******************************************************************************** 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/nhr-6.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrII:29712-29792 1.0000 80 chrII:1457-1537 1.0000 80 chrII:8374-8454 1.0000 80 chrII:767-847 1.0000 80 chrII:6514-6594 1.0000 80 chrII:4476-4556 1.0000 80 chrII:28480-28560 1.0000 80 chrII:31705-31785 1.0000 80 chrX:11462178-11462258 1.0000 80 chrII:22145-22225 1.0000 80 chrIII:352240-352320 1.0000 80 chrI:4908218-4908298 1.0000 80 chrII:25308-25388 1.0000 80 chrII:30287-30367 1.0000 80 chrX:6281228-6281308 1.0000 80 chrV:6225345-6225425 1.0000 80 chrV:726920-727000 1.0000 80 chrI:6340189-6340269 1.0000 80 chrII:2881-2961 1.0000 80 chrI:14905280-14905360 1.0000 80 chrIV:6751389-6751469 1.0000 80 chrV:8654721-8654801 1.0000 80 chrX:2596798-2596878 1.0000 80 chrV:11531146-11531226 1.0000 80 chrII:7339177-7339257 1.0000 80 chrX:9085982-9086062 1.0000 80 chrX:11464552-11464632 1.0000 80 chrX:7952415-7952495 1.0000 80 chrIII:7488449-7488529 1.0000 80 chrV:11889757-11889837 1.0000 80 chrII:3960455-3960535 1.0000 80 chrX:9667587-9667667 1.0000 80 chrIV:11068421-11068501 1.0000 80 chrIII:5951727-5951807 1.0000 80 chrX:10678311-10678391 1.0000 80 chrII:23340-23420 1.0000 80 chrX:6741677-6741757 1.0000 80 chrIV:9670157-9670237 1.0000 80 chrX:14562431-14562511 1.0000 80 chrV:979862-979942 1.0000 80 chrIV:11489658-11489738 1.0000 80 chrII:19997-20077 1.0000 80 chrII:8128436-8128516 1.0000 80 chrII:20686-20766 1.0000 80 chrII:9561018-9561098 1.0000 80 chrIV:247679-247759 1.0000 80 chrV:11616019-11616099 1.0000 80 chrX:13974843-13974923 1.0000 80 chrIV:8762616-8762696 1.0000 80 chrX:13539910-13539990 1.0000 80 chrV:10002871-10002951 1.0000 80 chrIV:5764569-5764649 1.0000 80 chrV:5425225-5425305 1.0000 80 chrIII:6988251-6988331 1.0000 80 chrIV:10972003-10972083 1.0000 80 chrIII:8229682-8229762 1.0000 80 chrX:4208637-4208717 1.0000 80 chrII:6928541-6928621 1.0000 80 chrII:26755-26835 1.0000 80 chrII:10335-10415 1.0000 80 chrII:10557393-10557473 1.0000 80 chrX:13781247-13781327 1.0000 80 chrIII:3875761-3875841 1.0000 80 chrV:8936995-8937075 1.0000 80 chrI:5540705-5540785 1.0000 80 chrIII:62629-62709 1.0000 80 chrII:5201155-5201235 1.0000 80 chrX:5828254-5828334 1.0000 80 chrIV:10976107-10976187 1.0000 80 chrII:27777-27857 1.0000 80 chrII:6826827-6826907 1.0000 80 chrX:9549079-9549159 1.0000 80 chrIV:8529239-8529319 1.0000 80 chrX:7811155-7811235 1.0000 80 chrIV:5563563-5563643 1.0000 80 chrX:5982964-5983044 1.0000 80 chrIII:3773392-3773472 1.0000 80 chrII:8822827-8822907 1.0000 80 chrX:14478367-14478447 1.0000 80 chrIV:8526130-8526210 1.0000 80 chrV:10041690-10041770 1.0000 80 chrIII:6364557-6364637 1.0000 80 chrIII:8733254-8733334 1.0000 80 chrII:6835674-6835754 1.0000 80 chrIII:3864299-3864379 1.0000 80 chrV:619198-619278 1.0000 80 chrV:6030617-6030697 1.0000 80 chrI:14922760-14922840 1.0000 80 chrIV:6514909-6514989 1.0000 80 chrIV:14622188-14622268 1.0000 80 chrII:8813785-8813865 1.0000 80 chrIII:2804660-2804740 1.0000 80 chrX:5117712-5117792 1.0000 80 chrX:8475330-8475410 1.0000 80 chrV:8658742-8658822 1.0000 80 chrII:6821364-6821444 1.0000 80 chrII:14559-14639 1.0000 80 chrII:5725273-5725353 1.0000 80 chrI:14924706-14924786 1.0000 80 chrX:14508093-14508173 1.0000 80 chrX:13348555-13348635 1.0000 80 chrX:7230467-7230547 1.0000 80 chrX:5944135-5944215 1.0000 80 chrII:11129-11209 1.0000 80 chrX:9403771-9403851 1.0000 80 chrV:10043338-10043418 1.0000 80 chrIII:10153248-10153328 1.0000 80 chrII:7059483-7059563 1.0000 80 chrI:9842492-9842572 1.0000 80 chrX:5803617-5803697 1.0000 80 chrI:6381000-6381080 1.0000 80 chrX:1964946-1965026 1.0000 80 chrIII:9704386-9704466 1.0000 80 chrX:13920525-13920605 1.0000 80 chrIV:12651790-12651870 1.0000 80 chrII:10504965-10505045 1.0000 80 chrI:1693322-1693402 1.0000 80 chrX:6743025-6743105 1.0000 80 chrV:9732010-9732090 1.0000 80 chrX:4142761-4142841 1.0000 80 chrX:2139194-2139274 1.0000 80 chrV:6226245-6226325 1.0000 80 chrV:11082586-11082666 1.0000 80 chrI:12179505-12179585 1.0000 80 chrII:9284717-9284797 1.0000 80 chrV:11196795-11196875 1.0000 80 chrII:7323439-7323519 1.0000 80 chrX:864469-864549 1.0000 80 chrX:17056296-17056376 1.0000 80 chrV:20829062-20829142 1.0000 80 chrIV:6767384-6767464 1.0000 80 chrII:10446452-10446532 1.0000 80 chrV:9074527-9074607 1.0000 80 chrX:14334276-14334356 1.0000 80 chrIV:5805684-5805764 1.0000 80 chrV:11122646-11122726 1.0000 80 chrII:9061319-9061399 1.0000 80 chrII:11636867-11636947 1.0000 80 chrV:17871220-17871300 1.0000 80 chrV:7415981-7416061 1.0000 80 chrX:8236138-8236218 1.0000 80 chrIII:4317250-4317330 1.0000 80 chrX:17428008-17428088 1.0000 80 chrX:15706260-15706340 1.0000 80 chrX:13768706-13768786 1.0000 80 chrIV:6792516-6792596 1.0000 80 chrV:10273909-10273989 1.0000 80 chrI:9426214-9426294 1.0000 80 chrV:3716498-3716578 1.0000 80 chrIII:7300393-7300473 1.0000 80 chrX:7682553-7682633 1.0000 80 chrX:4899478-4899558 1.0000 80 chrII:9064574-9064654 1.0000 80 chrI:7474835-7474915 1.0000 80 chrIII:8982257-8982337 1.0000 80 chrIII:11814772-11814852 1.0000 80 chrIV:14272638-14272718 1.0000 80 chrII:10543233-10543313 1.0000 80 chrII:11966832-11966912 1.0000 80 chrIII:8125413-8125493 1.0000 80 chrIV:8028430-8028510 1.0000 80 chrIV:14612870-14612950 1.0000 80 chrIV:5561495-5561575 1.0000 80 chrV:9516413-9516493 1.0000 80 chrI:5826680-5826760 1.0000 80 chrX:6916291-6916371 1.0000 80 chrIII:10882131-10882211 1.0000 80 chrI:10866677-10866757 1.0000 80 chrIV:4401061-4401141 1.0000 80 chrX:13143860-13143940 1.0000 80 chrV:9690884-9690964 1.0000 80 chrV:10953683-10953763 1.0000 80 chrX:7236920-7237000 1.0000 80 chrIV:4477221-4477301 1.0000 80 chrII:9620676-9620756 1.0000 80 chrI:6810560-6810640 1.0000 80 chrIV:309618-309698 1.0000 80 chrII:21132-21212 1.0000 80 chrX:4141242-4141322 1.0000 80 chrIV:6959641-6959721 1.0000 80 chrI:7087477-7087557 1.0000 80 chrII:7838823-7838903 1.0000 80 chrI:9721032-9721112 1.0000 80 chrIII:9441384-9441464 1.0000 80 chrIV:8068005-8068085 1.0000 80 chrIV:8949850-8949930 1.0000 80 chrV:9958935-9959015 1.0000 80 chrX:7793801-7793881 1.0000 80 chrIV:3645067-3645147 1.0000 80 chrIV:11957323-11957403 1.0000 80 chrIII:9666376-9666456 1.0000 80 chrIII:13534838-13534918 1.0000 80 chrIII:8986975-8987055 1.0000 80 chrIII:13563122-13563202 1.0000 80 chrII:10558611-10558691 1.0000 80 chrIV:8334079-8334159 1.0000 80 chrX:3839292-3839372 1.0000 80 chrII:8741491-8741571 1.0000 80 chrX:12200786-12200866 1.0000 80 chrIV:5656079-5656159 1.0000 80 chrV:9274469-9274549 1.0000 80 chrI:7479439-7479519 1.0000 80 chrIV:6393472-6393552 1.0000 80 chrI:10104311-10104391 1.0000 80 chrX:3788711-3788791 1.0000 80 chrX:11791957-11792037 1.0000 80 chrX:5780869-5780949 1.0000 80 chrX:14558174-14558254 1.0000 80 chrX:3111858-3111938 1.0000 80 chrIV:5593971-5594051 1.0000 80 chrIII:6355004-6355084 1.0000 80 chrX:5896045-5896125 1.0000 80 chrIV:8069099-8069179 1.0000 80 chrV:3391146-3391226 1.0000 80 chrV:4508311-4508391 1.0000 80 chrII:6849477-6849557 1.0000 80 chrII:6824006-6824086 1.0000 80 chrI:11840836-11840916 1.0000 80 chrI:14939823-14939903 1.0000 80 chrX:11472126-11472206 1.0000 80 chrIV:7391651-7391731 1.0000 80 chrIV:9090673-9090753 1.0000 80 chrII:12262726-12262806 1.0000 80 chrX:7284969-7285049 1.0000 80 chrI:4299714-4299794 1.0000 80 chrX:2819852-2819932 1.0000 80 chrI:6206691-6206771 1.0000 80 chrIV:7047178-7047258 1.0000 80 chrIV:4473082-4473162 1.0000 80 chrX:6736680-6736760 1.0000 80 chrII:5276819-5276899 1.0000 80 chrX:13014549-13014629 1.0000 80 chrI:1273948-1274028 1.0000 80 chrI:10103443-10103523 1.0000 80 chrX:12513476-12513556 1.0000 80 chrII:8263710-8263790 1.0000 80 chrI:7550339-7550419 1.0000 80 chrII:14605072-14605152 1.0000 80 chrIII:4313582-4313662 1.0000 80 chrV:8025435-8025515 1.0000 80 chrII:9934090-9934170 1.0000 80 chrIV:11647087-11647167 1.0000 80 chrII:5042644-5042724 1.0000 80 chrIV:14594370-14594450 1.0000 80 chrV:16040606-16040686 1.0000 80 chrIII:10903364-10903444 1.0000 80 chrIII:10905221-10905301 1.0000 80 chrIV:13083410-13083490 1.0000 80 chrX:2891493-2891573 1.0000 80 chrIII:9703086-9703166 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_nhr-6/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/nhr-6.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 0.213 G 0.195 T 0.304 Background letter frequencies (from file dataset with add-one prior applied): A 0.288 C 0.213 G 0.195 T 0.304 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GARARAGA MEME-1 width = 8 sites = 68 llr = 527 E-value = 2.7e-020 ******************************************************************************** -------------------------------------------------------------------------------- Motif GARARAGA MEME-1 Description -------------------------------------------------------------------------------- Simplified A 19574a3a pos.-specific C :1:::::: probability G 9:536:8: matrix T :::::::: bits 2.4 2.1 1.9 * 1.7 * * * Relative 1.4 ** *** Entropy 1.2 *** **** (11.2 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GAGAGAGA consensus AGA A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARARAGA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:5656079-5656159 7 9.95e-06 gagaga gagagaga gagagacaga chrIV:11957323-11957403 22 9.95e-06 CTCTGTGCTC GAGAGAGA AAACCATTAG chrIV:8068005-8068085 67 9.95e-06 ATCGGAATGA GAGAGAGA AAAAGA chrIV:4477221-4477301 24 9.95e-06 TGGACTGGGT gagagaga gagagagatg chrIII:8982257-8982337 26 9.95e-06 AAAAAATGAA GAGAGAGA GTGAAGAGAT chrI:9426214-9426294 26 9.95e-06 CGTATGTAAA GAGAGAGA GAAAGCCCAA chrIV:12651790-12651870 3 9.95e-06 ga gagagaga gaAACAAAAT chrII:5725273-5725353 5 9.95e-06 CACG GAGAGAGA TAGAAACGCC chrIII:6364557-6364637 61 9.95e-06 AGAAAAGTGG GAGAGAGA GTGAAGGATA chrIV:10976107-10976187 46 9.95e-06 CGCGAGGAGA GAGAGAGA GTTGATGTCA chrX:7793801-7793881 29 3.14e-05 aaatcataat gaaagaga GCGGAGACGC chrIV:14272638-14272718 46 3.14e-05 TGCTCTCAAA GAGGGAGA GAGTGGACAC chrX:4899478-4899558 57 3.14e-05 CTTTTCAAAA GAAAGAGA AGGAGAAAGA chrV:10273909-10273989 10 3.14e-05 ATGCTTGCG GAAAGAGA GAAAACAGAG chrI:14924706-14924786 10 3.14e-05 AGAAAAAAA GAAAGAGA GAGCGcttct chrV:6030617-6030697 51 3.14e-05 gagagataga gagggaga agagagataa chrV:8936995-8937075 32 3.14e-05 CTATTACAAT GAAAGAGA AAAAGAATAT chrIV:8762616-8762696 44 3.14e-05 GGGGGACAGA GAGGGAGA GGGTTAAAAG chrX:13014549-13014629 54 4.13e-05 CATTCTGAAA GAAGGAGA TGAAGACACA chrI:6810560-6810640 59 4.13e-05 CAGGGATGGA GAAGGAGA AGCCTTAATT chrII:7059483-7059563 12 4.13e-05 AAGGGCACCA GAAGGAGA GAGTTCAAGT chrI:6206691-6206771 64 8.77e-05 AAACGACCTG GAAAAAGA ACGTTGAAT chrX:11791957-11792037 11 8.77e-05 ACgagataga gaaaaaga acagtggaag chrX:5944135-5944215 61 8.77e-05 TAAAGGGTTG GAAAAAGA TAGGTAAAAG chrII:14559-14639 66 8.77e-05 TCCAACTCTT GAAAAAGA TCAGTTC chrX:5117712-5117792 21 8.77e-05 ATGTACAAAT GAAAAAGA GCATCAGCAA chrIII:3773392-3773472 62 8.77e-05 GATTGGCAGA GAAAAAGA GTGTTTGTGT chrX:5982964-5983044 37 8.77e-05 aaagaaaaaa gaaaaaga agaagCTGAG chrI:5540705-5540785 63 8.77e-05 ggaaaaaaag gaaaaaga cgaCACActt chrII:10335-10415 57 8.77e-05 ATTTTCAGTT GAAAAAGA CGATGCATCA chrII:9934090-9934170 30 1.02e-04 AGGTATTCCA GAGAGAAA CCAGAAAATT chrIII:13534838-13534918 35 1.02e-04 AAGTGTCGGT GAGAGAAA AAAAGGAAAA chrII:21132-21212 23 1.02e-04 AGAAGAAGCT GAGAGAAA GTTGCAAGAA chrI:5826680-5826760 65 1.02e-04 TTTGGTTTTC GAGAGAAA AATGATGA chrV:3716498-3716578 36 1.02e-04 CGATGGAGAA GAGAGAAA TTTGAGGAGA chrX:7230467-7230547 64 1.02e-04 TCGAACATGC GAGAGAAA TACTCGGTT chrX:7811155-7811235 16 1.02e-04 TAGAGAGATG GAGAGAAA AAAGCAACCT chrV:10002871-10002951 61 1.02e-04 ACAAGAGGGT GAGAGAAA CCAGTTTGTG chrIV:13083410-13083490 2 1.17e-04 G GAAGAAGA TTTCGTTTGT chrX:7284969-7285049 62 1.17e-04 agaagaagaa gaagaaga agaaggagga chrIV:14622188-14622268 66 1.17e-04 AGCTGCATGA GAAGAAGA CGTCGAC chrIII:3875761-3875841 8 1.17e-04 TGTCTAG GAAGAAGA AAAGAAACAA chrI:4299714-4299794 42 1.49e-04 TGCATCGGCG GAGGGAAA AGCATAGAAC chrV:11196795-11196875 39 1.49e-04 ACAGGTAAAT GAGGGAAA CGGGAGTGCC chrI:6340189-6340269 59 1.63e-04 TCTATTGAAT AAGAGAGA TCTCCGTCTA chrX:6281228-6281308 42 1.63e-04 ATACATGCCA AAGAGAGA TAGTATGACC chrX:9667587-9667667 39 1.71e-04 GGCCTTATTT GCGAGAGA GCGTTTATAA chrIII:9704386-9704466 56 2.07e-04 TTATTGAGAT GAGAAAAA TAAATAGATA chrII:10504965-10505045 64 2.39e-04 ATTCTTCGAA AAAAGAGA GTCAAATGG chrI:10104311-10104391 34 2.55e-04 AATCGCGCAC GCGGGAGA ATAAAAAAAA chrII:28480-28560 69 2.55e-04 TTGGCATTTA GCAAGAGA AGGG chrX:12513476-12513556 47 2.65e-04 GGCGGAAGAG GAGTGAGA AATGCACACT chrI:11840836-11840916 70 2.65e-04 TAGAATGAGT GAGTGAGA GTG chrX:6916291-6916371 22 3.12e-04 AGAAGATGTT GAAAAAAA AACGGGGTCA chrII:10543233-10543313 67 3.27e-04 GAAGGTAATA AAAGGAGA ACTGCC chrII:25308-25388 17 3.56e-04 GTTGGCAAAG AAGAAAGA AGCCGCACGA chrI:7550339-7550419 4 3.82e-04 TGA GAATGAGA GTGTATCTTT chrII:10446452-10446532 40 4.04e-04 ACGAAACAAC GAAGAAAA ATCATGTGAG chrIII:3864299-3864379 2 4.04e-04 A GAAGAAAA AACGAAACGA chrII:4476-4556 58 4.04e-04 TCTACAGTGC GAAGAAAA TGCCAAAAAT chrI:10866677-10866757 17 4.50e-04 AGAGCGTATT AAAAAAGA AGAGAAGAAA chrV:6226245-6226325 13 4.50e-04 GAAACACATA AAAAAAGA TTTTCCTGAT chrII:29712-29792 70 4.50e-04 TTTTATTTCG AAAAAAGA CAG chrII:7838823-7838903 53 4.74e-04 TAATGGGCTC GCGGAAGA GCCCCCGCAA chrI:7479439-7479519 25 5.11e-04 AGGAGAGTAG AAGAGAAA TGAAGATGAA chrII:12262726-12262806 32 5.29e-04 AAGTCGGTTG GAGAGAGG TTACCCGCTA chrV:11616019-11616099 73 5.50e-04 AGAATTTTCG AAAGAAGA chrIII:62629-62709 37 6.69e-04 TGAACAATAG GCGGGAAA TTTTGTTTCA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARARAGA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:5656079-5656159 9.9e-06 6_[+1]_66 chrIV:11957323-11957403 9.9e-06 21_[+1]_51 chrIV:8068005-8068085 9.9e-06 66_[+1]_6 chrIV:4477221-4477301 9.9e-06 23_[+1]_49 chrIII:8982257-8982337 9.9e-06 25_[+1]_47 chrI:9426214-9426294 9.9e-06 25_[+1]_47 chrIV:12651790-12651870 9.9e-06 2_[+1]_70 chrII:5725273-5725353 9.9e-06 4_[+1]_68 chrIII:6364557-6364637 9.9e-06 60_[+1]_12 chrIV:10976107-10976187 9.9e-06 45_[+1]_27 chrX:7793801-7793881 3.1e-05 28_[+1]_44 chrIV:14272638-14272718 3.1e-05 45_[+1]_27 chrX:4899478-4899558 3.1e-05 56_[+1]_16 chrV:10273909-10273989 3.1e-05 9_[+1]_63 chrI:14924706-14924786 3.1e-05 9_[+1]_63 chrV:6030617-6030697 3.1e-05 50_[+1]_22 chrV:8936995-8937075 3.1e-05 31_[+1]_41 chrIV:8762616-8762696 3.1e-05 43_[+1]_29 chrX:13014549-13014629 4.1e-05 53_[+1]_19 chrI:6810560-6810640 4.1e-05 58_[+1]_14 chrII:7059483-7059563 4.1e-05 11_[+1]_61 chrI:6206691-6206771 8.8e-05 63_[+1]_9 chrX:11791957-11792037 8.8e-05 10_[+1]_62 chrX:5944135-5944215 8.8e-05 60_[+1]_12 chrII:14559-14639 8.8e-05 65_[+1]_7 chrX:5117712-5117792 8.8e-05 20_[+1]_52 chrIII:3773392-3773472 8.8e-05 61_[+1]_11 chrX:5982964-5983044 8.8e-05 36_[+1]_36 chrI:5540705-5540785 8.8e-05 62_[+1]_10 chrII:10335-10415 8.8e-05 56_[+1]_16 chrII:9934090-9934170 0.0001 29_[+1]_43 chrIII:13534838-13534918 0.0001 34_[+1]_38 chrII:21132-21212 0.0001 22_[+1]_50 chrI:5826680-5826760 0.0001 64_[+1]_8 chrV:3716498-3716578 0.0001 35_[+1]_37 chrX:7230467-7230547 0.0001 63_[+1]_9 chrX:7811155-7811235 0.0001 15_[+1]_57 chrV:10002871-10002951 0.0001 60_[+1]_12 chrIV:13083410-13083490 0.00012 1_[+1]_71 chrX:7284969-7285049 0.00012 61_[+1]_11 chrIV:14622188-14622268 0.00012 65_[+1]_7 chrIII:3875761-3875841 0.00012 7_[+1]_65 chrI:4299714-4299794 0.00015 41_[+1]_31 chrV:11196795-11196875 0.00015 38_[+1]_34 chrI:6340189-6340269 0.00016 58_[+1]_14 chrX:6281228-6281308 0.00016 41_[+1]_31 chrX:9667587-9667667 0.00017 38_[+1]_34 chrIII:9704386-9704466 0.00021 55_[+1]_17 chrII:10504965-10505045 0.00024 63_[+1]_9 chrI:10104311-10104391 0.00025 33_[+1]_39 chrII:28480-28560 0.00025 68_[+1]_4 chrX:12513476-12513556 0.00027 46_[+1]_26 chrI:11840836-11840916 0.00027 69_[+1]_3 chrX:6916291-6916371 0.00031 21_[+1]_51 chrII:10543233-10543313 0.00033 66_[+1]_6 chrII:25308-25388 0.00036 16_[+1]_56 chrI:7550339-7550419 0.00038 3_[+1]_69 chrII:10446452-10446532 0.0004 39_[+1]_33 chrIII:3864299-3864379 0.0004 1_[+1]_71 chrII:4476-4556 0.0004 57_[+1]_15 chrI:10866677-10866757 0.00045 16_[+1]_56 chrV:6226245-6226325 0.00045 12_[+1]_60 chrII:29712-29792 0.00045 69_[+1]_3 chrII:7838823-7838903 0.00047 52_[+1]_20 chrI:7479439-7479519 0.00051 24_[+1]_48 chrII:12262726-12262806 0.00053 31_[+1]_41 chrV:11616019-11616099 0.00055 72_[+1] chrIII:62629-62709 0.00067 36_[+1]_36 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARARAGA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GARARAGA width=8 seqs=68 chrIV:5656079-5656159 ( 7) GAGAGAGA 1 chrIV:11957323-11957403 ( 22) GAGAGAGA 1 chrIV:8068005-8068085 ( 67) GAGAGAGA 1 chrIV:4477221-4477301 ( 24) GAGAGAGA 1 chrIII:8982257-8982337 ( 26) GAGAGAGA 1 chrI:9426214-9426294 ( 26) GAGAGAGA 1 chrIV:12651790-12651870 ( 3) GAGAGAGA 1 chrII:5725273-5725353 ( 5) GAGAGAGA 1 chrIII:6364557-6364637 ( 61) GAGAGAGA 1 chrIV:10976107-10976187 ( 46) GAGAGAGA 1 chrX:7793801-7793881 ( 29) GAAAGAGA 1 chrIV:14272638-14272718 ( 46) GAGGGAGA 1 chrX:4899478-4899558 ( 57) GAAAGAGA 1 chrV:10273909-10273989 ( 10) GAAAGAGA 1 chrI:14924706-14924786 ( 10) GAAAGAGA 1 chrV:6030617-6030697 ( 51) GAGGGAGA 1 chrV:8936995-8937075 ( 32) GAAAGAGA 1 chrIV:8762616-8762696 ( 44) GAGGGAGA 1 chrX:13014549-13014629 ( 54) GAAGGAGA 1 chrI:6810560-6810640 ( 59) GAAGGAGA 1 chrII:7059483-7059563 ( 12) GAAGGAGA 1 chrI:6206691-6206771 ( 64) GAAAAAGA 1 chrX:11791957-11792037 ( 11) GAAAAAGA 1 chrX:5944135-5944215 ( 61) GAAAAAGA 1 chrII:14559-14639 ( 66) GAAAAAGA 1 chrX:5117712-5117792 ( 21) GAAAAAGA 1 chrIII:3773392-3773472 ( 62) GAAAAAGA 1 chrX:5982964-5983044 ( 37) GAAAAAGA 1 chrI:5540705-5540785 ( 63) GAAAAAGA 1 chrII:10335-10415 ( 57) GAAAAAGA 1 chrII:9934090-9934170 ( 30) GAGAGAAA 1 chrIII:13534838-13534918 ( 35) GAGAGAAA 1 chrII:21132-21212 ( 23) GAGAGAAA 1 chrI:5826680-5826760 ( 65) GAGAGAAA 1 chrV:3716498-3716578 ( 36) GAGAGAAA 1 chrX:7230467-7230547 ( 64) GAGAGAAA 1 chrX:7811155-7811235 ( 16) GAGAGAAA 1 chrV:10002871-10002951 ( 61) GAGAGAAA 1 chrIV:13083410-13083490 ( 2) GAAGAAGA 1 chrX:7284969-7285049 ( 62) GAAGAAGA 1 chrIV:14622188-14622268 ( 66) GAAGAAGA 1 chrIII:3875761-3875841 ( 8) GAAGAAGA 1 chrI:4299714-4299794 ( 42) GAGGGAAA 1 chrV:11196795-11196875 ( 39) GAGGGAAA 1 chrI:6340189-6340269 ( 59) AAGAGAGA 1 chrX:6281228-6281308 ( 42) AAGAGAGA 1 chrX:9667587-9667667 ( 39) GCGAGAGA 1 chrIII:9704386-9704466 ( 56) GAGAAAAA 1 chrII:10504965-10505045 ( 64) AAAAGAGA 1 chrI:10104311-10104391 ( 34) GCGGGAGA 1 chrII:28480-28560 ( 69) GCAAGAGA 1 chrX:12513476-12513556 ( 47) GAGTGAGA 1 chrI:11840836-11840916 ( 70) GAGTGAGA 1 chrX:6916291-6916371 ( 22) GAAAAAAA 1 chrII:10543233-10543313 ( 67) AAAGGAGA 1 chrII:25308-25388 ( 17) AAGAAAGA 1 chrI:7550339-7550419 ( 4) GAATGAGA 1 chrII:10446452-10446532 ( 40) GAAGAAAA 1 chrIII:3864299-3864379 ( 2) GAAGAAAA 1 chrII:4476-4556 ( 58) GAAGAAAA 1 chrI:10866677-10866757 ( 17) AAAAAAGA 1 chrV:6226245-6226325 ( 13) AAAAAAGA 1 chrII:29712-29792 ( 70) AAAAAAGA 1 chrII:7838823-7838903 ( 53) GCGGAAGA 1 chrI:7479439-7479519 ( 25) AAGAGAAA 1 chrII:12262726-12262806 ( 32) GAGAGAGG 1 chrV:11616019-11616099 ( 73) AAAGAAGA 1 chrIII:62629-62709 ( 37) GCGGGAAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARARAGA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.8321 E= 2.7e-020 -97 -1273 213 -1273 168 -154 -1273 -1273 75 -1273 140 -1273 120 -1273 60 -278 29 -1273 173 -1273 179 -1273 -1273 -1273 -21 -1273 195 -1273 177 -1273 -372 -1273 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARARAGA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 68 E= 2.7e-020 0.147059 0.000000 0.852941 0.000000 0.926471 0.073529 0.000000 0.000000 0.485294 0.000000 0.514706 0.000000 0.661765 0.000000 0.294118 0.044118 0.352941 0.000000 0.647059 0.000000 1.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.750000 0.000000 0.985294 0.000000 0.014706 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARARAGA MEME-1 regular expression -------------------------------------------------------------------------------- GA[GA][AG][GA]A[GA]A -------------------------------------------------------------------------------- Time 8.27 secs. ******************************************************************************** ******************************************************************************** MOTIF YTYTYTCT MEME-2 width = 8 sites = 87 llr = 615 E-value = 7.6e-016 ******************************************************************************** -------------------------------------------------------------------------------- Motif YTYTYTCT MEME-2 Description -------------------------------------------------------------------------------- Simplified A :::::::2 pos.-specific C 5:4:6:a1 probability G 1::::::2 matrix T 4a6a4a:5 bits 2.4 2.1 * 1.9 * 1.7 * * ** Relative 1.4 * * ** Entropy 1.2 * * ** (10.2 bits) 0.9 ****** 0.7 ******* 0.5 ******* 0.2 ******** 0.0 -------- Multilevel CTTTCTCT consensus T C T A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTYTYTCT MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrI:1273948-1274028 21 1.76e-05 GTTTTTGtct ctctctct ctctctctct chrI:14939823-14939903 54 1.76e-05 ctctctcccc ctctctct ctccctctct chrII:6824006-6824086 65 1.76e-05 tccttttttt ctctctct cGGGTTTT chrIV:4401061-4401141 55 1.76e-05 ctctctctct ctctctct ctctctctct chrIV:5561495-5561575 20 1.76e-05 ATTGGtctct ctctctct ctctctctct chrI:12179505-12179585 33 1.76e-05 tactctctct ctctctct ctcctctACG chrV:9732010-9732090 26 1.76e-05 TTCGTTCTTT CTCTCTCT CATTTTGTGC chrI:9842492-9842572 29 1.76e-05 CATTCCCCCT CTCTCTCT TTTGCGCCGC chrV:619198-619278 25 1.76e-05 GACGTCCATC CTCTCTCT GCGTCTCTTC chrV:979862-979942 62 1.76e-05 ctctctctct ctctctct ctctctctct chrII:29712-29792 44 1.76e-05 TCTTGCCCAT CTCTCTCT CTGTCTCTTT chrIII:10905221-10905301 72 4.27e-05 ctctccctct ctttctct c chrIII:6355004-6355084 4 4.27e-05 TCA CTTTCTCT CTTTAGGTTC chrII:7838823-7838903 9 4.27e-05 gtttctct ctttctct aaatctctTC chrV:10273909-10273989 33 4.27e-05 CAGAGACTCT CTTTCTCT CTATGAGAGC chrX:6743025-6743105 1 4.27e-05 . CTTTCTCT CATTTCTCTC chrII:6826827-6826907 23 4.27e-05 GTTTGCCCAA CTTTCTCT CGCCCATCTC chrII:9561018-9561098 4 4.27e-05 TAT CTTTCTCT CGACATTGTT chrV:17871220-17871300 59 5.39e-05 GTTTCATGTA CTCTCTCG TTCCAAGTTT chrX:7284969-7285049 14 7.00e-05 TCCAGCTTGC CTTTCTCG TTCTCATTGA chrI:9721032-9721112 40 9.51e-05 CTATTGCCAG TTCTCTCT ATCTCTCTTT chrIV:10972003-10972083 11 9.51e-05 CAGACCTTTT TTCTCTCT ATTTTTCATT chrI:10103443-10103523 19 1.56e-04 ACACATACTT TTTTCTCT GCTACACTCT chrIV:6959641-6959721 70 1.56e-04 ATCTTGTGTA TTTTCTCT AAA chrIV:5805684-5805764 26 1.56e-04 CCACGTTTAT TTTTCTCT GCGTCTCAGA chrIV:12651790-12651870 50 1.56e-04 TTCCTCGTCT TTTTCTCT GCGGCTCTCA chrII:5725273-5725353 73 1.56e-04 TCTTCTCCCA TTTTCTCT chrII:767-847 11 1.56e-04 AATGTTCTTT TTTTCTCT AAATCTCCAC chrX:2819852-2819932 14 2.08e-04 TTTAAATCAG CTCTCTCA CGCGCATTGC chrIV:8069099-8069179 1 2.08e-04 . CTTTTTCT TTGTGTTGGT chrIV:8334079-8334159 36 2.08e-04 TGGTGTACCA CTCTCTCA CTCTCTATCT chrIII:9666376-9666456 44 2.08e-04 ATTTACGTCA CTCTCTCA TCCCAGACAG chrI:9426214-9426294 69 2.08e-04 Acttcatctt ctttttct tcgc chrI:6381000-6381080 23 2.08e-04 CGTGACTTTA CTTTTTCT CATTGTTCGT chrX:7230467-7230547 10 2.08e-04 TTTTCACAA CTTTTTCT TTTTTTGCAA chrIV:6514909-6514989 14 2.08e-04 TGAGTCTTTC CTTTTTCT CCAAGCATTT chrI:14922760-14922840 34 2.08e-04 TTTTTTTCTT CTTTTTCT CCGACGAGGG chrX:13539910-13539990 13 2.08e-04 CAATCTTCAA CTTTTTCT TCGACACATT chrII:3960455-3960535 13 2.08e-04 ttcttctttt ctttttct tttcattttc chrV:7415981-7416061 35 2.32e-04 AACCCTCACA CTTTCTCA AGAAAATAGG chrIII:13563122-13563202 31 2.64e-04 TGGGAAATTG TTCTCTCG CACTTACACT chrX:7682553-7682633 40 2.64e-04 GAAATTGCTC TTCTCTCG CGACACACAC chrII:10504965-10505045 28 2.64e-04 GAGGAAACGT TTCTCTCG TCTGTCCACA chrIV:11489658-11489738 61 2.64e-04 CACATTTTGT Gtctctct ccatctatct chrV:16040606-16040686 66 3.26e-04 AGTGCACAGT TTTTCTCG GTCACTC chrII:5276819-5276899 11 3.26e-04 GTTAGTTTTC GTTTCTCT TATTTCTAAG chrX:14508093-14508173 45 3.26e-04 accttttcac ctctttcG CGTTGTATTG chrII:5201155-5201235 70 3.26e-04 GTGCTTCTCT GTTTCTCT TCC chrIV:247679-247759 66 3.26e-04 ATTTTGTCTA GTTTCTCT ATGTTTC chrIII:9703086-9703166 35 3.49e-04 AACTGTAAAA CTTTTTCG AATCGATTGC chrX:3788711-3788791 72 3.49e-04 AACATCTTCC CTTTTTCG T chrX:6281228-6281308 59 3.49e-04 ATAGTATGAC CTTTTTCG GCAAACAAAA chrX:5896045-5896125 6 3.85e-04 TTGTC TTCTTTCT TCTATTTTTC chrII:11966832-11966912 51 3.85e-04 GAGCAGCGCC TTCTTTCT GGTTCCCGAC chrX:13768706-13768786 33 3.85e-04 TTCTATTCTT TTCTTTCT CCATCTGCTT chrX:11464552-11464632 29 3.85e-04 CCATCTCCGT TTCTTTCT TCTCATCTCC chrIV:14594370-14594450 21 4.83e-04 CGAGGTAAAC TTTTTTCT TCACTGTTTT chrX:11472126-11472206 30 4.83e-04 TCACATGCCC TTCTCTCA TTGAGTCTCC chrI:7474835-7474915 73 4.83e-04 CTCCTTCAGT GTCTCTCG chrIII:4317250-4317330 40 4.83e-04 GACCATATTA CTCTCTCC CTCTGCACAT chrX:8236138-8236218 30 4.83e-04 AAAATAAATA CTCTCTCC CTCGCACGCA chrIII:3864299-3864379 70 4.83e-04 cagttttcct ttttttct ttc chrII:7339177-7339257 2 4.83e-04 T TTCTCTCA TTAATTACTC chrX:14334276-14334356 48 5.73e-04 GTTTTGCCTC GTTTCTCG CTTTCCATTC chrIII:6988251-6988331 50 5.73e-04 CCTCACTAAC CTCTTTCA ATTTAACACT chrIV:11068421-11068501 57 5.73e-04 TCAATTTAAG TTTTCTCA TGTGTTTATA chrII:6514-6594 27 5.73e-04 CGTTTCTCAG TTTTCTCA TGAATTCTCT chrII:5042644-5042724 49 6.07e-04 GCATTTTCCG CTTTTTCA GCATTCTTGT chrV:9074527-9074607 29 6.07e-04 AATGATGGAA CTTTTTCA AGTATAAACT chrIV:8529239-8529319 7 6.07e-04 CTTCGC CTTTTTCA GTGACGACGA chrII:10558611-10558691 38 6.53e-04 CGGATCACAA GTCTTTCT TTTAGCTTCC chrI:10104311-10104391 8 7.33e-04 TCCATAA GTCTCTCA ACCCTCAGAA chrIII:10882131-10882211 20 7.33e-04 AAAACCTAAT TTTTTTCG GCTTGACGCA chrII:31705-31785 44 7.33e-04 GGGGAAAATA TTTTTTCG ATTTCGAAAT chrII:1457-1537 64 7.73e-04 GTCCACTCAT TTCTCTCC CACTCACTA chrX:6736680-6736760 43 8.64e-04 ACACGTCCTT GTCTTTCG TCTTTGATTC chrX:2139194-2139274 18 8.64e-04 TTTTTCCGCC TTTTCTCC TCGTTTTTTT chrI:4908218-4908298 1 8.64e-04 . CTCTTTCC AATTTTGTTG chrV:10043338-10043418 51 9.59e-04 GTTTCTATGT TTTTTTCA ATATATGTCT chrIII:8229682-8229762 37 9.59e-04 CTTTTCCTAC TTTTTTCA ATTCTTCAGA chrII:23340-23420 48 9.59e-04 GACGTGTGGC GTTTTTCG CCATTGTTGT chrIII:5951727-5951807 70 9.59e-04 ATGTCTCGAG TTTTTTCA TGT chrII:4476-4556 4 9.59e-04 AGT GTTTTTCG ATACTCCCAC chrV:11889757-11889837 7 1.01e-03 CTTCCC GTCTTTCA TTCGTTGATA chrX:13014549-13014629 22 1.04e-03 CGATTCTGCA GTTTTTCA ACTTGCGCAG chrX:13920525-13920605 64 1.06e-03 GGTTTTTGCG TTCTTTCC GACTCCAAG chrIII:10903364-10903444 55 1.10e-03 TACCCCTCCA TTTTTTCC CTCTCGTTCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTYTYTCT MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:1273948-1274028 1.8e-05 20_[+2]_52 chrI:14939823-14939903 1.8e-05 53_[+2]_19 chrII:6824006-6824086 1.8e-05 64_[+2]_8 chrIV:4401061-4401141 1.8e-05 54_[+2]_18 chrIV:5561495-5561575 1.8e-05 19_[+2]_53 chrI:12179505-12179585 1.8e-05 32_[+2]_40 chrV:9732010-9732090 1.8e-05 25_[+2]_47 chrI:9842492-9842572 1.8e-05 28_[+2]_44 chrV:619198-619278 1.8e-05 24_[+2]_48 chrV:979862-979942 1.8e-05 61_[+2]_11 chrII:29712-29792 1.8e-05 43_[+2]_29 chrIII:10905221-10905301 4.3e-05 71_[+2]_1 chrIII:6355004-6355084 4.3e-05 3_[+2]_69 chrII:7838823-7838903 4.3e-05 8_[+2]_64 chrV:10273909-10273989 4.3e-05 32_[+2]_40 chrX:6743025-6743105 4.3e-05 [+2]_72 chrII:6826827-6826907 4.3e-05 22_[+2]_50 chrII:9561018-9561098 4.3e-05 3_[+2]_69 chrV:17871220-17871300 5.4e-05 58_[+2]_14 chrX:7284969-7285049 7e-05 13_[+2]_59 chrI:9721032-9721112 9.5e-05 39_[+2]_33 chrIV:10972003-10972083 9.5e-05 10_[+2]_62 chrI:10103443-10103523 0.00016 18_[+2]_54 chrIV:6959641-6959721 0.00016 69_[+2]_3 chrIV:5805684-5805764 0.00016 25_[+2]_47 chrIV:12651790-12651870 0.00016 49_[+2]_23 chrII:5725273-5725353 0.00016 72_[+2] chrII:767-847 0.00016 10_[+2]_62 chrX:2819852-2819932 0.00021 13_[+2]_59 chrIV:8069099-8069179 0.00021 [+2]_72 chrIV:8334079-8334159 0.00021 35_[+2]_37 chrIII:9666376-9666456 0.00021 43_[+2]_29 chrI:9426214-9426294 0.00021 68_[+2]_4 chrI:6381000-6381080 0.00021 22_[+2]_50 chrX:7230467-7230547 0.00021 9_[+2]_63 chrIV:6514909-6514989 0.00021 13_[+2]_59 chrI:14922760-14922840 0.00021 33_[+2]_39 chrX:13539910-13539990 0.00021 12_[+2]_60 chrII:3960455-3960535 0.00021 12_[+2]_60 chrV:7415981-7416061 0.00023 34_[+2]_38 chrIII:13563122-13563202 0.00026 30_[+2]_42 chrX:7682553-7682633 0.00026 39_[+2]_33 chrII:10504965-10505045 0.00026 27_[+2]_45 chrIV:11489658-11489738 0.00026 60_[+2]_12 chrV:16040606-16040686 0.00033 65_[+2]_7 chrII:5276819-5276899 0.00033 10_[+2]_62 chrX:14508093-14508173 0.00033 44_[+2]_28 chrII:5201155-5201235 0.00033 69_[+2]_3 chrIV:247679-247759 0.00033 65_[+2]_7 chrIII:9703086-9703166 0.00035 34_[+2]_38 chrX:3788711-3788791 0.00035 71_[+2]_1 chrX:6281228-6281308 0.00035 58_[+2]_14 chrX:5896045-5896125 0.00039 5_[+2]_67 chrII:11966832-11966912 0.00039 50_[+2]_22 chrX:13768706-13768786 0.00039 32_[+2]_40 chrX:11464552-11464632 0.00039 28_[+2]_44 chrIV:14594370-14594450 0.00048 20_[+2]_52 chrX:11472126-11472206 0.00048 29_[+2]_43 chrI:7474835-7474915 0.00048 72_[+2] chrIII:4317250-4317330 0.00048 39_[+2]_33 chrX:8236138-8236218 0.00048 29_[+2]_43 chrIII:3864299-3864379 0.00048 69_[+2]_3 chrII:7339177-7339257 0.00048 1_[+2]_71 chrX:14334276-14334356 0.00057 47_[+2]_25 chrIII:6988251-6988331 0.00057 49_[+2]_23 chrIV:11068421-11068501 0.00057 56_[+2]_16 chrII:6514-6594 0.00057 26_[+2]_46 chrII:5042644-5042724 0.00061 48_[+2]_24 chrV:9074527-9074607 0.00061 28_[+2]_44 chrIV:8529239-8529319 0.00061 6_[+2]_66 chrII:10558611-10558691 0.00065 37_[+2]_35 chrI:10104311-10104391 0.00073 7_[+2]_65 chrIII:10882131-10882211 0.00073 19_[+2]_53 chrII:31705-31785 0.00073 43_[+2]_29 chrII:1457-1537 0.00077 63_[+2]_9 chrX:6736680-6736760 0.00086 42_[+2]_30 chrX:2139194-2139274 0.00086 17_[+2]_55 chrI:4908218-4908298 0.00086 [+2]_72 chrV:10043338-10043418 0.00096 50_[+2]_22 chrIII:8229682-8229762 0.00096 36_[+2]_36 chrII:23340-23420 0.00096 47_[+2]_25 chrIII:5951727-5951807 0.00096 69_[+2]_3 chrII:4476-4556 0.00096 3_[+2]_69 chrV:11889757-11889837 0.001 6_[+2]_66 chrX:13014549-13014629 0.001 21_[+2]_51 chrX:13920525-13920605 0.0011 63_[+2]_9 chrIII:10903364-10903444 0.0011 54_[+2]_18 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTYTYTCT MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF YTYTYTCT width=8 seqs=87 chrI:1273948-1274028 ( 21) CTCTCTCT 1 chrI:14939823-14939903 ( 54) CTCTCTCT 1 chrII:6824006-6824086 ( 65) CTCTCTCT 1 chrIV:4401061-4401141 ( 55) CTCTCTCT 1 chrIV:5561495-5561575 ( 20) CTCTCTCT 1 chrI:12179505-12179585 ( 33) CTCTCTCT 1 chrV:9732010-9732090 ( 26) CTCTCTCT 1 chrI:9842492-9842572 ( 29) CTCTCTCT 1 chrV:619198-619278 ( 25) CTCTCTCT 1 chrV:979862-979942 ( 62) CTCTCTCT 1 chrII:29712-29792 ( 44) CTCTCTCT 1 chrIII:10905221-10905301 ( 72) CTTTCTCT 1 chrIII:6355004-6355084 ( 4) CTTTCTCT 1 chrII:7838823-7838903 ( 9) CTTTCTCT 1 chrV:10273909-10273989 ( 33) CTTTCTCT 1 chrX:6743025-6743105 ( 1) CTTTCTCT 1 chrII:6826827-6826907 ( 23) CTTTCTCT 1 chrII:9561018-9561098 ( 4) CTTTCTCT 1 chrV:17871220-17871300 ( 59) CTCTCTCG 1 chrX:7284969-7285049 ( 14) CTTTCTCG 1 chrI:9721032-9721112 ( 40) TTCTCTCT 1 chrIV:10972003-10972083 ( 11) TTCTCTCT 1 chrI:10103443-10103523 ( 19) TTTTCTCT 1 chrIV:6959641-6959721 ( 70) TTTTCTCT 1 chrIV:5805684-5805764 ( 26) TTTTCTCT 1 chrIV:12651790-12651870 ( 50) TTTTCTCT 1 chrII:5725273-5725353 ( 73) TTTTCTCT 1 chrII:767-847 ( 11) TTTTCTCT 1 chrX:2819852-2819932 ( 14) CTCTCTCA 1 chrIV:8069099-8069179 ( 1) CTTTTTCT 1 chrIV:8334079-8334159 ( 36) CTCTCTCA 1 chrIII:9666376-9666456 ( 44) CTCTCTCA 1 chrI:9426214-9426294 ( 69) CTTTTTCT 1 chrI:6381000-6381080 ( 23) CTTTTTCT 1 chrX:7230467-7230547 ( 10) CTTTTTCT 1 chrIV:6514909-6514989 ( 14) CTTTTTCT 1 chrI:14922760-14922840 ( 34) CTTTTTCT 1 chrX:13539910-13539990 ( 13) CTTTTTCT 1 chrII:3960455-3960535 ( 13) CTTTTTCT 1 chrV:7415981-7416061 ( 35) CTTTCTCA 1 chrIII:13563122-13563202 ( 31) TTCTCTCG 1 chrX:7682553-7682633 ( 40) TTCTCTCG 1 chrII:10504965-10505045 ( 28) TTCTCTCG 1 chrIV:11489658-11489738 ( 61) GTCTCTCT 1 chrV:16040606-16040686 ( 66) TTTTCTCG 1 chrII:5276819-5276899 ( 11) GTTTCTCT 1 chrX:14508093-14508173 ( 45) CTCTTTCG 1 chrII:5201155-5201235 ( 70) GTTTCTCT 1 chrIV:247679-247759 ( 66) GTTTCTCT 1 chrIII:9703086-9703166 ( 35) CTTTTTCG 1 chrX:3788711-3788791 ( 72) CTTTTTCG 1 chrX:6281228-6281308 ( 59) CTTTTTCG 1 chrX:5896045-5896125 ( 6) TTCTTTCT 1 chrII:11966832-11966912 ( 51) TTCTTTCT 1 chrX:13768706-13768786 ( 33) TTCTTTCT 1 chrX:11464552-11464632 ( 29) TTCTTTCT 1 chrIV:14594370-14594450 ( 21) TTTTTTCT 1 chrX:11472126-11472206 ( 30) TTCTCTCA 1 chrI:7474835-7474915 ( 73) GTCTCTCG 1 chrIII:4317250-4317330 ( 40) CTCTCTCC 1 chrX:8236138-8236218 ( 30) CTCTCTCC 1 chrIII:3864299-3864379 ( 70) TTTTTTCT 1 chrII:7339177-7339257 ( 2) TTCTCTCA 1 chrX:14334276-14334356 ( 48) GTTTCTCG 1 chrIII:6988251-6988331 ( 50) CTCTTTCA 1 chrIV:11068421-11068501 ( 57) TTTTCTCA 1 chrII:6514-6594 ( 27) TTTTCTCA 1 chrII:5042644-5042724 ( 49) CTTTTTCA 1 chrV:9074527-9074607 ( 29) CTTTTTCA 1 chrIV:8529239-8529319 ( 7) CTTTTTCA 1 chrII:10558611-10558691 ( 38) GTCTTTCT 1 chrI:10104311-10104391 ( 8) GTCTCTCA 1 chrIII:10882131-10882211 ( 20) TTTTTTCG 1 chrII:31705-31785 ( 44) TTTTTTCG 1 chrII:1457-1537 ( 64) TTCTCTCC 1 chrX:6736680-6736760 ( 43) GTCTTTCG 1 chrX:2139194-2139274 ( 18) TTTTCTCC 1 chrI:4908218-4908298 ( 1) CTCTTTCC 1 chrV:10043338-10043418 ( 51) TTTTTTCA 1 chrIII:8229682-8229762 ( 37) TTTTTTCA 1 chrII:23340-23420 ( 48) GTTTTTCG 1 chrIII:5951727-5951807 ( 70) TTTTTTCA 1 chrII:4476-4556 ( 4) GTTTTTCG 1 chrV:11889757-11889837 ( 7) GTCTTTCA 1 chrX:13014549-13014629 ( 22) GTTTTTCA 1 chrX:13920525-13920605 ( 64) TTCTTTCC 1 chrIII:10903364-10903444 ( 55) TTTTTTCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTYTYTCT MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.58084 E= 7.6e-016 -1309 121 -38 23 -1309 -1309 -1309 172 -1309 107 -1309 86 -1309 -1309 -1309 172 -1309 146 -1309 45 -1309 -1309 -1309 172 -1309 223 -1309 -1309 -48 -141 1 77 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTYTYTCT MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 87 E= 7.6e-016 0.000000 0.494253 0.149425 0.356322 0.000000 0.000000 0.000000 1.000000 0.000000 0.448276 0.000000 0.551724 0.000000 0.000000 0.000000 1.000000 0.000000 0.586207 0.000000 0.413793 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.206897 0.080460 0.195402 0.517241 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTYTYTCT MEME-2 regular expression -------------------------------------------------------------------------------- [CT]T[TC]T[CT]TC[TA] -------------------------------------------------------------------------------- Time 11.99 secs. ******************************************************************************** ******************************************************************************** MOTIF GAGAAGAG MEME-3 width = 8 sites = 15 llr = 145 E-value = 7.0e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif GAGAAGAG MEME-3 Description -------------------------------------------------------------------------------- Simplified A :8:97:a2 pos.-specific C :2:::::: probability G a:a13a:8 matrix T :::::::: bits 2.4 * * * 2.1 * * * 1.9 * * ** 1.7 * * ** Relative 1.4 * ** *** Entropy 1.2 ******** (14.0 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GAGAAGAG consensus C G A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAAGAG MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:6393472-6393552 7 9.95e-06 gatgat gagaagag gatcatgatg chrI:7479439-7479519 62 9.95e-06 GTTTGATTGA GAGAAGAG AGGAGCAATC chrI:6810560-6810640 23 9.95e-06 AGACTAAGAA GAGAAGAG ACGTAGAGAA chrX:17428008-17428088 10 9.95e-06 ACTTTTTGA GAGAAGAG GAATTTTTTT chrV:3716498-3716578 50 1.67e-05 GAAATTTGAG GAGAGGAG ATGGAAAGGC chrV:5425225-5425305 47 1.67e-05 ACGAATTCTC GAGAGGAG CAAACTTCTG chrII:25308-25388 52 1.67e-05 ATGCAATTAT GAGAGGAG CTCAGATATT chrIII:7300393-7300473 16 2.40e-05 ATTGCAAGAT GCGAAGAG ACCGTAAGGG chrIII:7488449-7488529 50 2.40e-05 GGATGAGACT GCGAAGAG GACTGGTAAT chrX:11791957-11792037 39 3.08e-05 agtaggtatc gaggagag atgtagagat chrIII:8982257-8982337 2 3.08e-05 A GAGGAGAG TGCGCGAAAA chrIV:10976107-10976187 37 3.58e-05 TTTGGTGACC GCGAGGAG AGAGAGAGAG chrIV:13083410-13083490 49 5.04e-05 TGTGTATTCT GAGAAGAA TTGATAAGAA chrII:8263710-8263790 6 5.04e-05 TCAAA GAGAAGAA CCGCGTGTCT chrI:10866677-10866757 26 5.04e-05 TAAAAAAGAA GAGAAGAA ACACGGGAGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAAGAG MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:6393472-6393552 9.9e-06 6_[+3]_66 chrI:7479439-7479519 9.9e-06 61_[+3]_11 chrI:6810560-6810640 9.9e-06 22_[+3]_50 chrX:17428008-17428088 9.9e-06 9_[+3]_63 chrV:3716498-3716578 1.7e-05 49_[+3]_23 chrV:5425225-5425305 1.7e-05 46_[+3]_26 chrII:25308-25388 1.7e-05 51_[+3]_21 chrIII:7300393-7300473 2.4e-05 15_[+3]_57 chrIII:7488449-7488529 2.4e-05 49_[+3]_23 chrX:11791957-11792037 3.1e-05 38_[+3]_34 chrIII:8982257-8982337 3.1e-05 1_[+3]_71 chrIV:10976107-10976187 3.6e-05 36_[+3]_36 chrIV:13083410-13083490 5e-05 48_[+3]_24 chrII:8263710-8263790 5e-05 5_[+3]_67 chrI:10866677-10866757 5e-05 25_[+3]_47 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAAGAG MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GAGAAGAG width=8 seqs=15 chrIV:6393472-6393552 ( 7) GAGAAGAG 1 chrI:7479439-7479519 ( 62) GAGAAGAG 1 chrI:6810560-6810640 ( 23) GAGAAGAG 1 chrX:17428008-17428088 ( 10) GAGAAGAG 1 chrV:3716498-3716578 ( 50) GAGAGGAG 1 chrV:5425225-5425305 ( 47) GAGAGGAG 1 chrII:25308-25388 ( 52) GAGAGGAG 1 chrIII:7300393-7300473 ( 16) GCGAAGAG 1 chrIII:7488449-7488529 ( 50) GCGAAGAG 1 chrX:11791957-11792037 ( 39) GAGGAGAG 1 chrIII:8982257-8982337 ( 2) GAGGAGAG 1 chrIV:10976107-10976187 ( 37) GCGAGGAG 1 chrIV:13083410-13083490 ( 49) GAGAAGAA 1 chrII:8263710-8263790 ( 6) GAGAAGAA 1 chrI:10866677-10866757 ( 26) GAGAAGAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAAGAG MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.9536 E= 7.0e+001 -1055 -1055 236 -1055 147 -9 -1055 -1055 -1055 -1055 236 -1055 159 -1055 -54 -1055 135 -1055 45 -1055 -1055 -1055 236 -1055 179 -1055 -1055 -1055 -53 -1055 204 -1055 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAAGAG MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 15 E= 7.0e+001 0.000000 0.000000 1.000000 0.000000 0.800000 0.200000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.866667 0.000000 0.133333 0.000000 0.733333 0.000000 0.266667 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.800000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAAGAG MEME-3 regular expression -------------------------------------------------------------------------------- G[AC]GA[AG]GA[GA] -------------------------------------------------------------------------------- Time 17.27 secs. ******************************************************************************** ******************************************************************************** MOTIF CACGTGAC MEME-4 width = 8 sites = 20 llr = 185 E-value = 4.1e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif CACGTGAC MEME-4 Description -------------------------------------------------------------------------------- Simplified A :a::1:81 pos.-specific C a:8::1:8 probability G :::a:a21 matrix T ::3:a::1 bits 2.4 * 2.1 * * * 1.9 ** * * 1.7 ** * * Relative 1.4 ** *** Entropy 1.2 ******* (13.3 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CACGTGAC consensus T G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGTGAC MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrI:1693322-1693402 23 9.27e-06 GAGAATGAAG CACGTGAC ACAACACATT chrI:6381000-6381080 11 9.27e-06 TCAGATGATG CACGTGAC TTTACTTTTT chrII:10557393-10557473 69 9.27e-06 CGTTTCTAAC CACGTGAC ATAT chrX:13539910-13539990 41 9.27e-06 CTTTAAGAGG CACGTGAC TCATGTTGAT chrIV:9670157-9670237 55 9.27e-06 TAGTGAGTGT CACGTGAC GAAGAGATTC chrX:5780869-5780949 33 1.55e-05 CAAAATGGAA CACGTGGC ATGTGCACTT chrIV:14612870-14612950 14 1.55e-05 TAGTTGTTCT CACGTGGC AAATGGCCGA chrIII:5951727-5951807 21 1.55e-05 AAAATTTTGT CACGTGGC GACTTGTTCA chrIII:9666376-9666456 63 2.88e-05 CCCAGACAGA CATGTGAC TCAAAACCAT chrX:5982964-5983044 73 2.88e-05 TGGTCGGACT CATGTGAC chrII:6928541-6928621 27 2.88e-05 TGCGTCATAT CATGTGAC TGGCGCCTGA chrII:8374-8454 23 2.88e-05 CTATTTCGTA CATGTGAC ATTGCTCAGT chrIV:9090673-9090753 63 4.13e-05 TAGAGAAGGT CACGTGAA TATGACCAGG chrIII:2804660-2804740 13 4.13e-05 GTATACGAGT CACGTGAA CCCCTATCCG chrV:9958935-9959015 57 6.35e-05 AAGTCGTTGT CATGTGGC AATTTTGTGT chrIII:3875761-3875841 41 6.35e-05 ATTGGTCAGC CACGTGAT CATCCGCCGG chrX:6741677-6741757 17 6.35e-05 AAATTGAAGA CACGTGAT GAATTGTAAC chrIV:8949850-8949930 25 7.20e-05 CTAACAACTC CACGTGAG ACAGTTGAAG chrX:4142761-4142841 72 9.08e-05 TGCATCATGC CACGTCAC G chrII:8128436-8128516 10 9.08e-05 AAAAAGTGT CACGAGAC GTACCTAGAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGTGAC MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:1693322-1693402 9.3e-06 22_[+4]_50 chrI:6381000-6381080 9.3e-06 10_[+4]_62 chrII:10557393-10557473 9.3e-06 68_[+4]_4 chrX:13539910-13539990 9.3e-06 40_[+4]_32 chrIV:9670157-9670237 9.3e-06 54_[+4]_18 chrX:5780869-5780949 1.6e-05 32_[+4]_40 chrIV:14612870-14612950 1.6e-05 13_[+4]_59 chrIII:5951727-5951807 1.6e-05 20_[+4]_52 chrIII:9666376-9666456 2.9e-05 62_[+4]_10 chrX:5982964-5983044 2.9e-05 72_[+4] chrII:6928541-6928621 2.9e-05 26_[+4]_46 chrII:8374-8454 2.9e-05 22_[+4]_50 chrIV:9090673-9090753 4.1e-05 62_[+4]_10 chrIII:2804660-2804740 4.1e-05 12_[+4]_60 chrV:9958935-9959015 6.3e-05 56_[+4]_16 chrIII:3875761-3875841 6.3e-05 40_[+4]_32 chrX:6741677-6741757 6.3e-05 16_[+4]_56 chrIV:8949850-8949930 7.2e-05 24_[+4]_48 chrX:4142761-4142841 9.1e-05 71_[+4]_1 chrII:8128436-8128516 9.1e-05 9_[+4]_63 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGTGAC MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CACGTGAC width=8 seqs=20 chrI:1693322-1693402 ( 23) CACGTGAC 1 chrI:6381000-6381080 ( 11) CACGTGAC 1 chrII:10557393-10557473 ( 69) CACGTGAC 1 chrX:13539910-13539990 ( 41) CACGTGAC 1 chrIV:9670157-9670237 ( 55) CACGTGAC 1 chrX:5780869-5780949 ( 33) CACGTGGC 1 chrIV:14612870-14612950 ( 14) CACGTGGC 1 chrIII:5951727-5951807 ( 21) CACGTGGC 1 chrIII:9666376-9666456 ( 63) CATGTGAC 1 chrX:5982964-5983044 ( 73) CATGTGAC 1 chrII:6928541-6928621 ( 27) CATGTGAC 1 chrII:8374-8454 ( 23) CATGTGAC 1 chrIV:9090673-9090753 ( 63) CACGTGAA 1 chrIII:2804660-2804740 ( 13) CACGTGAA 1 chrV:9958935-9959015 ( 57) CATGTGGC 1 chrIII:3875761-3875841 ( 41) CACGTGAT 1 chrX:6741677-6741757 ( 17) CACGTGAT 1 chrIV:8949850-8949930 ( 25) CACGTGAG 1 chrX:4142761-4142841 ( 72) CACGTCAC 1 chrII:8128436-8128516 ( 10) CACGAGAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGTGAC MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.0839 E= 4.1e+000 -1097 223 -1097 -1097 179 -1097 -1097 -1097 -1097 181 -1097 -28 -1097 -1097 236 -1097 -252 -1097 -1097 164 -1097 -209 229 -1097 147 -1097 4 -1097 -153 181 -196 -160 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGTGAC MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 20 E= 4.1e+000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.750000 0.000000 0.250000 0.000000 0.000000 1.000000 0.000000 0.050000 0.000000 0.000000 0.950000 0.000000 0.050000 0.950000 0.000000 0.800000 0.000000 0.200000 0.000000 0.100000 0.750000 0.050000 0.100000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGTGAC MEME-4 regular expression -------------------------------------------------------------------------------- CA[CT]GTG[AG]C -------------------------------------------------------------------------------- Time 21.56 secs. ******************************************************************************** ******************************************************************************** MOTIF TGGAAGAG MEME-5 width = 8 sites = 4 llr = 46 E-value = 2.9e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGGAAGAG MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::aa:a: pos.-specific C :::::::: probability G :aa::a:a matrix T a::::::: bits 2.4 ** * * 2.1 ** * * 1.9 ******* 1.7 ******** Relative 1.4 ******** Entropy 1.2 ******** (16.5 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TGGAAGAG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGAAGAG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:11791957-11792037 23 1.05e-05 aaaagaacag tggaagag taggtatcga chrI:10866677-10866757 58 1.05e-05 GGAAGACACA TGGAAGAG ACGACAGGCG chrII:7059483-7059563 43 1.05e-05 AAATATCATT TGGAAGAG GCAGATAGGG chrII:6835674-6835754 56 1.05e-05 GTCGAGTTTT TGGAAGAG ACACAGACAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGAAGAG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:11791957-11792037 1.1e-05 22_[+5]_50 chrI:10866677-10866757 1.1e-05 57_[+5]_15 chrII:7059483-7059563 1.1e-05 42_[+5]_30 chrII:6835674-6835754 1.1e-05 55_[+5]_17 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGAAGAG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGGAAGAG width=8 seqs=4 chrX:11791957-11792037 ( 23) TGGAAGAG 1 chrI:10866677-10866757 ( 58) TGGAAGAG 1 chrII:7059483-7059563 ( 43) TGGAAGAG 1 chrII:6835674-6835754 ( 56) TGGAAGAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGAAGAG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 12.1553 E= 2.9e+004 -865 -865 -865 172 -865 -865 236 -865 -865 -865 236 -865 179 -865 -865 -865 179 -865 -865 -865 -865 -865 236 -865 179 -865 -865 -865 -865 -865 236 -865 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGAAGAG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 4 E= 2.9e+004 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGAAGAG MEME-5 regular expression -------------------------------------------------------------------------------- TGGAAGAG -------------------------------------------------------------------------------- Time 24.98 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrII:29712-29792 9.89e-03 43_[+2(1.76e-05)]_29 chrII:1457-1537 8.06e-01 80 chrII:8374-8454 8.37e-02 22_[+4(2.88e-05)]_50 chrII:767-847 3.14e-01 80 chrII:6514-6594 2.60e-01 80 chrII:4476-4556 7.88e-03 55_[+3(8.08e-05)]_17 chrII:28480-28560 4.53e-03 80 chrII:31705-31785 1.96e-01 80 chrX:11462178-11462258 7.31e-01 80 chrII:22145-22225 8.72e-01 80 chrIII:352240-352320 2.56e-03 9_[+1(9.95e-06)]_[+1(9.95e-06)]_\ [+1(9.95e-06)]_[+1(9.95e-06)]_[+1(9.95e-06)]_[+1(9.95e-06)]_[+1(9.95e-06)]_\ 2_[+1(9.95e-06)]_5 chrI:4908218-4908298 4.98e-01 80 chrII:25308-25388 2.87e-03 51_[+3(1.67e-05)]_21 chrII:30287-30367 5.23e-02 80 chrX:6281228-6281308 1.45e-03 80 chrV:6225345-6225425 3.78e-01 80 chrV:726920-727000 9.96e-01 80 chrI:6340189-6340269 1.33e-01 80 chrII:2881-2961 1.50e-01 80 chrI:14905280-14905360 7.50e-02 80 chrIV:6751389-6751469 2.43e-01 80 chrV:8654721-8654801 4.89e-03 80 chrX:2596798-2596878 9.09e-02 80 chrV:11531146-11531226 8.17e-01 80 chrII:7339177-7339257 2.56e-01 80 chrX:9085982-9086062 7.58e-01 80 chrX:11464552-11464632 5.59e-01 80 chrX:7952415-7952495 2.32e-01 80 chrIII:7488449-7488529 2.54e-03 49_[+3(2.40e-05)]_23 chrV:11889757-11889837 2.79e-01 80 chrII:3960455-3960535 3.16e-02 80 chrX:9667587-9667667 1.69e-01 80 chrIV:11068421-11068501 1.33e-01 80 chrIII:5951727-5951807 3.89e-02 20_[+4(1.55e-05)]_52 chrX:10678311-10678391 9.41e-01 80 chrII:23340-23420 9.65e-02 80 chrX:6741677-6741757 9.15e-02 16_[+4(6.35e-05)]_56 chrIV:9670157-9670237 1.33e-03 54_[+4(9.27e-06)]_18 chrX:14562431-14562511 2.61e-01 80 chrV:979862-979942 1.96e-01 13_[+2(9.51e-05)]_22_[+2(1.76e-05)]_\ [+2(1.76e-05)]_[+2(1.76e-05)]_[+2(1.76e-05)]_5 chrIV:11489658-11489738 8.02e-02 80 chrII:19997-20077 1.85e-02 80 chrII:8128436-8128516 9.24e-02 9_[+4(9.08e-05)]_63 chrII:20686-20766 6.40e-01 80 chrII:9561018-9561098 1.83e-01 3_[+2(4.27e-05)]_69 chrIV:247679-247759 1.42e-01 80 chrV:11616019-11616099 1.75e-01 80 chrX:13974843-13974923 9.84e-01 80 chrIV:8762616-8762696 7.32e-03 43_[+1(3.14e-05)]_29 chrX:13539910-13539990 2.62e-03 40_[+4(9.27e-06)]_32 chrV:10002871-10002951 6.59e-03 80 chrIV:5764569-5764649 2.37e-01 80 chrV:5425225-5425305 2.23e-02 46_[+3(1.67e-05)]_26 chrIII:6988251-6988331 6.33e-01 80 chrIV:10972003-10972083 1.98e-01 10_[+2(9.51e-05)]_62 chrIII:8229682-8229762 4.09e-01 80 chrX:4208637-4208717 6.14e-01 80 chrII:6928541-6928621 1.02e-01 26_[+4(2.88e-05)]_46 chrII:26755-26835 9.12e-01 80 chrII:10335-10415 5.47e-02 56_[+1(8.77e-05)]_16 chrII:10557393-10557473 1.74e-02 68_[+4(9.27e-06)]_4 chrX:13781247-13781327 8.80e-01 80 chrIII:3875761-3875841 7.34e-04 40_[+4(6.35e-05)]_32 chrV:8936995-8937075 4.00e-03 31_[+1(3.14e-05)]_41 chrI:5540705-5540785 5.31e-02 62_[+1(8.77e-05)]_10 chrIII:62629-62709 1.01e-01 80 chrII:5201155-5201235 5.48e-01 80 chrX:5828254-5828334 4.15e-01 80 chrIV:10976107-10976187 6.95e-04 41_[+1(9.95e-06)]_31 chrII:27777-27857 4.36e-02 80 chrII:6826827-6826907 1.66e-01 22_[+2(4.27e-05)]_50 chrX:9549079-9549159 9.34e-01 80 chrIV:8529239-8529319 2.97e-02 80 chrX:7811155-7811235 2.15e-02 80 chrIV:5563563-5563643 3.10e-01 80 chrX:5982964-5983044 1.16e-03 36_[+1(8.77e-05)]_28_[+4(2.88e-05)] chrIII:3773392-3773472 2.55e-03 61_[+1(8.77e-05)]_11 chrII:8822827-8822907 9.55e-01 80 chrX:14478367-14478447 9.93e-01 80 chrIV:8526130-8526210 7.10e-02 80 chrV:10041690-10041770 5.59e-01 80 chrIII:6364557-6364637 1.29e-04 60_[+1(9.95e-06)]_12 chrIII:8733254-8733334 1.33e-01 80 chrII:6835674-6835754 7.16e-03 55_[+5(1.05e-05)]_17 chrIII:3864299-3864379 1.07e-01 80 chrV:619198-619278 5.04e-02 24_[+2(1.76e-05)]_38_[+2(9.51e-05)]_\ 2 chrV:6030617-6030697 2.37e-05 29_[+5(3.45e-05)]_17_[+3(9.95e-06)]_\ 18 chrI:14922760-14922840 1.21e-01 80 chrIV:6514909-6514989 2.52e-01 80 chrIV:14622188-14622268 1.16e-04 63_[+3(5.04e-05)]_9 chrII:8813785-8813865 2.08e-01 80 chrIII:2804660-2804740 1.07e-01 12_[+4(4.13e-05)]_60 chrX:5117712-5117792 3.84e-02 20_[+1(8.77e-05)]_52 chrX:8475330-8475410 3.82e-01 80 chrV:8658742-8658822 3.27e-01 80 chrII:6821364-6821444 9.16e-01 80 chrII:14559-14639 1.59e-01 65_[+1(8.77e-05)]_7 chrII:5725273-5725353 6.69e-04 4_[+1(9.95e-06)]_68 chrI:14924706-14924786 1.05e-02 9_[+1(3.14e-05)]_63 chrX:14508093-14508173 6.24e-01 80 chrX:13348555-13348635 6.46e-01 80 chrX:7230467-7230547 9.84e-04 80 chrX:5944135-5944215 5.87e-02 60_[+1(8.77e-05)]_12 chrII:11129-11209 2.67e-01 80 chrX:9403771-9403851 9.59e-01 80 chrV:10043338-10043418 8.16e-01 80 chrIII:10153248-10153328 3.69e-01 80 chrII:7059483-7059563 1.89e-04 11_[+1(4.13e-05)]_23_[+5(1.05e-05)]_\ 30 chrI:9842492-9842572 5.15e-02 26_[+2(1.76e-05)]_46 chrX:5803617-5803697 9.49e-01 80 chrI:6381000-6381080 2.10e-03 10_[+4(9.27e-06)]_62 chrX:1964946-1965026 8.84e-01 80 chrIII:9704386-9704466 3.34e-03 80 chrX:13920525-13920605 6.64e-01 80 chrIV:12651790-12651870 8.88e-04 [+1(9.95e-06)]_72 chrII:10504965-10505045 4.87e-03 80 chrI:1693322-1693402 4.71e-03 22_[+4(9.27e-06)]_50 chrX:6743025-6743105 1.80e-02 [+2(4.27e-05)]_72 chrV:9732010-9732090 1.07e-01 25_[+2(1.76e-05)]_47 chrX:4142761-4142841 5.05e-02 71_[+4(9.08e-05)]_1 chrX:2139194-2139274 3.77e-01 80 chrV:6226245-6226325 5.62e-01 80 chrV:11082586-11082666 2.82e-02 80 chrI:12179505-12179585 9.99e-02 24_[+2(1.76e-05)]_[+2(1.76e-05)]_40 chrII:9284717-9284797 9.99e-01 80 chrV:11196795-11196875 6.33e-02 80 chrII:7323439-7323519 3.83e-01 80 chrX:864469-864549 9.78e-01 80 chrX:17056296-17056376 7.76e-01 80 chrV:20829062-20829142 4.61e-02 80 chrIV:6767384-6767464 9.08e-01 80 chrII:10446452-10446532 2.89e-03 80 chrV:9074527-9074607 6.63e-01 80 chrX:14334276-14334356 6.72e-01 80 chrIV:5805684-5805764 3.63e-02 80 chrV:11122646-11122726 7.99e-01 80 chrII:9061319-9061399 4.22e-01 80 chrII:11636867-11636947 9.20e-03 80 chrV:17871220-17871300 2.45e-01 58_[+2(5.39e-05)]_14 chrV:7415981-7416061 6.57e-02 80 chrX:8236138-8236218 3.27e-01 80 chrIII:4317250-4317330 5.47e-01 80 chrX:17428008-17428088 2.54e-03 9_[+3(9.95e-06)]_63 chrX:15706260-15706340 2.85e-01 80 chrX:13768706-13768786 6.79e-01 80 chrIV:6792516-6792596 6.65e-01 80 chrV:10273909-10273989 6.26e-05 9_[+1(3.14e-05)]_15_[+2(4.27e-05)]_\ 40 chrI:9426214-9426294 2.68e-04 2_[+1(9.95e-06)]_15_[+1(9.95e-06)]_\ 47 chrV:3716498-3716578 4.64e-04 30_[+3(9.95e-06)]_11_[+3(1.67e-05)]_\ 23 chrIII:7300393-7300473 1.70e-02 15_[+3(2.40e-05)]_57 chrX:7682553-7682633 3.63e-01 80 chrX:4899478-4899558 6.62e-03 56_[+1(3.14e-05)]_2_[+1(5.60e-05)]_\ 6 chrII:9064574-9064654 2.27e-01 80 chrI:7474835-7474915 6.25e-02 80 chrIII:8982257-8982337 4.06e-04 1_[+3(3.08e-05)]_16_[+1(9.95e-06)]_\ 47 chrIII:11814772-11814852 8.81e-01 80 chrIV:14272638-14272718 1.95e-03 45_[+1(3.14e-05)]_27 chrII:10543233-10543313 7.62e-02 80 chrII:11966832-11966912 1.16e-01 80 chrIII:8125413-8125493 4.11e-01 80 chrIV:8028430-8028510 9.56e-01 80 chrIV:14612870-14612950 5.34e-02 13_[+4(1.55e-05)]_59 chrIV:5561495-5561575 5.25e-02 15_[+2(1.76e-05)]_[+2(1.76e-05)]_\ [+2(1.76e-05)]_[+2(1.76e-05)]_[+2(1.76e-05)]_25 chrV:9516413-9516493 1.31e-01 80 chrI:5826680-5826760 4.18e-02 80 chrX:6916291-6916371 1.88e-03 71_[+4(9.93e-05)]_1 chrIII:10882131-10882211 9.53e-02 80 chrI:10866677-10866757 5.72e-05 25_[+3(5.04e-05)]_24_[+5(1.05e-05)]_\ 15 chrIV:4401061-4401141 2.02e-01 32_[+2(1.76e-05)]_[+2(1.76e-05)]_\ [+2(1.76e-05)]_[+2(1.76e-05)]_[+2(1.76e-05)]_[+2(1.76e-05)] chrX:13143860-13143940 1.00e+00 80 chrV:9690884-9690964 6.74e-01 80 chrV:10953683-10953763 8.14e-01 80 chrX:7236920-7237000 7.64e-02 80 chrIV:4477221-4477301 1.62e-03 23_[+1(9.95e-06)]_[+1(9.95e-06)]_41 chrII:9620676-9620756 7.59e-01 80 chrI:6810560-6810640 4.47e-04 22_[+3(9.95e-06)]_28_[+1(4.13e-05)]_\ 14 chrIV:309618-309698 1.72e-01 80 chrII:21132-21212 3.87e-02 80 chrX:4141242-4141322 1.99e-01 80 chrIV:6959641-6959721 3.62e-01 80 chrI:7087477-7087557 9.98e-01 80 chrII:7838823-7838903 1.94e-04 8_[+2(4.27e-05)]_37_[+5(3.45e-05)]_\ 19 chrI:9721032-9721112 1.76e-01 39_[+2(9.51e-05)]_33 chrIII:9441384-9441464 6.20e-01 80 chrIV:8068005-8068085 1.28e-03 64_[+1(9.95e-06)]_[+1(8.77e-05)] chrIV:8949850-8949930 2.22e-02 24_[+4(7.20e-05)]_48 chrV:9958935-9959015 2.62e-02 56_[+4(6.35e-05)]_16 chrX:7793801-7793881 3.04e-04 28_[+1(3.14e-05)]_44 chrIV:3645067-3645147 8.01e-01 80 chrIV:11957323-11957403 6.73e-03 21_[+1(9.95e-06)]_51 chrIII:9666376-9666456 1.49e-02 62_[+4(2.88e-05)]_10 chrIII:13534838-13534918 2.66e-02 80 chrIII:8986975-8987055 6.15e-01 80 chrIII:13563122-13563202 1.45e-01 80 chrII:10558611-10558691 3.12e-02 80 chrIV:8334079-8334159 2.83e-01 80 chrX:3839292-3839372 7.92e-01 80 chrII:8741491-8741571 1.44e-01 80 chrX:12200786-12200866 2.27e-01 80 chrIV:5656079-5656159 1.63e-03 [+1(9.95e-06)]_[+1(9.95e-06)]_64 chrV:9274469-9274549 9.85e-01 80 chrI:7479439-7479519 7.60e-04 13_[+3(3.08e-05)]_40_[+3(9.95e-06)]_\ 11 chrIV:6393472-6393552 4.10e-03 6_[+3(9.95e-06)]_66 chrI:10104311-10104391 3.54e-03 80 chrX:3788711-3788791 2.26e-01 80 chrX:11791957-11792037 5.34e-05 10_[+1(8.77e-05)]_4_[+5(1.05e-05)]_\ 8_[+3(3.08e-05)]_34 chrX:5780869-5780949 1.27e-02 32_[+4(1.55e-05)]_40 chrX:14558174-14558254 9.17e-01 80 chrX:3111858-3111938 9.90e-01 80 chrIV:5593971-5594051 4.80e-01 80 chrIII:6355004-6355084 6.99e-02 3_[+2(4.27e-05)]_69 chrX:5896045-5896125 5.77e-01 80 chrIV:8069099-8069179 1.87e-01 80 chrV:3391146-3391226 7.07e-01 80 chrV:4508311-4508391 2.62e-01 80 chrII:6849477-6849557 5.53e-01 80 chrII:6824006-6824086 1.96e-01 10_[+2(9.51e-05)]_46_[+2(1.76e-05)]_\ 8 chrI:11840836-11840916 1.24e-01 80 chrI:14939823-14939903 1.60e-01 10_[+2(9.51e-05)]_35_[+2(1.76e-05)]_\ 19 chrX:11472126-11472206 6.06e-01 80 chrIV:7391651-7391731 8.85e-02 80 chrIV:9090673-9090753 2.83e-03 62_[+4(4.13e-05)]_10 chrII:12262726-12262806 1.25e-01 80 chrX:7284969-7285049 1.73e-03 13_[+2(7.00e-05)]_59 chrI:4299714-4299794 3.62e-02 80 chrX:2819852-2819932 1.52e-01 80 chrI:6206691-6206771 3.21e-02 63_[+1(8.77e-05)]_9 chrIV:7047178-7047258 9.39e-01 80 chrIV:4473082-4473162 4.64e-02 80 chrX:6736680-6736760 6.10e-01 80 chrII:5276819-5276899 4.93e-01 80 chrX:13014549-13014629 1.92e-03 53_[+1(4.13e-05)]_19 chrI:1273948-1274028 6.38e-04 18_[+2(1.76e-05)]_[+2(1.76e-05)]_\ [+2(1.76e-05)]_[+2(1.76e-05)]_30 chrI:10103443-10103523 9.08e-02 80 chrX:12513476-12513556 2.88e-03 38_[+5(3.45e-05)]_34 chrII:8263710-8263790 1.74e-02 5_[+3(5.04e-05)]_67 chrI:7550339-7550419 1.25e-01 80 chrII:14605072-14605152 3.36e-01 80 chrIII:4313582-4313662 7.98e-01 80 chrV:8025435-8025515 2.48e-01 80 chrII:9934090-9934170 7.52e-02 80 chrIV:11647087-11647167 5.75e-01 80 chrII:5042644-5042724 7.87e-01 80 chrIV:14594370-14594450 6.00e-03 80 chrV:16040606-16040686 1.91e-01 80 chrIII:10903364-10903444 4.87e-01 80 chrIII:10905221-10905301 2.49e-01 71_[+2(4.27e-05)]_1 chrIV:13083410-13083490 8.96e-03 48_[+3(5.04e-05)]_24 chrX:2891493-2891573 7.89e-03 80 chrIII:9703086-9703166 1.44e-01 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n12.farnam.hpc.yale.internal ********************************************************************************