-05 GTGCATTTGT CTGCGTCT CGTTTATTTT chrII:10552154-10552234 58 1.09e-05 CTTTTAGTGT CTGCGTCT ACAAACTTCT chrI:5379889-5379969 28 1.09e-05 GTTTGTTTGT CTGCGTCT CTTCCTCTTC chrI:11934281-11934361 44 1.09e-05 TTCTGTGTGT CTGCGTCT CTTCAGTTCT chrV:17921574-17921654 28 1.09e-05 AATTTCATGT CTGCGTCT CTTCTCTCTC chrIV:828516-828596 42 1.09e-05 TATATATTCT CTGCGTCT CTTACGAAAA chrV:1805106-1805186 10 1.09e-05 ATTTTCCGT CTGCGTCT CTTTGCACCC chrII:14405289-14405369 26 1.47e-05 GTCAACACAT CTGCGCGT ATTCAGCCCG chrX:8036402-8036482 1 3.47e-05 . CTGCGCGA TAAAAAATTA chrX:4209225-4209305 43 3.47e-05 AGAGGTGTCC CTGCGCGA TAGCGGCAAT chrX:2997060-2997140 65 3.47e-05 TACTTCCTCC CTGCGCGA TAAATTTA chrX:11094162-11094242 66 3.47e-05 TGAGGTGTCC CTGCGCGA ATGGTTC chrX:14525877-14525957 25 3.47e-05 ACATCTGTCC CTGCGCGA TAGGCAATAG chrX:16682054-16682134 47 3.47e-05 CCCAATGTTC CTGCGCGA TGGTGTTCCT chrIII:355017-355097 37 5.79e-05 TGCAGCGCGC CTGCGCTT AGACCGCCGG chrII:11545459-11545539 26 5.79e-05 CGAACATGCA CTGCGCTT CGCGAGTAAA chrX:2364841-2364921 60 5.79e-05 CTATATATCC CTGCGCTT AATTATTTTT chrIII:13643726-13643806 44 6.11e-05 GGGCTCTACG CAGCGCGT AGAGACGCAG chrIV:2676419-2676499 45 6.11e-05 GAATACGCGT CAGCGCGT GCGAGAAACG chrII:14399833-14399913 17 8.51e-05 TCAAGCTTTC CAGCGTGT TTTTTATTGA chrIII:11946496-11946576 29 9.45e-05 GAGGACTACA CTGCGCGG GGGACTAGAA chrII:9591233-9591313 50 9.64e-05 CAATTCTAGT CCGCGCGT CGTGTACTCC chrIV:14033226-14033306 43 1.30e-04 CTGTGAGTCT CTGCCTCT TAGTCTCCAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGCGYST MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:806656-806736 1.1e-05 35_[+1]_37 chrI:13373037-13373117 1.1e-05 41_[+1]_31 chrIV:3384739-3384819 1.1e-05 12_[+1]_60 chrIII:13062423-13062503 1.1e-05 68_[+1]_4 chrIV:14767856-14767936 1.1e-05 30_[+1]_42 chrIV:2219631-2219711 1.1e-05 33_[+1]_39 chrI:8133736-8133816 1.1e-05 70_[+1]_2 chrIV:10935532-10935612 1.1e-05 41_[+1]_31 chrV:5592478-5592558 1.1e-05 52_[+1]_20 chrIV:2602139-2602219 1.1e-05 37_[+1]_35 chrIV:10937033-10937113 1.1e-05 41_[+1]_31 chrII:10552154-10552234 1.1e-05 57_[+1]_15 chrI:5379889-5379969 1.1e-05 27_[+1]_45 chrI:11934281-11934361 1.1e-05 43_[+1]_29 chrV:17921574-17921654 1.1e-05 27_[+1]_45 chrIV:828516-828596 1.1e-05 41_[+1]_31 chrV:1805106-1805186 1.1e-05 9_[+1]_63 chrII:14405289-14405369 1.5e-05 25_[+1]_47 chrX:8036402-8036482 3.5e-05 [+1]_72 chrX:4209225-4209305 3.5e-05 42_[+1]_30 chrX:2997060-2997140 3.5e-05 64_[+1]_8 chrX:11094162-11094242 3.5e-05 65_[+1]_7 chrX:14525877-14525957 3.5e-05 24_[+1]_48 chrX:16682054-16682134 3.5e-05 46_[+1]_26 chrIII:355017-355097 5.8e-05 36_[+1]_36 chrII:11545459-11545539 5.8e-05 25_[+1]_47 chrX:2364841-2364921 5.8e-05 59_[+1]_13 chrIII:13643726-13643806 6.1e-05 43_[+1]_29 chrIV:2676419-2676499 6.1e-05 44_[+1]_28 chrII:14399833-14399913 8.5e-05 16_[+1]_56 chrIII:11946496-11946576 9.4e-05 28_[+1]_44 chrII:9591233-9591313 9.6e-05 49_[+1]_23 chrIV:14033226-14033306 0.00013 42_[+1]_30 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGCGYST MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTGCGYST width=8 seqs=33 chrX:806656-806736 ( 36) CTGCGTCT 1 chrI:13373037-13373117 ( 42) CTGCGTCT 1 chrIV:3384739-3384819 ( 13) CTGCGTCT 1 chrIII:13062423-13062503 ( 69) CTGCGTCT 1 chrIV:14767856-14767936 ( 31) CTGCGTCT 1 chrIV:2219631-2219711 ( 34) CTGCGTCT 1 chrI:8133736-8133816 ( 71) CTGCGTCT 1 chrIV:10935532-10935612 ( 42) CTGCGTCT 1 chrV:5592478-5592558 ( 53) CTGCGTCT 1 chrIV:2602139-2602219 ( 38) CTGCGTCT 1 chrIV:10937033-10937113 ( 42) CTGCGTCT 1 chrII:10552154-10552234 ( 58) CTGCGTCT 1 chrI:5379889-5379969 ( 28) CTGCGTCT 1 chrI:11934281-11934361 ( 44) CTGCGTCT 1 chrV:17921574-17921654 ( 28) CTGCGTCT 1 chrIV:828516-828596 ( 42) CTGCGTCT 1 chrV:1805106-1805186 ( 10) CTGCGTCT 1 chrII:14405289-14405369 ( 26) CTGCGCGT 1 chrX:8036402-8036482 ( 1) CTGCGCGA 1 chrX:4209225-4209305 ( 43) CTGCGCGA 1 chrX:2997060-2997140 ( 65) CTGCGCGA 1 chrX:11094162-11094242 ( 66) CTGCGCGA 1 chrX:14525877-14525957 ( 25) CTGCGCGA 1 chrX:16682054-16682134 ( 47) CTGCGCGA 1 chrIII:355017-355097 ( 37) CTGCGCTT 1 chrII:11545459-11545539 ( 26) CTGCGCTT 1 chrX:2364841-2364921 ( 60) CTGCGCTT 1 chrIII:13643726-13643806 ( 44) CAGCGCGT 1 chrIV:2676419-2676499 ( 45) CAGCGCGT 1 chrII:14399833-14399913 ( 17) CAGCGTGT 1 chrIII:11946496-11946576 ( 29) CTGCGCGG 1 chrII:9591233-9591313 ( 50) CCGCGCGT 1 chrIV:14033226-14033306 ( 43) CTGCCTCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGCGYST MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.87609 E= 2.5e-015 -1169 248 -1169 -1169 -173 -256 -1169 136 -1169 -1169 250 -1169 -1169 248 -1169 -1169 -1169 -256 246 -1169 -1169 124 -1169 75 -1169 161 104 -191 -73 -1169 -254 120 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGCGYST MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 33 E= 2.5e-015 0.000000 1.000000 0.000000 0.000000 0.090909 0.030303 0.000000 0.878788 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.030303 0.969697 0.000000 0.000000 0.424242 0.000000 0.575758 0.000000 0.545455 0.363636 0.090909 0.181818 0.000000 0.030303 0.787879 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGCGYST MEME-1 regular expression -------------------------------------------------------------------------------- CTGCG[TC][CG]T -------------------------------------------------------------------------------- Time 5.92 secs. ******************************************************************************** ******************************************************************************** MOTIF RCGCAGGG MEME-2 width = 8 sites = 21 llr = 215 E-value = 1.2e-009 ******************************************************************************** -------------------------------------------------------------------------------- Motif RCGCAGGG MEME-2 Description -------------------------------------------------------------------------------- Simplified A 4::2a:3: pos.-specific C :a:8:::: probability G 5:a::a6a matrix T :::::::: bits 2.5 ** * * 2.3 ** * * 2.0 ** * * 1.8 ** * * Relative 1.5 ***** * Entropy 1.3 ***** * (14.8 bits) 1.0 ****** * 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel GCGCAGGG consensus A A A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RCGCAGGG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:6296521-6296601 55 1.68e-06 GATAGGTATC GCGCAGGG AAGATTTACC chrX:8036402-8036482 33 1.68e-06 TTTTTCCATC GCGCAGGG AACCCTTCGA chrX:806656-806736 18 1.68e-06 TGCGATTATC GCGCAGGG GTGTTTGTTG chrX:1344985-1345065 71 1.68e-06 AATGTCATTC GCGCAGGG CA chrX:13514525-13514605 33 1.68e-06 TACCTTTATC GCGCAGGG ATATTGAAAT chrX:11937474-11937554 67 4.55e-06 GGAGGTACAA ACGCAGGG AAGAGA chrII:2974040-2974120 70 7.42e-06 CTGGCGCGAG GCGCAGAG AGA chrX:4209225-4209305 67 1.03e-05 CAATTTTATC GCGAAGGG AGCTCA chrX:14525877-14525957 48 1.03e-05 AATAGTCATC GCGAAGGG ACACATTTTG chrX:1627074-1627154 32 1.03e-05 TTCTCCCATC GCGAAGGG ATACTTTCGC chrX:9465818-9465898 65 1.03e-05 GAAAATTTAG GCGAAGGG AGAGATAC chrIV:6321847-6321927 29 1.51e-05 ATAATGTGTT ACGCAGAG AAAACGGTAA chrII:13872632-13872712 47 1.51e-05 AAACGAGGAG ACGCAGAG TTGGGTCTCA chrIV:15471569-15471649 47 1.51e-05 AGAGTACGAG ACGCAGAG ATCGTTGGCG chrIII:7154025-7154105 44 1.51e-05 GAGACAAGAG ACGCAGAG ATAAGAAAAA chrIII:13061263-13061343 39 1.51e-05 GAGATGAGAT ACGCAGAG AAGCATACAA chrV:9546966-9547046 47 2.27e-05 ACATGTGTCC CCGCAGGG TGGTTCAATC chrII:10552154-10552234 38 2.27e-05 AGATACAAAG ACGAAGGG TACTTTTAGT chrV:1151441-1151521 24 3.41e-05 AAAGAGCCCG GCGCAGTG AAGAGACGTA chrIV:10935532-10935612 24 3.41e-05 GAAACGCATG ACGCGGGG TGTCTGTCCT chrI:13663385-13663465 51 3.70e-05 GCGTTCAGGT ACGCAGCG AATTGAGTCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RCGCAGGG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:6296521-6296601 1.7e-06 54_[+2]_18 chrX:8036402-8036482 1.7e-06 32_[+2]_40 chrX:806656-806736 1.7e-06 17_[+2]_55 chrX:1344985-1345065 1.7e-06 70_[+2]_2 chrX:13514525-13514605 1.7e-06 32_[+2]_40 chrX:11937474-11937554 4.5e-06 66_[+2]_6 chrII:2974040-2974120 7.4e-06 69_[+2]_3 chrX:4209225-4209305 1e-05 66_[+2]_6 chrX:14525877-14525957 1e-05 47_[+2]_25 chrX:1627074-1627154 1e-05 31_[+2]_41 chrX:9465818-9465898 1e-05 64_[+2]_8 chrIV:6321847-6321927 1.5e-05 28_[+2]_44 chrII:13872632-13872712 1.5e-05 46_[+2]_26 chrIV:15471569-15471649 1.5e-05 46_[+2]_26 chrIII:7154025-7154105 1.5e-05 43_[+2]_29 chrIII:13061263-13061343 1.5e-05 38_[+2]_34 chrV:9546966-9547046 2.3e-05 46_[+2]_26 chrII:10552154-10552234 2.3e-05 37_[+2]_35 chrV:1151441-1151521 3.4e-05 23_[+2]_49 chrIV:10935532-10935612 3.4e-05 23_[+2]_49 chrI:13663385-13663465 3.7e-05 50_[+2]_22 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RCGCAGGG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF RCGCAGGG width=8 seqs=21 chrX:6296521-6296601 ( 55) GCGCAGGG 1 chrX:8036402-8036482 ( 33) GCGCAGGG 1 chrX:806656-806736 ( 18) GCGCAGGG 1 chrX:1344985-1345065 ( 71) GCGCAGGG 1 chrX:13514525-13514605 ( 33) GCGCAGGG 1 chrX:11937474-11937554 ( 67) ACGCAGGG 1 chrII:2974040-2974120 ( 70) GCGCAGAG 1 chrX:4209225-4209305 ( 67) GCGAAGGG 1 chrX:14525877-14525957 ( 48) GCGAAGGG 1 chrX:1627074-1627154 ( 32) GCGAAGGG 1 chrX:9465818-9465898 ( 65) GCGAAGGG 1 chrIV:6321847-6321927 ( 29) ACGCAGAG 1 chrII:13872632-13872712 ( 47) ACGCAGAG 1 chrIV:15471569-15471649 ( 47) ACGCAGAG 1 chrIII:7154025-7154105 ( 44) ACGCAGAG 1 chrIII:13061263-13061343 ( 39) ACGCAGAG 1 chrV:9546966-9547046 ( 47) CCGCAGGG 1 chrII:10552154-10552234 ( 38) ACGAAGGG 1 chrV:1151441-1151521 ( 24) GCGCAGTG 1 chrIV:10935532-10935612 ( 24) ACGCGGGG 1 chrI:13663385-13663465 ( 51) ACGCAGCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RCGCAGGG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.2675 E= 1.2e-009 50 -191 157 -1104 -1104 248 -1104 -1104 -1104 -1104 250 -1104 -34 209 -1104 -1104 166 -1104 -189 -1104 -1104 -1104 250 -1104 -8 -191 181 -284 -1104 -1104 250 -1104 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RCGCAGGG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 21 E= 1.2e-009 0.428571 0.047619 0.523810 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.238095 0.761905 0.000000 0.000000 0.952381 0.000000 0.047619 0.000000 0.000000 0.000000 1.000000 0.000000 0.285714 0.047619 0.619048 0.047619 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RCGCAGGG MEME-2 regular expression -------------------------------------------------------------------------------- [GA]CG[CA]AG[GA]G -------------------------------------------------------------------------------- Time 9.85 secs. ******************************************************************************** ******************************************************************************** MOTIF CRCGSCMG MEME-3 width = 8 sites = 25 llr = 233 E-value = 3.0e-006 ******************************************************************************** -------------------------------------------------------------------------------- Motif CRCGSCMG MEME-3 Description -------------------------------------------------------------------------------- Simplified A :4::1:4: pos.-specific C 7:9:386: probability G 35:a62:a matrix T ::1::::: bits 2.5 * 2.3 * * 2.0 * * 1.8 * ** * * Relative 1.5 * ** * * Entropy 1.3 * ****** (13.4 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel CGCGGCCG consensus GA C A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCGSCMG MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:192199-192279 21 1.01e-06 TCCGAAATAA CGCGGCCG CCAGCACGAT chrIII:8307536-8307616 6 1.01e-06 AATAA CGCGGCCG AATTTTTGTG chrIV:8973692-8973772 48 1.01e-06 TCCTAGTCCG CGCGGCCG TGTAGTCCTC chrIV:16415748-16415828 33 3.75e-06 GAGAGGAGTA CACGGCCG AGTGGCCTAG chrII:13872632-13872712 66 8.18e-06 TGGGTCTCAC CACGCCCG CAGGTAC chrII:11759402-11759482 68 1.55e-05 AAGAGAAAGA GACGGCCG ACAGA chrII:7152123-7152203 49 1.55e-05 TCACGCGAAA CGCGCCAG CAATCGTCGC chrIV:2676419-2676499 61 1.55e-05 GTGCGAGAAA CGCGCCAG CACCGTACCT chrI:13756525-13756605 56 1.55e-05 TCACTTGAAT CGCGCCAG CAGTTCCCTT chrV:8936257-8936337 71 1.55e-05 GGCGTGGCCG GGCGCCCG CC chrIV:2349086-2349166 12 1.55e-05 CGTCAAGAAA CGCGCCAG CAGACTTTGC chrIII:5080896-5080976 48 1.82e-05 CCACCTGCAA GGCGGCAG ACATCTCGTG chrI:11578376-11578456 6 2.55e-05 CCGCA CGCGCGCG TTGTTTAGCG chrX:4190739-4190819 10 3.01e-05 AGATCAAGA GACGGCAG ACGCAGTAAG chrII:13369377-13369457 50 3.01e-05 CAATTGAAGA GACGGCAG ACATTTCTGT chrI:11374404-11374484 48 3.74e-05 TACACGCTGG CGTGGCCG AGCACATCCT chrIII:783455-783535 19 3.74e-05 GTTTGAAATT CGTGGCCG AGGCCTAGGA chrV:2127172-2127252 58 3.74e-05 TGCTAGTCCT CCCGGCCG TGTACTTCAC chrIV:1094310-1094390 39 4.93e-05 GATTTGCCGC CACGGGAG ATGTGGGGTA chrX:4142266-4142346 65 4.93e-05 CACGTACCTC CACGGGAG GTGTGTCC chrI:382516-382596 10 5.95e-05 GGGTCTCGC CACGACCG AAAGTACGGT chrV:15085570-15085650 35 5.95e-05 GCCAGCAGGC CACGACCG CTTATCAATA chrV:18981163-18981243 31 8.44e-05 TTTCCTAGGC CACCGCCG GTGTACTCCT chrII:2974040-2974120 62 8.89e-05 AGAGAACACT GGCGCGAG GCGCAGAGAG chrII:6913440-6913520 48 1.16e-04 GTACACGACT GATGGCCG GAGAGTTTTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCGSCMG MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:192199-192279 1e-06 20_[+3]_52 chrIII:8307536-8307616 1e-06 5_[+3]_67 chrIV:8973692-8973772 1e-06 47_[+3]_25 chrIV:16415748-16415828 3.7e-06 32_[+3]_40 chrII:13872632-13872712 8.2e-06 65_[+3]_7 chrII:11759402-11759482 1.6e-05 67_[+3]_5 chrII:7152123-7152203 1.6e-05 48_[+3]_24 chrIV:2676419-2676499 1.6e-05 60_[+3]_12 chrI:13756525-13756605 1.6e-05 55_[+3]_17 chrV:8936257-8936337 1.6e-05 70_[+3]_2 chrIV:2349086-2349166 1.6e-05 11_[+3]_61 chrIII:5080896-5080976 1.8e-05 47_[+3]_25 chrI:11578376-11578456 2.6e-05 5_[+3]_67 chrX:4190739-4190819 3e-05 9_[+3]_63 chrII:13369377-13369457 3e-05 49_[+3]_23 chrI:11374404-11374484 3.7e-05 47_[+3]_25 chrIII:783455-783535 3.7e-05 18_[+3]_54 chrV:2127172-2127252 3.7e-05 57_[+3]_15 chrIV:1094310-1094390 4.9e-05 38_[+3]_34 chrX:4142266-4142346 4.9e-05 64_[+3]_8 chrI:382516-382596 6e-05 9_[+3]_63 chrV:15085570-15085650 6e-05 34_[+3]_38 chrV:18981163-18981243 8.4e-05 30_[+3]_42 chrII:2974040-2974120 8.9e-05 61_[+3]_11 chrII:6913440-6913520 0.00012 47_[+3]_25 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCGSCMG MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CRCGSCMG width=8 seqs=25 chrIV:192199-192279 ( 21) CGCGGCCG 1 chrIII:8307536-8307616 ( 6) CGCGGCCG 1 chrIV:8973692-8973772 ( 48) CGCGGCCG 1 chrIV:16415748-16415828 ( 33) CACGGCCG 1 chrII:13872632-13872712 ( 66) CACGCCCG 1 chrII:11759402-11759482 ( 68) GACGGCCG 1 chrII:7152123-7152203 ( 49) CGCGCCAG 1 chrIV:2676419-2676499 ( 61) CGCGCCAG 1 chrI:13756525-13756605 ( 56) CGCGCCAG 1 chrV:8936257-8936337 ( 71) GGCGCCCG 1 chrIV:2349086-2349166 ( 12) CGCGCCAG 1 chrIII:5080896-5080976 ( 48) GGCGGCAG 1 chrI:11578376-11578456 ( 6) CGCGCGCG 1 chrX:4190739-4190819 ( 10) GACGGCAG 1 chrII:13369377-13369457 ( 50) GACGGCAG 1 chrI:11374404-11374484 ( 48) CGTGGCCG 1 chrIII:783455-783535 ( 19) CGTGGCCG 1 chrV:2127172-2127252 ( 58) CCCGGCCG 1 chrIV:1094310-1094390 ( 39) CACGGGAG 1 chrX:4142266-4142346 ( 65) CACGGGAG 1 chrI:382516-382596 ( 10) CACGACCG 1 chrV:15085570-15085650 ( 35) CACGACCG 1 chrV:18981163-18981243 ( 31) CACCGCCG 1 chrII:2974040-2974120 ( 62) GGCGCGAG 1 chrII:6913440-6913520 ( 48) GATGGCCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCGSCMG MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.1193 E= 3.0e-006 -1129 201 67 -1129 54 -216 156 -1129 -1129 229 -1129 -151 -1129 -216 244 -1129 -191 84 176 -1129 -1129 223 -14 -1129 41 174 -1129 -1129 -1129 -1129 250 -1129 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCGSCMG MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 25 E= 3.0e-006 0.000000 0.720000 0.280000 0.000000 0.440000 0.040000 0.520000 0.000000 0.000000 0.880000 0.000000 0.120000 0.000000 0.040000 0.960000 0.000000 0.080000 0.320000 0.600000 0.000000 0.000000 0.840000 0.160000 0.000000 0.400000 0.600000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCGSCMG MEME-3 regular expression -------------------------------------------------------------------------------- [CG][GA]CG[GC]C[CA]G -------------------------------------------------------------------------------- Time 13.74 secs. ******************************************************************************** ******************************************************************************** MOTIF CGGCCDCG MEME-4 width = 8 sites = 16 llr = 161 E-value = 2.1e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif CGGCCDCG MEME-4 Description -------------------------------------------------------------------------------- Simplified A ::::23:: pos.-specific C a3:a818: probability G :6a::4:a matrix T :1:::32: bits 2.5 * ** * 2.3 * ** * 2.0 * ** * 1.8 * *** * Relative 1.5 * *** ** Entropy 1.3 * *** ** (14.5 bits) 1.0 ***** ** 0.8 ***** ** 0.5 ***** ** 0.3 ******** 0.0 -------- Multilevel CGGCCGCG consensus C T sequence A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCCDCG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIII:783455-783535 40 1.01e-06 CCTAGGATTC CGGCCGCG TGGCCTAGAA chrIV:1094310-1094390 22 5.69e-06 CTGGCGGGTC CCGCCGCG ATTTGCCGCC chrIV:192199-192279 43 5.69e-06 CACGATTTCT CGGCCACG CGCCGTGTAC chrIII:8307536-8307616 30 5.69e-06 TGTGAAACTT CGGCCACG TTTTGTGTAA chrIV:10483871-10483951 41 5.69e-06 CATAAATCCT CGGCCACG GTTTGTGGAC chrIII:12614785-12614865 11 7.66e-06 CCCCTTTTTG CCGCCTCG CTGACTGCTC chrIV:12391343-12391423 1 1.04e-05 . CCGCCACG GCCATGGCCT chrI:14759515-14759595 9 1.21e-05 CCGGTGTC CGGCAGCG TTGAGTTAGA chrX:5801276-5801356 2 1.40e-05 T CGGCCGTG CTTCTGTTTC chrI:11374404-11374484 66 1.40e-05 AGCACATCCT CGGCCGTG TACTCCT chrIV:6321847-6321927 67 1.40e-05 GGGAAATGTT CGGCCGTG TACTCC chrIII:13643726-13643806 13 1.70e-05 AGATGCGTAG CCGCCCCG TTAACATGGC chrI:8411334-8411414 69 2.03e-05 GAAAAATGGA CGGCATCG GATG chrIV:14033226-14033306 23 2.03e-05 CACTGGTCAA CGGCATCG CTCTGTGAGT chrV:773425-773505 19 3.76e-05 CGCACACTCT CTGCCTCG CTCGCTCAAT chrX:6593523-6593603 71 3.76e-05 AGGGAGACGA CTGCCTCG AT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCCDCG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIII:783455-783535 1e-06 39_[+4]_33 chrIV:1094310-1094390 5.7e-06 21_[+4]_51 chrIV:192199-192279 5.7e-06 42_[+4]_30 chrIII:8307536-8307616 5.7e-06 29_[+4]_43 chrIV:10483871-10483951 5.7e-06 40_[+4]_32 chrIII:12614785-12614865 7.7e-06 10_[+4]_62 chrIV:12391343-12391423 1e-05 [+4]_72 chrI:14759515-14759595 1.2e-05 8_[+4]_64 chrX:5801276-5801356 1.4e-05 1_[+4]_71 chrI:11374404-11374484 1.4e-05 65_[+4]_7 chrIV:6321847-6321927 1.4e-05 66_[+4]_6 chrIII:13643726-13643806 1.7e-05 12_[+4]_60 chrI:8411334-8411414 2e-05 68_[+4]_4 chrIV:14033226-14033306 2e-05 22_[+4]_50 chrV:773425-773505 3.8e-05 18_[+4]_54 chrX:6593523-6593603 3.8e-05 70_[+4]_2 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCCDCG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CGGCCDCG width=8 seqs=16 chrIII:783455-783535 ( 40) CGGCCGCG 1 chrIV:1094310-1094390 ( 22) CCGCCGCG 1 chrIV:192199-192279 ( 43) CGGCCACG 1 chrIII:8307536-8307616 ( 30) CGGCCACG 1 chrIV:10483871-10483951 ( 41) CGGCCACG 1 chrIII:12614785-12614865 ( 11) CCGCCTCG 1 chrIV:12391343-12391423 ( 1) CCGCCACG 1 chrI:14759515-14759595 ( 9) CGGCAGCG 1 chrX:5801276-5801356 ( 2) CGGCCGTG 1 chrI:11374404-11374484 ( 66) CGGCCGTG 1 chrIV:6321847-6321927 ( 67) CGGCCGTG 1 chrIII:13643726-13643806 ( 13) CCGCCCCG 1 chrI:8411334-8411414 ( 69) CGGCATCG 1 chrIV:14033226-14033306 ( 23) CGGCATCG 1 chrV:773425-773505 ( 19) CTGCCTCG 1 chrX:6593523-6593603 ( 71) CTGCCTCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCCDCG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.1543 E= 2.1e-002 -1064 248 -1064 -1064 -1064 48 182 -145 -1064 -1064 250 -1064 -1064 248 -1064 -1064 -69 218 -1064 -1064 -27 -152 109 -13 -1064 218 -1064 -87 -1064 -1064 250 -1064 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCCDCG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 16 E= 2.1e-002 0.000000 1.000000 0.000000 0.000000 0.000000 0.250000 0.625000 0.125000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.187500 0.812500 0.000000 0.000000 0.250000 0.062500 0.375000 0.312500 0.000000 0.812500 0.000000 0.187500 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCCDCG MEME-4 regular expression -------------------------------------------------------------------------------- C[GC]GCC[GTA]CG -------------------------------------------------------------------------------- Time 17.57 secs. ******************************************************************************** ******************************************************************************** MOTIF TGGCCTAG MEME-5 width = 8 sites = 8 llr = 92 E-value = 5.7e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGGCCTAG MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::1::a: pos.-specific C :::9a::: probability G :aa::::a matrix T a::::a:: bits 2.5 ** * * 2.3 ** * * 2.0 ** * * 1.8 **** ** Relative 1.5 ******** Entropy 1.3 ******** (16.6 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel TGGCCTAG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCCTAG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIII:783455-783535 48 6.28e-06 TCCGGCCGCG TGGCCTAG AAATCTCAAT chrIV:12391343-12391423 13 6.28e-06 GCCACGGCCA TGGCCTAG AAAACAACGT chrII:12678029-12678109 21 6.28e-06 AAATGAGTGA TGGCCTAG AATTGTTATC chrIV:10483871-10483951 13 6.28e-06 CCGGCAACAA TGGCCTAG GTTCCACAAG chrV:2127172-2127252 25 6.28e-06 CTCCTGTGAA TGGCCTAG AAATTGTGGC chrI:3823054-3823134 33 6.28e-06 TTAATTCCAG TGGCCTAG ATTTTAAGCA chrIV:16415748-16415828 43 6.28e-06 CACGGCCGAG TGGCCTAG GAAACTCTTG chrV:19522923-19523003 51 1.69e-05 AAATGGAGGG TGGACTAG GAGGGTGGGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCCTAG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIII:783455-783535 6.3e-06 47_[+5]_25 chrIV:12391343-12391423 6.3e-06 12_[+5]_60 chrII:12678029-12678109 6.3e-06 20_[+5]_52 chrIV:10483871-10483951 6.3e-06 12_[+5]_60 chrV:2127172-2127252 6.3e-06 24_[+5]_48 chrI:3823054-3823134 6.3e-06 32_[+5]_40 chrIV:16415748-16415828 6.3e-06 42_[+5]_30 chrV:19522923-19523003 1.7e-05 50_[+5]_22 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCCTAG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGGCCTAG width=8 seqs=8 chrIII:783455-783535 ( 48) TGGCCTAG 1 chrIV:12391343-12391423 ( 13) TGGCCTAG 1 chrII:12678029-12678109 ( 21) TGGCCTAG 1 chrIV:10483871-10483951 ( 13) TGGCCTAG 1 chrV:2127172-2127252 ( 25) TGGCCTAG 1 chrI:3823054-3823134 ( 33) TGGCCTAG 1 chrIV:16415748-16415828 ( 43) TGGCCTAG 1 chrV:19522923-19523003 ( 51) TGGACTAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCCTAG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.155 E= 5.7e+000 -965 -965 -965 155 -965 -965 250 -965 -965 -965 250 -965 -127 229 -965 -965 -965 248 -965 -965 -965 -965 -965 155 173 -965 -965 -965 -965 -965 250 -965 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCCTAG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 8 E= 5.7e+000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.125000 0.875000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCCTAG MEME-5 regular expression -------------------------------------------------------------------------------- TGGCCTAG -------------------------------------------------------------------------------- Time 21.37 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIII:8796558-8796638 6.28e-01 80 chrM:6786-6866 1.00e+00 80 chrM:10506-10586 9.91e-01 80 chrM:13602-13682 1.00e+00 80 chrM:13031-13111 1.00e+00 80 chrIV:16382809-16382889 7.07e-01 80 chrM:6541-6621 6.77e-01 80 chrIII:13779000-13779080 9.95e-01 80 chrM:12142-12222 9.86e-01 80 chrM:4069-4149 1.00e+00 80 chrM:460-540 1.00e+00 80 chrM:12724-12804 9.81e-01 80 chrM:2637-2717 1.00e+00 80 chrV:5964482-5964562 9.52e-01 80 chrM:9746-9826 1.00e+00 80 chrM:11644-11724 8.89e-01 80 chrM:7802-7882 9.98e-01 80 chrX:6410909-6410989 9.73e-01 80 chrM:5534-5614 9.12e-01 80 chrX:16929319-16929399 9.99e-01 80 chrM:3870-3950 3.08e-01 80 chrM:258-338 1.00e+00 80 chrIV:11355728-11355808 1.00e+00 80 chrM:8555-8635 9.26e-01 80 chrIV:10503369-10503449 1.00e+00 80 chrM:1543-1623 9.96e-01 80 chrX:4904434-4904514 1.00e+00 80 chrV:6225409-6225489 8.50e-01 80 chrM:5750-5830 4.22e-01 80 chrIII:9663072-9663152 9.97e-01 80 chrI:9428530-9428610 9.98e-01 80 chrIII:5239936-5240016 9.85e-01 80 chrIII:10852374-10852454 9.37e-01 80 chrIV:11962282-11962362 1.00e+00 80 chrI:7478248-7478328 9.18e-01 80 chrX:15630595-15630675 9.99e-01 80 chrX:5804190-5804270 1.00e+00 80 chrI:9854911-9854991 9.32e-01 80 chrX:6203906-6203986 7.84e-01 80 chrV:1805106-1805186 1.43e-02 9_[+1(1.09e-05)]_63 chrM:9388-9468 1.00e+00 80 chrV:1196149-1196229 8.46e-01 80 chrIV:12827877-12827957 9.38e-01 80 chrV:5851166-5851246 8.96e-01 80 chrX:2972092-2972172 9.85e-01 80 chrIII:8688438-8688518 5.70e-01 80 chrX:16611080-16611160 9.18e-01 80 chrI:9446138-9446218 9.61e-01 80 chrII:8919377-8919457 1.00e+00 80 chrIII:12614785-12614865 9.66e-04 10_[+4(7.66e-06)]_62 chrM:8003-8083 9.80e-01 80 chrIII:6280709-6280789 8.02e-01 80 chrX:6751015-6751095 1.00e+00 80 chrX:8018330-8018410 1.50e-01 66_[+4(9.53e-05)]_6 chrV:18704754-18704834 1.00e+00 80 chrI:7130234-7130314 1.00e+00 80 chrIII:5258831-5258911 9.98e-01 80 chrIV:11480545-11480625 6.43e-01 80 chrI:7159453-7159533 9.71e-01 80 chrII:10546527-10546607 9.91e-01 80 chrX:7982455-7982535 9.74e-01 80 chrM:1309-1389 1.00e+00 80 chrM:3031-3111 7.03e-01 80 chrIV:10252881-10252961 3.91e-01 80 chrII:6716613-6716693 9.99e-01 80 chrM:6991-7071 9.80e-01 80 chrII:12768459-12768539 9.99e-01 80 chrIV:828516-828596 3.33e-02 41_[+1(1.09e-05)]_31 chrIV:2349086-2349166 2.46e-02 11_[+3(1.55e-05)]_61 chrX:16727338-16727418 9.99e-01 80 chrI:8014066-8014146 9.63e-01 80 chrIV:9532539-9532619 1.00e+00 80 chrIV:16415748-16415828 6.57e-07 32_[+3(3.75e-06)]_2_[+5(6.28e-06)]_\ 30 chrI:3823054-3823134 3.47e-02 32_[+5(6.28e-06)]_40 chrX:16930714-16930794 9.90e-01 80 chrIII:7114152-7114232 9.85e-01 80 chrV:15082453-15082533 5.37e-02 80 chrV:10870509-10870589 1.00e+00 80 chrX:16931211-16931291 9.76e-01 80 chrV:10477285-10477365 9.99e-01 80 chrX:8022403-8022483 9.91e-01 80 chrV:17921574-17921654 1.18e-02 27_[+1(1.09e-05)]_45 chrIV:15723036-15723116 9.27e-01 80 chrM:1051-1131 1.00e+00 80 chrV:13371466-13371546 7.51e-01 80 chrI:7021112-7021192 8.39e-01 80 chrM:2115-2195 1.86e-01 80 chrII:7326088-7326168 9.97e-01 80 chrI:3829259-3829339 9.94e-01 80 chrX:1504937-1505017 1.06e-01 80 chrIV:14033226-14033306 1.92e-03 22_[+4(2.03e-05)]_50 chrX:8021541-8021621 9.98e-01 80 chrI:6574597-6574677 9.44e-01 80 chrIII:8443928-8444008 4.45e-01 80 chrX:16931723-16931803 9.56e-01 80 chrIV:6837338-6837418 9.97e-01 80 chrI:11578376-11578456 2.41e-03 5_[+3(2.55e-05)]_67 chrI:6091940-6092020 1.00e+00 80 chrX:13349617-13349697 8.67e-01 80 chrV:11987397-11987477 9.61e-01 80 chrIV:3725991-3726071 7.84e-02 80 chrI:1273920-1274000 4.50e-01 80 chrI:13653911-13653991 2.06e-01 80 chrX:10687849-10687929 8.57e-01 80 chrI:11934281-11934361 7.71e-02 43_[+1(1.09e-05)]_29 chrIII:9808239-9808319 9.85e-01 80 chrV:12549217-12549297 9.66e-01 80 chrM:11027-11107 8.46e-01 80 chrI:5377000-5377080 1.00e+00 80 chrM:4630-4710 4.91e-01 80 chrV:10342837-10342917 9.96e-01 80 chrII:9591233-9591313 1.23e-02 49_[+1(9.64e-05)]_23 chrV:6229629-6229709 4.32e-01 80 chrIII:1601083-1601163 9.82e-01 80 chrX:13514525-13514605 1.59e-02 32_[+2(1.68e-06)]_40 chrII:13369377-13369457 4.05e-02 49_[+3(3.01e-05)]_23 chrI:7494455-7494535 9.93e-01 80 chrV:2127172-2127252 2.20e-06 24_[+5(6.28e-06)]_27_[+4(1.40e-05)]_\ 13 chrII:2971895-2971975 9.76e-01 80 chrII:6913440-6913520 8.91e-04 80 chrII:12678758-12678838 9.99e-01 80 chrI:2096982-2097062 9.42e-01 80 chrIV:12559116-12559196 9.95e-01 80 chrIII:13061263-13061343 2.92e-02 38_[+2(1.51e-05)]_34 chrX:14147072-14147152 9.50e-01 80 chrIII:3324088-3324168 2.84e-01 80 chrI:6562391-6562471 8.63e-01 80 chrII:11761989-11762069 9.97e-01 80 chrI:5379889-5379969 6.57e-04 27_[+1(1.09e-05)]_45 chrIII:13466402-13466482 6.67e-01 80 chrIV:10483871-10483951 9.14e-05 12_[+5(6.28e-06)]_20_[+4(5.69e-06)]_\ 32 chrI:12968626-12968706 8.88e-01 80 chrV:18981163-18981243 1.25e-03 30_[+3(8.44e-05)]_42 chrX:6750233-6750313 3.90e-01 80 chrII:10552154-10552234 7.78e-04 37_[+2(2.27e-05)]_12_[+1(1.09e-05)]_\ 15 chrX:8232155-8232235 6.21e-01 80 chrII:14399833-14399913 3.15e-01 16_[+1(8.51e-05)]_56 chrX:4142266-4142346 1.34e-02 64_[+3(4.93e-05)]_8 chrIII:9051451-9051531 3.34e-01 80 chrIV:6839170-6839250 6.79e-01 80 chrIV:10937033-10937113 2.74e-03 41_[+1(1.09e-05)]_31 chrV:8936257-8936337 1.96e-03 62_[+3(3.74e-05)]_[+3(1.55e-05)]_2 chrIII:8447113-8447193 6.64e-01 80 chrX:6749608-6749688 4.13e-01 80 chrIII:7154025-7154105 1.06e-02 43_[+2(1.51e-05)]_29 chrX:6743888-6743968 8.21e-01 80 chrM:6155-6235 9.36e-01 80 chrIV:2602139-2602219 2.46e-03 8_[+1(1.09e-05)]_21_[+1(1.09e-05)]_\ 35 chrIII:11946496-11946576 4.43e-06 30_[+2(2.27e-05)]_42 chrV:5592478-5592558 4.01e-04 52_[+1(1.09e-05)]_20 chrIII:12273791-12273871 2.49e-01 80 chrI:13756525-13756605 3.79e-03 55_[+3(1.55e-05)]_17 chrIV:15472550-15472630 9.72e-02 80 chrII:2974040-2974120 4.30e-05 61_[+3(8.89e-05)]_[+2(7.42e-06)]_3 chrIV:15471569-15471649 1.39e-02 46_[+2(1.51e-05)]_26 chrV:6224546-6224626 6.85e-01 80 chrX:15607622-15607702 2.44e-02 80 chrX:6742202-6742282 4.25e-04 80 chrIV:8973692-8973772 6.96e-08 47_[+3(1.01e-06)]_25 chrI:8786881-8786961 8.05e-01 80 chrIII:12598664-12598744 9.63e-01 80 chrII:13872632-13872712 2.70e-04 46_[+2(1.51e-05)]_11_[+3(8.18e-06)]_\ 7 chrIV:10935532-10935612 4.18e-05 23_[+2(3.41e-05)]_10_[+1(1.09e-05)]_\ 31 chrIII:8307536-8307616 5.38e-06 5_[+3(1.01e-06)]_16_[+4(5.69e-06)]_\ 43 chrI:12039791-12039871 6.05e-02 80 chrX:2364841-2364921 6.42e-02 59_[+1(5.79e-05)]_13 chrV:11824332-11824412 9.32e-01 80 chrII:6589058-6589138 6.67e-01 80 chrIV:10936201-10936281 4.44e-01 80 chrII:11545459-11545539 1.27e-02 25_[+1(5.79e-05)]_47 chrIII:355017-355097 8.46e-04 36_[+1(5.79e-05)]_36 chrI:14756755-14756835 3.76e-01 80 chrIV:2676419-2676499 2.25e-04 44_[+1(6.11e-05)]_8_[+3(1.55e-05)]_\ 12 chrI:8133736-8133816 4.83e-04 70_[+1(1.09e-05)]_2 chrIV:7047827-7047907 4.60e-01 80 chrI:8411334-8411414 3.09e-03 68_[+4(2.03e-05)]_4 chrX:1344985-1345065 2.49e-03 70_[+2(1.68e-06)]_2 chrX:16056531-16056611 3.56e-01 80 chrII:12678029-12678109 5.52e-03 20_[+5(6.28e-06)]_52 chrIV:2219631-2219711 2.09e-03 33_[+1(1.09e-05)]_39 chrX:11605820-11605900 3.68e-01 80 chrV:9546966-9547046 7.21e-04 46_[+2(2.27e-05)]_26 chrX:9091612-9091692 4.76e-01 80 chrIV:12391343-12391423 5.59e-06 [+4(1.04e-05)]_4_[+5(6.28e-06)]_60 chrV:19522923-19523003 1.16e-02 50_[+5(1.69e-05)]_22 chrX:12363142-12363222 6.93e-01 80 chrV:12318202-12318282 9.07e-01 80 chrIII:12612576-12612656 4.25e-01 80 chrII:14405289-14405369 5.38e-03 25_[+1(1.47e-05)]_47 chrI:13663385-13663465 9.85e-03 50_[+2(3.70e-05)]_22 chrX:6593523-6593603 2.10e-03 70_[+4(3.76e-05)]_2 chrIV:6321847-6321927 2.25e-04 28_[+2(1.51e-05)]_30_[+4(1.40e-05)]_\ 6 chrII:12102577-12102657 3.52e-01 80 chrV:14200130-14200210 8.36e-01 80 chrV:14685702-14685782 1.29e-01 80 chrX:2242818-2242898 6.18e-01 80 chrIII:13070573-13070653 3.97e-01 80 chrIV:14767856-14767936 1.60e-03 30_[+1(1.09e-05)]_42 chrIII:640451-640531 4.05e-01 80 chrX:16682054-16682134 4.03e-03 46_[+1(3.47e-05)]_26 chrV:15085570-15085650 1.05e-02 34_[+3(5.95e-05)]_38 chrIII:783455-783535 7.91e-09 18_[+3(3.74e-05)]_[+5(4.10e-05)]_5_\ [+4(1.01e-06)]_[+5(6.28e-06)]_25 chrV:773425-773505 7.31e-03 18_[+4(3.76e-05)]_54 chrI:3516271-3516351 9.98e-01 80 chrI:14469315-14469395 2.93e-01 80 chrII:7152123-7152203 6.40e-03 48_[+3(1.55e-05)]_24 chrIV:192199-192279 1.50e-06 20_[+3(1.01e-06)]_14_[+4(5.69e-06)]_\ 30 chrIII:13062423-13062503 3.93e-03 68_[+1(1.09e-05)]_4 chrX:9467789-9467869 1.35e-01 80 chrIV:17278508-17278588 2.13e-02 80 chrX:9465818-9465898 1.78e-03 64_[+2(1.03e-05)]_8 chrIV:3384739-3384819 7.69e-04 12_[+1(1.09e-05)]_60 chrX:7068737-7068817 2.16e-01 80 chrX:8019938-8020018 1.39e-01 80 chrI:13373037-13373117 2.23e-02 41_[+1(1.09e-05)]_31 chrX:489927-490007 1.73e-01 80 chrX:1880822-1880902 7.98e-03 80 chrIII:6421296-6421376 1.11e-01 80 chrIII:9546109-9546189 2.25e-01 80 chrV:1151441-1151521 3.94e-03 23_[+2(3.41e-05)]_49 chrX:11937474-11937554 3.44e-03 66_[+2(4.55e-06)]_6 chrX:1627074-1627154 7.66e-03 31_[+2(1.03e-05)]_41 chrIV:1094310-1094390 1.37e-04 21_[+4(5.69e-06)]_5_[+4(1.04e-05)]_\ 38 chrX:13700823-13700903 4.63e-01 80 chrX:806656-806736 5.35e-05 17_[+2(1.68e-06)]_10_[+1(1.09e-05)]_\ 37 chrII:14251810-14251890 4.16e-01 80 chrII:13834510-13834590 9.58e-02 80 chrIV:16656418-16656498 2.67e-02 80 chrV:9344292-9344372 9.08e-01 80 chrX:14525877-14525957 4.91e-05 24_[+1(3.47e-05)]_15_[+2(1.03e-05)]_\ 25 chrX:11094162-11094242 1.82e-05 65_[+1(3.47e-05)]_7 chrII:10869027-10869107 5.45e-01 80 chrIII:13643726-13643806 6.70e-06 12_[+4(1.70e-05)]_20_[+2(3.70e-05)]_\ 32 chrI:11374404-11374484 2.79e-06 47_[+3(3.74e-05)]_10_[+4(1.40e-05)]_\ 7 chrX:2997060-2997140 6.91e-04 64_[+1(3.47e-05)]_8 chrX:4209225-4209305 2.72e-05 22_[+2(4.99e-05)]_12_[+1(3.47e-05)]_\ 16_[+2(1.03e-05)]_6 chrII:11759402-11759482 7.61e-03 67_[+3(1.55e-05)]_5 chrX:8036402-8036482 1.55e-04 [+1(3.47e-05)]_24_[+2(1.68e-06)]_40 chrV:5049455-5049535 6.18e-01 80 chrX:4190739-4190819 7.72e-04 9_[+3(3.01e-05)]_63 chrIV:796711-796791 3.96e-01 80 chrX:6296521-6296601 7.47e-05 26_[+2(1.68e-06)]_20_[+2(1.68e-06)]_\ 18 chrIII:1921450-1921530 1.13e-01 80 chrI:382516-382596 2.25e-02 9_[+3(5.95e-05)]_63 chrI:14759515-14759595 5.47e-04 8_[+4(1.21e-05)]_64 chrX:5801276-5801356 2.77e-02 1_[+4(1.40e-05)]_71 chrIII:5080896-5080976 3.95e-03 47_[+3(1.82e-05)]_25 chrII:5844786-5844866 3.77e-02 80 chrIII:12250426-12250506 3.60e-01 80 chrV:14055137-14055217 2.99e-01 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c23n02.farnam.hpc.yale.internal ********************************************************************************