******************************************************************************** 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-237.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrM:13135-13215 1.0000 80 chrIII:12851092-12851172 1.0000 80 chrX:11474395-11474475 1.0000 80 chrI:6173165-6173245 1.0000 80 chrV:4647565-4647645 1.0000 80 chrI:11964937-11965017 1.0000 80 chrIV:9667240-9667320 1.0000 80 chrX:3824616-3824696 1.0000 80 chrIII:10248634-10248714 1.0000 80 chrI:14948192-14948272 1.0000 80 chrIV:9932172-9932252 1.0000 80 chrV:6270191-6270271 1.0000 80 chrIV:5753416-5753496 1.0000 80 chrIII:13182117-13182197 1.0000 80 chrI:9087383-9087463 1.0000 80 chrIII:8355243-8355323 1.0000 80 chrI:10622866-10622946 1.0000 80 chrV:2109411-2109491 1.0000 80 chrI:5768822-5768902 1.0000 80 chrI:5999351-5999431 1.0000 80 chrII:6344060-6344140 1.0000 80 chrV:20749214-20749294 1.0000 80 chrIII:8809698-8809778 1.0000 80 chrV:11083839-11083919 1.0000 80 chrII:8143454-8143534 1.0000 80 chrX:11482786-11482866 1.0000 80 chrIV:1239827-1239907 1.0000 80 chrI:1256116-1256196 1.0000 80 chrI:14787886-14787966 1.0000 80 chrII:13083929-13084009 1.0000 80 chrIV:6648803-6648883 1.0000 80 chrIV:7016696-7016776 1.0000 80 chrII:8137595-8137675 1.0000 80 chrX:10576603-10576683 1.0000 80 chrV:9422913-9422993 1.0000 80 chrV:19190247-19190327 1.0000 80 chrII:10203908-10203988 1.0000 80 chrIII:8922141-8922221 1.0000 80 chrIII:13002255-13002335 1.0000 80 chrIV:5371072-5371152 1.0000 80 chrIV:1655478-1655558 1.0000 80 chrIV:5656132-5656212 1.0000 80 chrM:5637-5717 1.0000 80 chrI:6849982-6850062 1.0000 80 chrV:20762015-20762095 1.0000 80 chrIII:982123-982203 1.0000 80 chrI:6073620-6073700 1.0000 80 chrI:5997552-5997632 1.0000 80 chrI:4788601-4788681 1.0000 80 chrII:3897123-3897203 1.0000 80 chrIV:7561882-7561962 1.0000 80 chrIV:4407254-4407334 1.0000 80 chrIV:14875054-14875134 1.0000 80 chrII:10350653-10350733 1.0000 80 chrV:10338711-10338791 1.0000 80 chrIII:12377395-12377475 1.0000 80 chrIII:5563862-5563942 1.0000 80 chrI:6542046-6542126 1.0000 80 chrV:2218974-2219054 1.0000 80 chrII:5594389-5594469 1.0000 80 chrI:4175063-4175143 1.0000 80 chrX:15279539-15279619 1.0000 80 chrIV:14959620-14959700 1.0000 80 chrI:2064041-2064121 1.0000 80 chrII:9706370-9706450 1.0000 80 chrV:11529744-11529824 1.0000 80 chrI:5485971-5486051 1.0000 80 chrIII:13106011-13106091 1.0000 80 chrIII:5836937-5837017 1.0000 80 chrIV:5731781-5731861 1.0000 80 chrI:8027942-8028022 1.0000 80 chrI:9089220-9089300 1.0000 80 chrII:7147733-7147813 1.0000 80 chrII:2454924-2455004 1.0000 80 chrV:4135273-4135353 1.0000 80 chrIV:8170465-8170545 1.0000 80 chrI:12826677-12826757 1.0000 80 chrIII:8137889-8137969 1.0000 80 chrII:13575684-13575764 1.0000 80 chrI:3876888-3876968 1.0000 80 chrV:6359436-6359516 1.0000 80 chrI:6756558-6756638 1.0000 80 chrM:187-267 1.0000 80 chrI:6175158-6175238 1.0000 80 chrV:12100890-12100970 1.0000 80 chrIII:7926168-7926248 1.0000 80 chrI:3096288-3096368 1.0000 80 chrIII:188561-188641 1.0000 80 chrIII:5405780-5405860 1.0000 80 chrIII:7940945-7941025 1.0000 80 chrII:8602498-8602578 1.0000 80 chrIII:7068829-7068909 1.0000 80 chrII:9128379-9128459 1.0000 80 chrI:8416288-8416368 1.0000 80 chrII:2195726-2195806 1.0000 80 chrV:10134291-10134371 1.0000 80 chrIII:908167-908247 1.0000 80 chrI:14628132-14628212 1.0000 80 chrII:7631291-7631371 1.0000 80 chrI:108232-108312 1.0000 80 chrII:5092514-5092594 1.0000 80 chrI:11930621-11930701 1.0000 80 chrIV:9107650-9107730 1.0000 80 chrI:4444448-4444528 1.0000 80 chrII:14441314-14441394 1.0000 80 chrIII:13713071-13713151 1.0000 80 chrI:11280762-11280842 1.0000 80 chrI:7835612-7835692 1.0000 80 chrX:13995945-13996025 1.0000 80 chrV:9212675-9212755 1.0000 80 chrX:17181377-17181457 1.0000 80 chrI:11416745-11416825 1.0000 80 chrV:8302655-8302735 1.0000 80 chrII:6974163-6974243 1.0000 80 chrI:3147893-3147973 1.0000 80 chrI:5518838-5518918 1.0000 80 chrI:8449760-8449840 1.0000 80 chrIII:1905772-1905852 1.0000 80 chrIII:12688175-12688255 1.0000 80 chrV:3759655-3759735 1.0000 80 chrIII:7277370-7277450 1.0000 80 chrIV:14622028-14622108 1.0000 80 chrI:7480269-7480349 1.0000 80 chrIII:5567818-5567898 1.0000 80 chrV:8179072-8179152 1.0000 80 chrII:11778254-11778334 1.0000 80 chrII:10384818-10384898 1.0000 80 chrIII:13313928-13314008 1.0000 80 chrI:14320500-14320580 1.0000 80 chrIII:6968421-6968501 1.0000 80 chrX:11719048-11719128 1.0000 80 chrI:9837229-9837309 1.0000 80 chrII:7050298-7050378 1.0000 80 chrII:13888463-13888543 1.0000 80 chrI:14839836-14839916 1.0000 80 chrI:6626865-6626945 1.0000 80 chrX:12750975-12751055 1.0000 80 chrX:14557525-14557605 1.0000 80 chrI:2629408-2629488 1.0000 80 chrV:11082651-11082731 1.0000 80 chrX:16157025-16157105 1.0000 80 chrV:2281702-2281782 1.0000 80 chrI:6882104-6882184 1.0000 80 chrII:2204246-2204326 1.0000 80 chrI:11665018-11665098 1.0000 80 chrX:15590712-15590792 1.0000 80 chrIII:4323243-4323323 1.0000 80 chrII:5886164-5886244 1.0000 80 chrII:8283387-8283467 1.0000 80 chrIV:7774360-7774440 1.0000 80 chrIII:8614558-8614638 1.0000 80 chrIV:13093834-13093914 1.0000 80 chrII:10798612-10798692 1.0000 80 chrIV:4215505-4215585 1.0000 80 chrII:5931308-5931388 1.0000 80 chrI:12968591-12968671 1.0000 80 chrI:10895126-10895206 1.0000 80 chrX:8477528-8477608 1.0000 80 chrII:6844709-6844789 1.0000 80 chrIV:5651031-5651111 1.0000 80 chrIII:4313583-4313663 1.0000 80 chrX:4871144-4871224 1.0000 80 chrI:9841135-9841215 1.0000 80 chrV:11344524-11344604 1.0000 80 chrIV:15037142-15037222 1.0000 80 chrV:15880921-15881001 1.0000 80 chrIII:2805256-2805336 1.0000 80 chrII:8216535-8216615 1.0000 80 chrV:10031572-10031652 1.0000 80 chrI:1156157-1156237 1.0000 80 chrI:13161966-13162046 1.0000 80 chrI:6061287-6061367 1.0000 80 chrI:9064689-9064769 1.0000 80 chrIII:12152305-12152385 1.0000 80 chrX:14571470-14571550 1.0000 80 chrV:11993882-11993962 1.0000 80 chrII:10073772-10073852 1.0000 80 chrV:11982488-11982568 1.0000 80 chrIII:8847873-8847953 1.0000 80 chrIII:2815120-2815200 1.0000 80 chrV:152379-152459 1.0000 80 chrX:12184502-12184582 1.0000 80 chrI:7251575-7251655 1.0000 80 chrIII:2151604-2151684 1.0000 80 chrV:7820459-7820539 1.0000 80 chrX:325828-325908 1.0000 80 chrI:3684618-3684698 1.0000 80 chrIV:51446-51526 1.0000 80 chrV:104621-104701 1.0000 80 chrI:7258651-7258731 1.0000 80 chrII:7857645-7857725 1.0000 80 chrIV:1056558-1056638 1.0000 80 chrI:10173207-10173287 1.0000 80 chrV:7735073-7735153 1.0000 80 chrI:1877835-1877915 1.0000 80 chrI:13289859-13289939 1.0000 80 chrIII:6951617-6951697 1.0000 80 chrIV:11433892-11433972 1.0000 80 chrIII:6929725-6929805 1.0000 80 chrX:1965010-1965090 1.0000 80 chrIII:349558-349638 1.0000 80 chrII:11637389-11637469 1.0000 80 chrV:13787697-13787777 1.0000 80 chrIII:13310770-13310850 1.0000 80 chrI:8083409-8083489 1.0000 80 chrX:1961548-1961628 1.0000 80 chrX:4210700-4210780 1.0000 80 chrII:386116-386196 1.0000 80 chrI:14953257-14953337 1.0000 80 chrV:4434802-4434882 1.0000 80 chrIII:9747337-9747417 1.0000 80 chrIII:8093284-8093364 1.0000 80 chrII:14038533-14038613 1.0000 80 chrX:861812-861892 1.0000 80 chrII:10136770-10136850 1.0000 80 chrII:7111806-7111886 1.0000 80 chrI:4299648-4299728 1.0000 80 chrV:11148060-11148140 1.0000 80 chrX:11974862-11974942 1.0000 80 chrIII:11565750-11565830 1.0000 80 chrIV:14605294-14605374 1.0000 80 chrIII:13423581-13423661 1.0000 80 chrI:5375579-5375659 1.0000 80 chrX:13669816-13669896 1.0000 80 chrIV:10346168-10346248 1.0000 80 chrIII:4850307-4850387 1.0000 80 chrV:9347005-9347085 1.0000 80 chrI:3600893-3600973 1.0000 80 chrIII:86479-86559 1.0000 80 chrV:11933360-11933440 1.0000 80 chrV:7179035-7179115 1.0000 80 chrV:1743629-1743709 1.0000 80 chrI:15035884-15035964 1.0000 80 chrI:289133-289213 1.0000 80 chrIV:9525095-9525175 1.0000 80 chrI:10567621-10567701 1.0000 80 chrI:14955721-14955801 1.0000 80 chrIV:6910276-6910356 1.0000 80 chrX:573441-573521 1.0000 80 chrIV:14612567-14612647 1.0000 80 chrIII:5938130-5938210 1.0000 80 chrIV:10007904-10007984 1.0000 80 chrI:3781801-3781881 1.0000 80 chrX:16991505-16991585 1.0000 80 chrII:10658868-10658948 1.0000 80 chrI:14651680-14651760 1.0000 80 chrIV:255604-255684 1.0000 80 chrII:4698423-4698503 1.0000 80 chrIV:11142554-11142634 1.0000 80 chrX:6729689-6729769 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-237/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/nhr-237.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 0.284 C 0.217 G 0.208 T 0.291 Background letter frequencies (from file dataset with add-one prior applied): A 0.284 C 0.217 G 0.208 T 0.291 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TCTCTBYS MEME-1 width = 8 sites = 63 llr = 492 E-value = 2.2e-017 ******************************************************************************** -------------------------------------------------------------------------------- Motif TCTCTBYS MEME-1 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C :a:8:263 probability G :::::4:5 matrix T a:a2a442 bits 2.3 * 2.0 * 1.8 *** * 1.6 *** * Relative 1.4 ***** Entropy 1.1 ***** * (11.3 bits) 0.9 ***** * 0.7 ***** ** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TCTCTGCG consensus TTC sequence C T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCTBYS MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIII:349558-349638 42 1.09e-05 CTGCCTTCTG TCTCTGCG CTCCCAAAAT chrIV:51446-51526 25 1.09e-05 cgtgtctcgt tctctGCG TACTGTATGG chrI:11665018-11665098 20 1.09e-05 ATGCACATTT TCTCTGCG TCTCTCACTT chrX:17181377-17181457 22 1.09e-05 ACACCTCTGT TCTCTGCG GCACCAACAc chrI:11280762-11280842 8 1.09e-05 tcgcgtt tctctgcg tctcggccgt chrIII:13713071-13713151 3 1.09e-05 TC TCTCTGCG TCTCCACACC chrII:5092514-5092594 22 1.09e-05 TTACTTTACT TCTCTGCG CCATCTCTCC chrI:8416288-8416368 11 1.09e-05 GAAAATAAAT TCTCTGCG TCTCTTAAGC chrII:13575684-13575764 67 1.09e-05 GAGTTGTGTT TCTCTGCG CTCTCC chrI:12826677-12826757 37 1.09e-05 CTGTCTGCGG TCTCTGCG CTCGGCACAc chrII:2454924-2455004 53 1.09e-05 ATTGACTTTT TCTCTGCG ACTCCATTGA chrIV:14875054-14875134 61 1.09e-05 TCGCTCTGCT TCTCTGCG CTCTCTCGTC chrV:2109411-2109491 22 1.09e-05 GCTGACACTT TCTCTGCG TCTCATGCCC chrIII:13182117-13182197 45 1.09e-05 tcgctcGAAA TCTCTGCG TCTCTATTAA chrIII:6929725-6929805 28 2.61e-05 TAATGAACAC TCTCTTCG CTTCGAGACC chrI:10895126-10895206 48 2.61e-05 TGTGTCTATT TCTCTTCG ATAAAGTGTG chrI:6626865-6626945 45 2.61e-05 GCCTCCTCGC TCTCTTCG CGTATCAATG chrI:14787886-14787966 69 2.61e-05 TGGTGTGTGG TCTCTTCG TTCA chrII:3897123-3897203 40 3.75e-05 TCTTTCTCTA TCTCTCCG CTTCTCCTCC chrI:4788601-4788681 3 3.75e-05 TT TCTCTCCG TCTCCACTCA chrX:8477528-8477608 4 4.89e-05 CAC TCTCTGCC TTACCGTAAG chrX:12750975-12751055 34 4.89e-05 CTACATCTTT TCTCTGCC ATTGTGCAAA chrX:16157025-16157105 54 6.35e-05 GCCAtgtgtc tctctgtg cgtgtgtgtg chrIII:982123-982203 50 6.35e-05 TCTCGCGTTG TCTCTGTG TCTCTCACTC chrIV:6648803-6648883 19 6.35e-05 CTCTCATTTT TCTCTGTG TCTCTCTGAT chrIII:6951617-6951697 30 7.94e-05 GTCGCGGCTA TCTCTTCC TCCTTTTCTT chrI:8449760-8449840 47 7.94e-05 TGCCATTGTA TCTCTTCC GCCCCTGTCC chrI:5518838-5518918 14 9.98e-05 AATGTCTGCG TCTCTTTG AATTCCCGCC chrII:8143454-8143534 57 9.98e-05 GTCCTCAATT TCTCTTTG GCCTAAAATT chrV:20749214-20749294 32 9.98e-05 TTCTTCTGCG TCTCTTTG ACCCAAAAGT chrIII:4323243-4323323 21 1.12e-04 GCTCTATTTC TCTCTCCC TCTCCCAAGG chrII:13888463-13888543 3 1.12e-04 CG TCTCTCCC CCCACTTTTC chrII:10384818-10384898 54 1.42e-04 tctctctttc tctctctg tttctatttc chrIV:7774360-7774440 23 1.57e-04 GCGCGTTTCG TCTCTGTC TATGTAGCAT chrV:2281702-2281782 52 1.79e-04 TTCTCTTAAC TCTCTTCT GTTGTTTGAT chrV:11083839-11083919 4 1.79e-04 AAC TCTCTTCT TTTCTTCAGT chrX:11719048-11719128 12 2.00e-04 TACAGGTATT TCTCTTTC CCTCTCCCAT chrI:14948192-14948272 12 2.00e-04 TCTCTTGCAA TCTCTTTC CTCATAtgtg chrIII:13002255-13002335 23 2.16e-04 GTGTTCCCCT TCTCTCCT AAATCTCTTC chrIV:9667240-9667320 61 2.16e-04 GGGGGAATAC TCTCTCCT CCAGACGGGG chrIV:4215505-4215585 11 2.46e-04 ATTCTCATCC TCTCTCTC TCGAGCGTGC chrI:9837229-9837309 14 2.46e-04 CTTCATTCCA TCTCTCTC TTTTTTCCCG chrIV:4407254-4407334 6 2.46e-04 ctgtc tctctctc tcACACCCCA chrI:5997552-5997632 4 2.46e-04 TCT TCTCTCTC GGGCGGTACA chrII:7111806-7111886 65 2.67e-04 ACAATCATTT TCTCTGTT TTTTTTTC chrV:9422913-9422993 15 2.67e-04 CTCGCTGGTA TCTCTGTT TCTCTAAATT chrII:2204246-2204326 38 2.87e-04 ACCGCACACT TCTTTTCG GCGCGAGGTT chrI:6882104-6882184 39 2.87e-04 ACTTGGGTTA TCTTTTCG ATTGGGCTCC chrIV:14612567-14612647 51 3.16e-04 TCTGGTTTGT TCTCTTTT TCCTTCTTCA chrIV:6910276-6910356 50 3.16e-04 ACCACGTCTT TCTCTTTT TTTTGCTGAA chrX:13669816-13669896 48 3.16e-04 CTTTCTACTA TCTCTTTT CACTGTTCAC chrIV:5731781-5731861 63 3.16e-04 CTTGGATTTT TCTCTTTT TTGCTAAAAA chrIV:5753416-5753496 52 3.16e-04 GTCTTCATTT TCTCTTTT GTGAGGGACT chrX:3824616-3824696 22 3.31e-04 TCGCCTCCCC TCTTTCCG CGCAGCAACT chrX:11482786-11482866 46 3.68e-04 TGAACGCGAC TCTCTCTT GCTCTCTCGT chrX:573441-573521 12 3.87e-04 GTGTAGTAAA TCTTTGTG TATTTGCGGA chrX:16991505-16991585 31 4.09e-04 CCTTTTCTTT TCTTTTCC TCTACCAAAT chrI:9841135-9841215 26 4.09e-04 TTTTTGCACT TCTTTTCC CTTATTCTCC chrIII:7926168-7926248 30 4.09e-04 ACGTCGATTT TCTTTTCC GTTTTGCGCC chrI:13161966-13162046 44 4.52e-04 CTGAAAATTG TCTTTCCC CCCAGAAATT chrII:8283387-8283467 62 4.93e-04 TTTCCACAGA TCTTTCTG GCTCCCGCTT chrIII:7068829-7068909 56 5.13e-04 AACGATAATA TCTTTGTC AAAAAACATG chrII:5931308-5931388 70 5.42e-04 ATCGTCGTCT TCTTTTCT CGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCTBYS MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIII:349558-349638 1.1e-05 41_[+1]_31 chrIV:51446-51526 1.1e-05 24_[+1]_48 chrI:11665018-11665098 1.1e-05 19_[+1]_53 chrX:17181377-17181457 1.1e-05 21_[+1]_51 chrI:11280762-11280842 1.1e-05 7_[+1]_65 chrIII:13713071-13713151 1.1e-05 2_[+1]_70 chrII:5092514-5092594 1.1e-05 21_[+1]_51 chrI:8416288-8416368 1.1e-05 10_[+1]_62 chrII:13575684-13575764 1.1e-05 66_[+1]_6 chrI:12826677-12826757 1.1e-05 36_[+1]_36 chrII:2454924-2455004 1.1e-05 52_[+1]_20 chrIV:14875054-14875134 1.1e-05 60_[+1]_12 chrV:2109411-2109491 1.1e-05 21_[+1]_51 chrIII:13182117-13182197 1.1e-05 44_[+1]_28 chrIII:6929725-6929805 2.6e-05 27_[+1]_45 chrI:10895126-10895206 2.6e-05 47_[+1]_25 chrI:6626865-6626945 2.6e-05 44_[+1]_28 chrI:14787886-14787966 2.6e-05 68_[+1]_4 chrII:3897123-3897203 3.8e-05 39_[+1]_33 chrI:4788601-4788681 3.8e-05 2_[+1]_70 chrX:8477528-8477608 4.9e-05 3_[+1]_69 chrX:12750975-12751055 4.9e-05 33_[+1]_39 chrX:16157025-16157105 6.3e-05 53_[+1]_19 chrIII:982123-982203 6.3e-05 49_[+1]_23 chrIV:6648803-6648883 6.3e-05 18_[+1]_54 chrIII:6951617-6951697 7.9e-05 29_[+1]_43 chrI:8449760-8449840 7.9e-05 46_[+1]_26 chrI:5518838-5518918 0.0001 13_[+1]_59 chrII:8143454-8143534 0.0001 56_[+1]_16 chrV:20749214-20749294 0.0001 31_[+1]_41 chrIII:4323243-4323323 0.00011 20_[+1]_52 chrII:13888463-13888543 0.00011 2_[+1]_70 chrII:10384818-10384898 0.00014 53_[+1]_19 chrIV:7774360-7774440 0.00016 22_[+1]_50 chrV:2281702-2281782 0.00018 51_[+1]_21 chrV:11083839-11083919 0.00018 3_[+1]_69 chrX:11719048-11719128 0.0002 11_[+1]_61 chrI:14948192-14948272 0.0002 11_[+1]_61 chrIII:13002255-13002335 0.00022 22_[+1]_50 chrIV:9667240-9667320 0.00022 60_[+1]_12 chrIV:4215505-4215585 0.00025 10_[+1]_62 chrI:9837229-9837309 0.00025 13_[+1]_59 chrIV:4407254-4407334 0.00025 5_[+1]_67 chrI:5997552-5997632 0.00025 3_[+1]_69 chrII:7111806-7111886 0.00027 64_[+1]_8 chrV:9422913-9422993 0.00027 14_[+1]_58 chrII:2204246-2204326 0.00029 37_[+1]_35 chrI:6882104-6882184 0.00029 38_[+1]_34 chrIV:14612567-14612647 0.00032 50_[+1]_22 chrIV:6910276-6910356 0.00032 49_[+1]_23 chrX:13669816-13669896 0.00032 47_[+1]_25 chrIV:5731781-5731861 0.00032 62_[+1]_10 chrIV:5753416-5753496 0.00032 51_[+1]_21 chrX:3824616-3824696 0.00033 21_[+1]_51 chrX:11482786-11482866 0.00037 45_[+1]_27 chrX:573441-573521 0.00039 11_[+1]_61 chrX:16991505-16991585 0.00041 30_[+1]_42 chrI:9841135-9841215 0.00041 25_[+1]_47 chrIII:7926168-7926248 0.00041 29_[+1]_43 chrI:13161966-13162046 0.00045 43_[+1]_29 chrII:8283387-8283467 0.00049 61_[+1]_11 chrIII:7068829-7068909 0.00051 55_[+1]_17 chrII:5931308-5931388 0.00054 69_[+1]_3 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCTBYS MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TCTCTBYS width=8 seqs=63 chrIII:349558-349638 ( 42) TCTCTGCG 1 chrIV:51446-51526 ( 25) TCTCTGCG 1 chrI:11665018-11665098 ( 20) TCTCTGCG 1 chrX:17181377-17181457 ( 22) TCTCTGCG 1 chrI:11280762-11280842 ( 8) TCTCTGCG 1 chrIII:13713071-13713151 ( 3) TCTCTGCG 1 chrII:5092514-5092594 ( 22) TCTCTGCG 1 chrI:8416288-8416368 ( 11) TCTCTGCG 1 chrII:13575684-13575764 ( 67) TCTCTGCG 1 chrI:12826677-12826757 ( 37) TCTCTGCG 1 chrII:2454924-2455004 ( 53) TCTCTGCG 1 chrIV:14875054-14875134 ( 61) TCTCTGCG 1 chrV:2109411-2109491 ( 22) TCTCTGCG 1 chrIII:13182117-13182197 ( 45) TCTCTGCG 1 chrIII:6929725-6929805 ( 28) TCTCTTCG 1 chrI:10895126-10895206 ( 48) TCTCTTCG 1 chrI:6626865-6626945 ( 45) TCTCTTCG 1 chrI:14787886-14787966 ( 69) TCTCTTCG 1 chrII:3897123-3897203 ( 40) TCTCTCCG 1 chrI:4788601-4788681 ( 3) TCTCTCCG 1 chrX:8477528-8477608 ( 4) TCTCTGCC 1 chrX:12750975-12751055 ( 34) TCTCTGCC 1 chrX:16157025-16157105 ( 54) TCTCTGTG 1 chrIII:982123-982203 ( 50) TCTCTGTG 1 chrIV:6648803-6648883 ( 19) TCTCTGTG 1 chrIII:6951617-6951697 ( 30) TCTCTTCC 1 chrI:8449760-8449840 ( 47) TCTCTTCC 1 chrI:5518838-5518918 ( 14) TCTCTTTG 1 chrII:8143454-8143534 ( 57) TCTCTTTG 1 chrV:20749214-20749294 ( 32) TCTCTTTG 1 chrIII:4323243-4323323 ( 21) TCTCTCCC 1 chrII:13888463-13888543 ( 3) TCTCTCCC 1 chrII:10384818-10384898 ( 54) TCTCTCTG 1 chrIV:7774360-7774440 ( 23) TCTCTGTC 1 chrV:2281702-2281782 ( 52) TCTCTTCT 1 chrV:11083839-11083919 ( 4) TCTCTTCT 1 chrX:11719048-11719128 ( 12) TCTCTTTC 1 chrI:14948192-14948272 ( 12) TCTCTTTC 1 chrIII:13002255-13002335 ( 23) TCTCTCCT 1 chrIV:9667240-9667320 ( 61) TCTCTCCT 1 chrIV:4215505-4215585 ( 11) TCTCTCTC 1 chrI:9837229-9837309 ( 14) TCTCTCTC 1 chrIV:4407254-4407334 ( 6) TCTCTCTC 1 chrI:5997552-5997632 ( 4) TCTCTCTC 1 chrII:7111806-7111886 ( 65) TCTCTGTT 1 chrV:9422913-9422993 ( 15) TCTCTGTT 1 chrII:2204246-2204326 ( 38) TCTTTTCG 1 chrI:6882104-6882184 ( 39) TCTTTTCG 1 chrIV:14612567-14612647 ( 51) TCTCTTTT 1 chrIV:6910276-6910356 ( 50) TCTCTTTT 1 chrX:13669816-13669896 ( 48) TCTCTTTT 1 chrIV:5731781-5731861 ( 63) TCTCTTTT 1 chrIV:5753416-5753496 ( 52) TCTCTTTT 1 chrX:3824616-3824696 ( 22) TCTTTCCG 1 chrX:11482786-11482866 ( 46) TCTCTCTT 1 chrX:573441-573521 ( 12) TCTTTGTG 1 chrX:16991505-16991585 ( 31) TCTTTTCC 1 chrI:9841135-9841215 ( 26) TCTTTTCC 1 chrIII:7926168-7926248 ( 30) TCTTTTCC 1 chrI:13161966-13162046 ( 44) TCTTTCCC 1 chrII:8283387-8283467 ( 62) TCTTTCTG 1 chrIII:7068829-7068909 ( 56) TCTTTGTC 1 chrII:5931308-5931388 ( 70) TCTTTTCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCTBYS MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.48684 E= 2.2e-017 -1262 -1262 -1262 178 -1262 221 -1262 -1262 -1262 -1262 -1262 178 -1262 193 -1262 -74 -1262 -1262 -1262 178 -1262 14 87 39 -1262 148 -1262 45 -1262 40 129 -50 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCTBYS MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 63 E= 2.2e-017 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 0.825397 0.000000 0.174603 0.000000 0.000000 0.000000 1.000000 0.000000 0.238095 0.380952 0.380952 0.000000 0.603175 0.000000 0.396825 0.000000 0.285714 0.507937 0.206349 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCTBYS MEME-1 regular expression -------------------------------------------------------------------------------- TCTCT[GTC][CT][GCT] -------------------------------------------------------------------------------- Time 8.35 secs. ******************************************************************************** ******************************************************************************** MOTIF GAGARARA MEME-2 width = 8 sites = 51 llr = 418 E-value = 1.6e-015 ******************************************************************************** -------------------------------------------------------------------------------- Motif GAGARARA MEME-2 Description -------------------------------------------------------------------------------- Simplified A 1a1a5a48 pos.-specific C 1::::::: probability G 8:9:5:61 matrix T :::::::1 bits 2.3 2.0 1.8 *** * 1.6 *** * Relative 1.4 **** * Entropy 1.1 ******* (11.8 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GAGAGAGA consensus A A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGARARA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrI:5375579-5375659 70 1.22e-05 TATTGTGTCG GAGAGAGA TCA chrX:11974862-11974942 59 1.22e-05 AAAGCAGTTT GAGAGAGA AGAGAGACTG chrI:14320500-14320580 69 1.22e-05 gagggagaga gagagaga gaTG chrI:14628132-14628212 71 1.22e-05 gaaattgaga gagagaga ga chrI:3096288-3096368 69 1.22e-05 ATAGAagaga gagagaga gaga chrIV:14875054-14875134 2 1.22e-05 A GAGAGAGA AAGCACACAT chrI:6073620-6073700 19 1.22e-05 tagagaatat gagagaga aagagagaaa chrIV:1655478-1655558 63 1.22e-05 Ggagagagaa gagagaga gagaatgaga chrII:6344060-6344140 18 1.22e-05 TGACAAAACT GAGAGAGA TGTTGGAGAA chrIV:5753416-5753496 18 1.22e-05 gagaatgtca gagagaga tagatagaTA chrV:13787697-13787777 61 2.88e-05 AAGATGCTTC GAGAAAGA TCTTTGATTT chrV:11082651-11082731 16 2.88e-05 CTCGTCTCTC GAGAAAGA AAGCACACAT chrIII:908167-908247 49 2.88e-05 GTGTGAGGCA GAGAAAGA AAAACAAAGA chrIII:5405780-5405860 22 2.88e-05 TGACACGCGC GAGAAAGA CGAGACGGAG chrIII:5836937-5837017 32 2.88e-05 GAGTGTAGTA GAGAAAGA GAAATAGAGA chrI:14787886-14787966 6 2.88e-05 TGTTT GAGAAAGA TATTACTGCG chrI:6173165-6173245 28 2.88e-05 AAGAAGAAGA GAGAAAGA AAACGAGGAA chrIII:86479-86559 7 4.54e-05 GAGCGG GAGAGAAA AAGAAAAGGA chrI:1877835-1877915 14 4.54e-05 GAGAGTGACG GAGAGAAA ATAACCGGTT chrX:12184502-12184582 52 4.54e-05 AAACTCAGTG GAGAGAAA CTAAAGAAAT chrI:8027942-8028022 29 4.54e-05 TGCAAAAAAT GAGAGAAA ACTTTCAAGG chrIV:9932172-9932252 32 4.54e-05 AAAAAAAAAT GAGAGAAA TCAGTGAAAT chrI:14953257-14953337 24 6.81e-05 GAGAGATGCA GAGAAAAA AATATAGATT chrX:4210700-4210780 59 6.81e-05 TTTGCaaaaa gagaaaaa aaaagaaaaa chrII:11637389-11637469 21 6.81e-05 GTATTGCCTC GAGAAAAA TGTTATGTAA chrIII:8847873-8847953 72 6.81e-05 TCGAGACGCA GAGAAAAA T chrII:6974163-6974243 70 6.81e-05 TATGCTGTTC GAGAAAAA CCG chrI:11964937-11965017 62 6.81e-05 CGAAAAAATG GAGAAAAA CTAGGAAAAA chrII:5931308-5931388 19 7.70e-05 GCAAATGTGT GAGAGAGG TAGATGCAGA chrI:8416288-8416368 60 7.70e-05 AGGCAAAAGC GAGAGAGG AGAGGCAGCA chrI:108232-108312 69 1.06e-04 CAGAACAACT AAGAGAGA CGGG chrII:2195726-2195806 62 1.06e-04 CACACAAATA GAGAAAGG AAATTGAGGA chrI:289133-289213 71 1.31e-04 TTTTGTTATG GAGAGAGT AG chrIV:4215505-4215585 62 1.31e-04 GACAAATAGG GAGAGAGT ATGTTTTTAG chrX:13995945-13996025 46 1.31e-04 CAGTTGCGGC CAGAGAGA CTAGGCAAAT chrII:6844709-6844789 47 1.43e-04 TCTGTGGTGC GAGAGAAG GGTACACATA chrV:1743629-1743709 15 1.83e-04 GGAGACAGAA AAGAAAGA TAACATGCCG chrV:11933360-11933440 73 1.83e-04 CCACAGTTTC AAGAAAGA chrV:12100890-12100970 53 1.83e-04 TAGAGAATCA GAAAGAGA AGAAACGCAG chrV:20762015-20762095 51 1.83e-04 GGTAAAAGGT GAAAGAGA GGAGCTGCGT chrX:1961548-1961628 57 2.17e-04 GTGTGGTCTT GAGAAAGT CAAAGGGGTG chrIII:8614558-8614638 65 2.17e-04 TAAACAAATT CAGAAAGA AAAATAAT chrI:9087383-9087463 5 2.17e-04 CGAT GAGAAAGT TTGTTTATTT chrV:6270191-6270271 66 2.17e-04 GCAAATTGTG CAGAAAGA GGAAGAG chrI:10567621-10567701 6 2.56e-04 TTTAC GAGAAAAG TTAAAGGCGC chrIII:13310770-13310850 68 2.56e-04 ATAATAACAG AAGAGAAA TTAAA chrIV:14959620-14959700 14 2.56e-04 ATAATTGGTA AAGAGAAA TATGCAAATG chrX:14571470-14571550 8 3.13e-04 GCCCGGT GAAAAAGA AAAATACACT chrI:6542046-6542126 39 3.13e-04 ACGGAGACAG CAGAGAAA CGCGGGTAGA chrV:11344524-11344604 17 3.67e-04 CATTTTAAAC AAGAAAAA ATTCAAAAAT chrII:9128379-9128459 58 3.67e-04 CAATTATTTC GAAAGAAA TCGAAACATT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGARARA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:5375579-5375659 1.2e-05 69_[+2]_3 chrX:11974862-11974942 1.2e-05 58_[+2]_14 chrI:14320500-14320580 1.2e-05 68_[+2]_4 chrI:14628132-14628212 1.2e-05 70_[+2]_2 chrI:3096288-3096368 1.2e-05 68_[+2]_4 chrIV:14875054-14875134 1.2e-05 1_[+2]_71 chrI:6073620-6073700 1.2e-05 18_[+2]_54 chrIV:1655478-1655558 1.2e-05 62_[+2]_10 chrII:6344060-6344140 1.2e-05 17_[+2]_55 chrIV:5753416-5753496 1.2e-05 17_[+2]_55 chrV:13787697-13787777 2.9e-05 60_[+2]_12 chrV:11082651-11082731 2.9e-05 15_[+2]_57 chrIII:908167-908247 2.9e-05 48_[+2]_24 chrIII:5405780-5405860 2.9e-05 21_[+2]_51 chrIII:5836937-5837017 2.9e-05 31_[+2]_41 chrI:14787886-14787966 2.9e-05 5_[+2]_67 chrI:6173165-6173245 2.9e-05 27_[+2]_45 chrIII:86479-86559 4.5e-05 6_[+2]_66 chrI:1877835-1877915 4.5e-05 13_[+2]_59 chrX:12184502-12184582 4.5e-05 51_[+2]_21 chrI:8027942-8028022 4.5e-05 28_[+2]_44 chrIV:9932172-9932252 4.5e-05 31_[+2]_41 chrI:14953257-14953337 6.8e-05 23_[+2]_49 chrX:4210700-4210780 6.8e-05 58_[+2]_14 chrII:11637389-11637469 6.8e-05 20_[+2]_52 chrIII:8847873-8847953 6.8e-05 71_[+2]_1 chrII:6974163-6974243 6.8e-05 69_[+2]_3 chrI:11964937-11965017 6.8e-05 61_[+2]_11 chrII:5931308-5931388 7.7e-05 18_[+2]_54 chrI:8416288-8416368 7.7e-05 59_[+2]_13 chrI:108232-108312 0.00011 68_[+2]_4 chrII:2195726-2195806 0.00011 61_[+2]_11 chrI:289133-289213 0.00013 70_[+2]_2 chrIV:4215505-4215585 0.00013 61_[+2]_11 chrX:13995945-13996025 0.00013 45_[+2]_27 chrII:6844709-6844789 0.00014 46_[+2]_26 chrV:1743629-1743709 0.00018 14_[+2]_58 chrV:11933360-11933440 0.00018 72_[+2] chrV:12100890-12100970 0.00018 52_[+2]_20 chrV:20762015-20762095 0.00018 50_[+2]_22 chrX:1961548-1961628 0.00022 56_[+2]_16 chrIII:8614558-8614638 0.00022 64_[+2]_8 chrI:9087383-9087463 0.00022 4_[+2]_68 chrV:6270191-6270271 0.00022 65_[+2]_7 chrI:10567621-10567701 0.00026 5_[+2]_67 chrIII:13310770-13310850 0.00026 67_[+2]_5 chrIV:14959620-14959700 0.00026 13_[+2]_59 chrX:14571470-14571550 0.00031 7_[+2]_65 chrI:6542046-6542126 0.00031 38_[+2]_34 chrV:11344524-11344604 0.00037 16_[+2]_56 chrII:9128379-9128459 0.00037 57_[+2]_15 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGARARA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GAGARARA width=8 seqs=51 chrI:5375579-5375659 ( 70) GAGAGAGA 1 chrX:11974862-11974942 ( 59) GAGAGAGA 1 chrI:14320500-14320580 ( 69) GAGAGAGA 1 chrI:14628132-14628212 ( 71) GAGAGAGA 1 chrI:3096288-3096368 ( 69) GAGAGAGA 1 chrIV:14875054-14875134 ( 2) GAGAGAGA 1 chrI:6073620-6073700 ( 19) GAGAGAGA 1 chrIV:1655478-1655558 ( 63) GAGAGAGA 1 chrII:6344060-6344140 ( 18) GAGAGAGA 1 chrIV:5753416-5753496 ( 18) GAGAGAGA 1 chrV:13787697-13787777 ( 61) GAGAAAGA 1 chrV:11082651-11082731 ( 16) GAGAAAGA 1 chrIII:908167-908247 ( 49) GAGAAAGA 1 chrIII:5405780-5405860 ( 22) GAGAAAGA 1 chrIII:5836937-5837017 ( 32) GAGAAAGA 1 chrI:14787886-14787966 ( 6) GAGAAAGA 1 chrI:6173165-6173245 ( 28) GAGAAAGA 1 chrIII:86479-86559 ( 7) GAGAGAAA 1 chrI:1877835-1877915 ( 14) GAGAGAAA 1 chrX:12184502-12184582 ( 52) GAGAGAAA 1 chrI:8027942-8028022 ( 29) GAGAGAAA 1 chrIV:9932172-9932252 ( 32) GAGAGAAA 1 chrI:14953257-14953337 ( 24) GAGAAAAA 1 chrX:4210700-4210780 ( 59) GAGAAAAA 1 chrII:11637389-11637469 ( 21) GAGAAAAA 1 chrIII:8847873-8847953 ( 72) GAGAAAAA 1 chrII:6974163-6974243 ( 70) GAGAAAAA 1 chrI:11964937-11965017 ( 62) GAGAAAAA 1 chrII:5931308-5931388 ( 19) GAGAGAGG 1 chrI:8416288-8416368 ( 60) GAGAGAGG 1 chrI:108232-108312 ( 69) AAGAGAGA 1 chrII:2195726-2195806 ( 62) GAGAAAGG 1 chrI:289133-289213 ( 71) GAGAGAGT 1 chrIV:4215505-4215585 ( 62) GAGAGAGT 1 chrX:13995945-13996025 ( 46) CAGAGAGA 1 chrII:6844709-6844789 ( 47) GAGAGAAG 1 chrV:1743629-1743709 ( 15) AAGAAAGA 1 chrV:11933360-11933440 ( 73) AAGAAAGA 1 chrV:12100890-12100970 ( 53) GAAAGAGA 1 chrV:20762015-20762095 ( 51) GAAAGAGA 1 chrX:1961548-1961628 ( 57) GAGAAAGT 1 chrIII:8614558-8614638 ( 65) CAGAAAGA 1 chrI:9087383-9087463 ( 5) GAGAAAGT 1 chrV:6270191-6270271 ( 66) CAGAAAGA 1 chrI:10567621-10567701 ( 6) GAGAAAAG 1 chrIII:13310770-13310850 ( 68) AAGAGAAA 1 chrIV:14959620-14959700 ( 14) AAGAGAAA 1 chrX:14571470-14571550 ( 8) GAAAAAGA 1 chrI:6542046-6542126 ( 39) CAGAGAAA 1 chrV:11344524-11344604 ( 17) AAGAAAAA 1 chrII:9128379-9128459 ( 58) GAAAGAAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGARARA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.594 E= 1.6e-015 -127 -147 195 -1232 181 -1232 -1232 -1232 -186 -1232 215 -1232 181 -1232 -1232 -1232 67 -1232 140 -1232 181 -1232 -1232 -1232 31 -1232 164 -1232 153 -1232 -108 -189 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGARARA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 51 E= 1.6e-015 0.117647 0.078431 0.803922 0.000000 1.000000 0.000000 0.000000 0.000000 0.078431 0.000000 0.921569 0.000000 1.000000 0.000000 0.000000 0.000000 0.450980 0.000000 0.549020 0.000000 1.000000 0.000000 0.000000 0.000000 0.352941 0.000000 0.647059 0.000000 0.823529 0.000000 0.098039 0.078431 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGARARA MEME-2 regular expression -------------------------------------------------------------------------------- GAGA[GA]A[GA]A -------------------------------------------------------------------------------- Time 12.05 secs. ******************************************************************************** ******************************************************************************** MOTIF GCGCRBTT MEME-3 width = 8 sites = 55 llr = 432 E-value = 8.4e-012 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCGCRBTT MEME-3 Description -------------------------------------------------------------------------------- Simplified A ::::31:: pos.-specific C :a:9132: probability G 9:a:63:3 matrix T 1::1:387 bits 2.3 ** 2.0 ** 1.8 **** 1.6 **** Relative 1.4 **** Entropy 1.1 **** * (11.3 bits) 0.9 ***** ** 0.7 ***** ** 0.5 ***** ** 0.2 ******** 0.0 -------- Multilevel GCGCGGTT consensus AC G sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCRBTT MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:104621-104701 62 7.46e-06 TAATGGTGCG GCGCGGTT TTCGGAGTGT chrI:13161966-13162046 10 7.46e-06 AACTATTTT GCGCGGTT TTTCAAAATT chrIII:7277370-7277450 66 7.46e-06 aacatcacat gcgcggtt tttcgaa chrIV:5371072-5371152 58 1.53e-05 ACTCCGCGGC GCGCGCTT CCGCAACCCG chrI:14787886-14787966 52 1.53e-05 TGACAATAGA GCGCGCTT GGTGTGTGGT chrIII:8809698-8809778 43 1.53e-05 TATCTACGGA GCGCGCTT GCGACAGTTG chrIII:12152305-12152385 50 3.10e-05 TATCAACAGG GCGCGTTT GCACTTTTCA chrIV:7774360-7774440 13 3.10e-05 TATGAACATG GCGCGTTT CGTCTCTGTC chrII:7050298-7050378 51 3.10e-05 TCACAATGGA GCGCGTTT GCATTATTTT chrV:8302655-8302735 64 3.10e-05 GCTAAACAAG GCGCGGTG TGGAATAAC chrV:9212675-9212755 57 3.10e-05 TTTCAATAGA GCGCGTTT GATGAACTAC chrIII:12377395-12377475 58 3.10e-05 GTTCAATGGA GCGCGTTT GCCTAGCAAG chrIII:86479-86559 64 3.66e-05 GTCGTCAGAC GCGCGCTG CGAGACCCA chrII:13575684-13575764 39 3.66e-05 ACCGTTTTGA GCGCGCTG AAGGCCCCCC chrII:7111806-7111886 43 5.42e-05 ACACCACTAC GCGCAGTT GCACACAATC chrIII:8847873-8847953 43 5.42e-05 GTGCAGTAGA GCGCAGTT GCATTCTCTC chrX:11719048-11719128 31 5.42e-05 CTCTCCCATT GCGCAGTT TTTGTCTCCT chrX:13995945-13996025 33 5.42e-05 TAGATTCCAC GCGCAGTT GCGGCCAGAG chrI:4444448-4444528 42 5.42e-05 TACAATTGAC GCGCAGTT GCACACAACA chrIV:9107650-9107730 32 5.42e-05 TCTGTTGAGT GCGCAGTT GGTTTACACT chrI:12826677-12826757 10 5.42e-05 AGAAATAGA GCGCAGTT TCCACTACAC chrIV:5731781-5731861 3 5.42e-05 TT GCGCGTTG TTTATCGTAA chrI:4788601-4788681 33 5.42e-05 TATCAATAGA GCGCGTTG TCATAACTCC chrIV:11433892-11433972 54 6.49e-05 TGGTTCGCTG GCGCACTT CTCGATTATT chrIII:2805256-2805336 40 6.49e-05 TCTCAATGGG GCGCACTT GCATTTCTCA chrII:7147733-7147813 42 6.49e-05 TAGCCATGGA GCGCACTT GAAAATCGCT chrI:5768822-5768902 35 7.04e-05 TGGAAAAGTT GCGCGGCT TGAGAGGGTG chrIV:9525095-9525175 35 7.63e-05 GAGTGTCGTT GCGCGCCT TGTTTATCAG chrIII:12688175-12688255 52 7.63e-05 gttcggtgga gcgcgcct gcgttatttt chrIII:1905772-1905852 31 7.63e-05 TTAACTAGGC GCGCGCCT TGTTTAGACC chrI:14320500-14320580 47 1.27e-04 TTGCTAAACG GCGCGGCG gagagaggga chrII:10203908-10203988 6 1.31e-04 GCCGC GCGCGCCG ACGAAATTTG chrI:2064041-2064121 61 1.42e-04 CATATTTCAC GCGCATTG CGTATTTTGA chrIII:8355243-8355323 58 1.57e-04 CTCGTCTCGT GCGCGATG CACAGAAGCT chrI:7835612-7835692 39 1.78e-04 TATAAACTTT GCGCGTCG AATCTGGCGC chrI:9087383-9087463 65 1.78e-04 CCAATTGAAT GCGCGTCG TGCCTAAC chrI:1156157-1156237 50 2.22e-04 GGTTTCGCTT GCGCCTTT AAATACATTT chrIV:15037142-15037222 46 2.22e-04 GGGTCTCGCC GCGCCGTG TTGCATGTGA chrII:6844709-6844789 20 2.22e-04 GTGAGCGTGT GCGCAATT ATCGATTCGT chrII:10798612-10798692 55 2.22e-04 GCAAAGCTAC GCGCAATT GCGGACTTGA chrI:2629408-2629488 29 2.22e-04 GTAAGATTTG GCGCCTTT TGTGCAAACA chrII:14441314-14441394 42 2.22e-04 TGTCAGTAGA GCGCAATT GCAttattta chrI:4175063-4175143 27 2.22e-04 GAAATTGCAT GCGCCTTT AAACGATGAT chrI:3684618-3684698 53 2.50e-04 AAAACAAAAC GCGCAGCG GCCACGGCCA chrI:11416745-11416825 14 2.50e-04 AGCAGTGCAT GCGCGCTC TATTGAGAAT chrI:6542046-6542126 2 2.50e-04 A GCGCGCTC TTTCGTCACG chrX:861812-861892 62 2.73e-04 AAGAAAATTA GCGCACCG ATCAAACTTT chrX:325828-325908 34 2.73e-04 CAGGTTTTTC TCGCGGTT TTCACGTAGA chrIV:7561882-7561962 56 2.73e-04 CGCAGAAGCG TCGCGGTT GACACGCAAC chrII:7631291-7631371 63 2.84e-04 TCACCGGAAG TCGCGCTT GCAAACCGCT chrIII:8614558-8614638 46 3.20e-04 CTGGCTCGAA GCGTGGTT ATAAACAAAT chrV:11083839-11083919 53 3.20e-04 AAAGCACGTT GCGCAATG GCCTATCGGT chrII:11778254-11778334 40 3.38e-04 GTTAGAGCGC GCGTGCTT CAAAAAACAA chrI:12968591-12968671 28 4.14e-04 GTTCCGTGGA GCGTGTTT GCACCAAAAA chrIII:982123-982203 42 4.91e-04 TCTAATCCTC TCGCGTTG TCTCTGTGTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCRBTT MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:104621-104701 7.5e-06 61_[+3]_11 chrI:13161966-13162046 7.5e-06 9_[+3]_63 chrIII:7277370-7277450 7.5e-06 65_[+3]_7 chrIV:5371072-5371152 1.5e-05 57_[+3]_15 chrI:14787886-14787966 1.5e-05 51_[+3]_21 chrIII:8809698-8809778 1.5e-05 42_[+3]_30 chrIII:12152305-12152385 3.1e-05 49_[+3]_23 chrIV:7774360-7774440 3.1e-05 12_[+3]_60 chrII:7050298-7050378 3.1e-05 50_[+3]_22 chrV:8302655-8302735 3.1e-05 63_[+3]_9 chrV:9212675-9212755 3.1e-05 56_[+3]_16 chrIII:12377395-12377475 3.1e-05 57_[+3]_15 chrIII:86479-86559 3.7e-05 63_[+3]_9 chrII:13575684-13575764 3.7e-05 38_[+3]_34 chrII:7111806-7111886 5.4e-05 42_[+3]_30 chrIII:8847873-8847953 5.4e-05 42_[+3]_30 chrX:11719048-11719128 5.4e-05 30_[+3]_42 chrX:13995945-13996025 5.4e-05 32_[+3]_40 chrI:4444448-4444528 5.4e-05 41_[+3]_31 chrIV:9107650-9107730 5.4e-05 31_[+3]_41 chrI:12826677-12826757 5.4e-05 9_[+3]_63 chrIV:5731781-5731861 5.4e-05 2_[+3]_70 chrI:4788601-4788681 5.4e-05 32_[+3]_40 chrIV:11433892-11433972 6.5e-05 53_[+3]_19 chrIII:2805256-2805336 6.5e-05 39_[+3]_33 chrII:7147733-7147813 6.5e-05 41_[+3]_31 chrI:5768822-5768902 7e-05 34_[+3]_38 chrIV:9525095-9525175 7.6e-05 34_[+3]_38 chrIII:12688175-12688255 7.6e-05 51_[+3]_21 chrIII:1905772-1905852 7.6e-05 30_[+3]_42 chrI:14320500-14320580 0.00013 46_[+3]_26 chrII:10203908-10203988 0.00013 5_[+3]_67 chrI:2064041-2064121 0.00014 60_[+3]_12 chrIII:8355243-8355323 0.00016 57_[+3]_15 chrI:7835612-7835692 0.00018 38_[+3]_34 chrI:9087383-9087463 0.00018 64_[+3]_8 chrI:1156157-1156237 0.00022 49_[+3]_23 chrIV:15037142-15037222 0.00022 45_[+3]_27 chrII:6844709-6844789 0.00022 19_[+3]_53 chrII:10798612-10798692 0.00022 54_[+3]_18 chrI:2629408-2629488 0.00022 28_[+3]_44 chrII:14441314-14441394 0.00022 41_[+3]_31 chrI:4175063-4175143 0.00022 26_[+3]_46 chrI:3684618-3684698 0.00025 52_[+3]_20 chrI:11416745-11416825 0.00025 13_[+3]_59 chrI:6542046-6542126 0.00025 1_[+3]_71 chrX:861812-861892 0.00027 61_[+3]_11 chrX:325828-325908 0.00027 33_[+3]_39 chrIV:7561882-7561962 0.00027 55_[+3]_17 chrII:7631291-7631371 0.00028 62_[+3]_10 chrIII:8614558-8614638 0.00032 45_[+3]_27 chrV:11083839-11083919 0.00032 52_[+3]_20 chrII:11778254-11778334 0.00034 39_[+3]_33 chrI:12968591-12968671 0.00041 27_[+3]_45 chrIII:982123-982203 0.00049 41_[+3]_31 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCRBTT MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCGCRBTT width=8 seqs=55 chrV:104621-104701 ( 62) GCGCGGTT 1 chrI:13161966-13162046 ( 10) GCGCGGTT 1 chrIII:7277370-7277450 ( 66) GCGCGGTT 1 chrIV:5371072-5371152 ( 58) GCGCGCTT 1 chrI:14787886-14787966 ( 52) GCGCGCTT 1 chrIII:8809698-8809778 ( 43) GCGCGCTT 1 chrIII:12152305-12152385 ( 50) GCGCGTTT 1 chrIV:7774360-7774440 ( 13) GCGCGTTT 1 chrII:7050298-7050378 ( 51) GCGCGTTT 1 chrV:8302655-8302735 ( 64) GCGCGGTG 1 chrV:9212675-9212755 ( 57) GCGCGTTT 1 chrIII:12377395-12377475 ( 58) GCGCGTTT 1 chrIII:86479-86559 ( 64) GCGCGCTG 1 chrII:13575684-13575764 ( 39) GCGCGCTG 1 chrII:7111806-7111886 ( 43) GCGCAGTT 1 chrIII:8847873-8847953 ( 43) GCGCAGTT 1 chrX:11719048-11719128 ( 31) GCGCAGTT 1 chrX:13995945-13996025 ( 33) GCGCAGTT 1 chrI:4444448-4444528 ( 42) GCGCAGTT 1 chrIV:9107650-9107730 ( 32) GCGCAGTT 1 chrI:12826677-12826757 ( 10) GCGCAGTT 1 chrIV:5731781-5731861 ( 3) GCGCGTTG 1 chrI:4788601-4788681 ( 33) GCGCGTTG 1 chrIV:11433892-11433972 ( 54) GCGCACTT 1 chrIII:2805256-2805336 ( 40) GCGCACTT 1 chrII:7147733-7147813 ( 42) GCGCACTT 1 chrI:5768822-5768902 ( 35) GCGCGGCT 1 chrIV:9525095-9525175 ( 35) GCGCGCCT 1 chrIII:12688175-12688255 ( 52) GCGCGCCT 1 chrIII:1905772-1905852 ( 31) GCGCGCCT 1 chrI:14320500-14320580 ( 47) GCGCGGCG 1 chrII:10203908-10203988 ( 6) GCGCGCCG 1 chrI:2064041-2064121 ( 61) GCGCATTG 1 chrIII:8355243-8355323 ( 58) GCGCGATG 1 chrI:7835612-7835692 ( 39) GCGCGTCG 1 chrI:9087383-9087463 ( 65) GCGCGTCG 1 chrI:1156157-1156237 ( 50) GCGCCTTT 1 chrIV:15037142-15037222 ( 46) GCGCCGTG 1 chrII:6844709-6844789 ( 20) GCGCAATT 1 chrII:10798612-10798692 ( 55) GCGCAATT 1 chrI:2629408-2629488 ( 29) GCGCCTTT 1 chrII:14441314-14441394 ( 42) GCGCAATT 1 chrI:4175063-4175143 ( 27) GCGCCTTT 1 chrI:3684618-3684698 ( 53) GCGCAGCG 1 chrI:11416745-11416825 ( 14) GCGCGCTC 1 chrI:6542046-6542126 ( 2) GCGCGCTC 1 chrX:861812-861892 ( 62) GCGCACCG 1 chrX:325828-325908 ( 34) TCGCGGTT 1 chrIV:7561882-7561962 ( 56) TCGCGGTT 1 chrII:7631291-7631371 ( 63) TCGCGCTT 1 chrIII:8614558-8614638 ( 46) GCGTGGTT 1 chrV:11083839-11083919 ( 53) GCGCAATG 1 chrII:11778254-11778334 ( 40) GCGTGCTT 1 chrI:12968591-12968671 ( 28) GCGTGTTT 1 chrIII:982123-982203 ( 42) TCGCGTTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCRBTT MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 8.95894 E= 8.4e-012 -1243 -1243 216 -200 -1243 221 -1243 -1243 -1243 -1243 227 -1243 -1243 213 -1243 -241 12 -157 157 -1243 -164 51 65 -9 -1243 -25 -1243 149 -1243 -257 48 121 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCRBTT MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 55 E= 8.4e-012 0.000000 0.000000 0.927273 0.072727 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.945455 0.000000 0.054545 0.309091 0.072727 0.618182 0.000000 0.090909 0.309091 0.327273 0.272727 0.000000 0.181818 0.000000 0.818182 0.000000 0.036364 0.290909 0.672727 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCRBTT MEME-3 regular expression -------------------------------------------------------------------------------- GCGC[GA][GCT]T[TG] -------------------------------------------------------------------------------- Time 15.57 secs. ******************************************************************************** ******************************************************************************** MOTIF AGASGSAG MEME-4 width = 8 sites = 23 llr = 212 E-value = 1.2e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif AGASGSAG MEME-4 Description -------------------------------------------------------------------------------- Simplified A 9:a:3:a: pos.-specific C :::6:6:: probability G 1a:474:a matrix T :::::::: bits 2.3 * * 2.0 * * 1.8 ** ** 1.6 ** ** Relative 1.4 *** **** Entropy 1.1 ******** (13.3 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel AGACGCAG consensus GAG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGASGSAG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrII:10658868-10658948 36 9.71e-06 GCCCAAAAAG AGACGCAG ACAGTGGACG chrX:11974862-11974942 36 9.71e-06 ACGTACTAAC AGACGCAG ATACTAAAGC chrI:4299648-4299728 39 9.71e-06 TTATTAAAAG AGACGCAG ACAGTAGGTT chrX:1965010-1965090 48 9.71e-06 TGCAATTGAG AGACGCAG ACGGAAAACC chrIV:4215505-4215585 31 9.71e-06 GAGCGTGCAC AGACGCAG ACACAAAAAT chrIII:13313928-13314008 58 9.71e-06 TTTTGAAAAG AGACGCAG AGAACGGTGG chrIV:14959620-14959700 62 9.71e-06 GAAAGATGAG AGACGCAG AGAGTGTGCG chrV:10338711-10338791 47 9.71e-06 TCTATAGTGG AGACGCAG GGAATTGGTT chrI:8416288-8416368 68 1.90e-05 GCGAGAGAGG AGAGGCAG CAGAG chrIII:5405780-5405860 32 2.83e-05 GAGAAAGACG AGACGGAG ACGAGGGCAG chrIV:7016696-7016776 69 2.83e-05 AAAAATTGgg agacggag agag chrI:14953257-14953337 9 3.72e-05 TTTAGGAG AGAGGGAG AGATGCAGAG chrV:10031572-10031652 35 3.72e-05 GCCTGAAAAG AGAGGGAG TTCAAAAATT chrI:14320500-14320580 58 3.72e-05 CGCGGCGgag agagggag agagagagag chrIV:10346168-10346248 64 5.05e-05 CATTTCGAAG AGACACAG GCGTAAAGA chrV:6359436-6359516 72 5.05e-05 GTGCGTGAAG AGACACAG A chrI:289133-289213 12 7.03e-05 AAGTGTCGTC GGACGCAG TGTTTCGTGT chrX:1961548-1961628 12 7.03e-05 TTTGCGGTCG AGAGACAG AGAACGCTAG chrV:152379-152459 38 8.98e-05 TTTCGGGTAT GGAGGCAG AGAACCTTTG chrI:1877835-1877915 1 1.09e-04 . AGAGAGAG TGACGGAGAG chrII:11778254-11778334 16 1.09e-04 TGTGCATTTT AGAGAGAG CGCAGAGTTA chrI:6173165-6173245 53 1.09e-04 GAAGAGAACT AGAGAGAG CGAGAATGAT chrIV:5731781-5731861 39 1.15e-04 ACATGAAAAA GGAGGGAG TTCAAACTTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGASGSAG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrII:10658868-10658948 9.7e-06 35_[+4]_37 chrX:11974862-11974942 9.7e-06 35_[+4]_37 chrI:4299648-4299728 9.7e-06 38_[+4]_34 chrX:1965010-1965090 9.7e-06 47_[+4]_25 chrIV:4215505-4215585 9.7e-06 30_[+4]_42 chrIII:13313928-13314008 9.7e-06 57_[+4]_15 chrIV:14959620-14959700 9.7e-06 61_[+4]_11 chrV:10338711-10338791 9.7e-06 46_[+4]_26 chrI:8416288-8416368 1.9e-05 67_[+4]_5 chrIII:5405780-5405860 2.8e-05 31_[+4]_41 chrIV:7016696-7016776 2.8e-05 68_[+4]_4 chrI:14953257-14953337 3.7e-05 8_[+4]_64 chrV:10031572-10031652 3.7e-05 34_[+4]_38 chrI:14320500-14320580 3.7e-05 57_[+4]_15 chrIV:10346168-10346248 5e-05 63_[+4]_9 chrV:6359436-6359516 5e-05 71_[+4]_1 chrI:289133-289213 7e-05 11_[+4]_61 chrX:1961548-1961628 7e-05 11_[+4]_61 chrV:152379-152459 9e-05 37_[+4]_35 chrI:1877835-1877915 0.00011 [+4]_72 chrII:11778254-11778334 0.00011 15_[+4]_57 chrI:6173165-6173245 0.00011 52_[+4]_20 chrIV:5731781-5731861 0.00012 38_[+4]_34 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGASGSAG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AGASGSAG width=8 seqs=23 chrII:10658868-10658948 ( 36) AGACGCAG 1 chrX:11974862-11974942 ( 36) AGACGCAG 1 chrI:4299648-4299728 ( 39) AGACGCAG 1 chrX:1965010-1965090 ( 48) AGACGCAG 1 chrIV:4215505-4215585 ( 31) AGACGCAG 1 chrIII:13313928-13314008 ( 58) AGACGCAG 1 chrIV:14959620-14959700 ( 62) AGACGCAG 1 chrV:10338711-10338791 ( 47) AGACGCAG 1 chrI:8416288-8416368 ( 68) AGAGGCAG 1 chrIII:5405780-5405860 ( 32) AGACGGAG 1 chrIV:7016696-7016776 ( 69) AGACGGAG 1 chrI:14953257-14953337 ( 9) AGAGGGAG 1 chrV:10031572-10031652 ( 35) AGAGGGAG 1 chrI:14320500-14320580 ( 58) AGAGGGAG 1 chrIV:10346168-10346248 ( 64) AGACACAG 1 chrV:6359436-6359516 ( 72) AGACACAG 1 chrI:289133-289213 ( 12) GGACGCAG 1 chrX:1961548-1961628 ( 12) AGAGACAG 1 chrV:152379-152459 ( 38) GGAGGCAG 1 chrI:1877835-1877915 ( 1) AGAGAGAG 1 chrII:11778254-11778334 ( 16) AGAGAGAG 1 chrI:6173165-6173245 ( 53) AGAGAGAG 1 chrIV:5731781-5731861 ( 39) GGAGGGAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGASGSAG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.6953 E= 1.2e-002 161 -1117 -67 -1117 -1117 -1117 226 -1117 181 -1117 -1117 -1117 -1117 138 106 -1117 -12 -1117 183 -1117 -1117 149 91 -1117 181 -1117 -1117 -1117 -1117 -1117 226 -1117 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGASGSAG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 23 E= 1.2e-002 0.869565 0.000000 0.130435 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.565217 0.434783 0.000000 0.260870 0.000000 0.739130 0.000000 0.000000 0.608696 0.391304 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGASGSAG MEME-4 regular expression -------------------------------------------------------------------------------- AGA[CG][GA][CG]AG -------------------------------------------------------------------------------- Time 19.00 secs. ******************************************************************************** ******************************************************************************** MOTIF GSGTCTCG MEME-5 width = 8 sites = 18 llr = 170 E-value = 2.1e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif GSGTCTCG MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C :6::a:a: probability G 83a::3:9 matrix T 21:a:7:1 bits 2.3 * * * 2.0 * * * 1.8 *** ** 1.6 * *** ** Relative 1.4 * *** ** Entropy 1.1 * ****** (13.6 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GCGTCTCG consensus G G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSGTCTCG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIII:13106011-13106091 72 7.79e-06 ctaacctcCT GCGTCTCG G chrII:10658868-10658948 53 1.53e-05 GACAGTGGAC GGGTCTCG CAGCGACAAG chrI:10567621-10567701 43 1.53e-05 GCCGCCTTGA GGGTCTCG TGACGAAACA chrIV:15037142-15037222 36 1.53e-05 CACAGCGCAT GGGTCTCG CCGCGCCGTG chrII:8283387-8283467 30 1.53e-05 GAACTCAAGT GGGTCTCG CCACGAAACC chrII:8602498-8602578 20 1.53e-05 CCCCTGCGGT GGGTCTCG CAGCGATCTC chrIV:255604-255684 29 2.08e-05 TCACTTCGAC GCGTCGCG TGTTCGCGTT chrIII:6951617-6951697 18 2.08e-05 CGTAGCGGTC GCGTCGCG GCTATCTCTT chrV:11982488-11982568 8 2.08e-05 GCCGGAC GCGTCGCG TGTCGTCTGT chrII:7050298-7050378 23 2.08e-05 GTCGCACACC GCGTCGCG CTCTGAATTC chrV:10134291-10134371 46 2.08e-05 ACCGTTGAAT GCGTCGCG GCTCTAAACG chrIV:51446-51526 16 4.75e-05 acctgtctgc gtgtctcg ttctctGCGT chrIII:13713071-13713151 52 4.75e-05 CGTGCTCTCT GTGTCTCG CCCGACTATC chrI:9089220-9089300 64 4.75e-05 ACTCTTTTAT TCGTCTCG TAGCAGCCC chrIII:8355243-8355323 49 4.75e-05 ATTTCATCAC TCGTCTCG TGCGCGATGC chrIII:9747337-9747417 15 5.79e-05 CACTAAGCAA TGGTCTCG CACCGACTGT chrIII:13423581-13423661 31 6.88e-05 GCCGACTGTG GCGTCTCT ATGCATTTAC chrI:5999351-5999431 44 6.88e-05 CGAAATATCT GCGTCTCT CACATTTATT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSGTCTCG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIII:13106011-13106091 7.8e-06 71_[+5]_1 chrII:10658868-10658948 1.5e-05 52_[+5]_20 chrI:10567621-10567701 1.5e-05 42_[+5]_30 chrIV:15037142-15037222 1.5e-05 35_[+5]_37 chrII:8283387-8283467 1.5e-05 29_[+5]_43 chrII:8602498-8602578 1.5e-05 19_[+5]_53 chrIV:255604-255684 2.1e-05 28_[+5]_44 chrIII:6951617-6951697 2.1e-05 17_[+5]_55 chrV:11982488-11982568 2.1e-05 7_[+5]_65 chrII:7050298-7050378 2.1e-05 22_[+5]_50 chrV:10134291-10134371 2.1e-05 45_[+5]_27 chrIV:51446-51526 4.7e-05 15_[+5]_57 chrIII:13713071-13713151 4.7e-05 51_[+5]_21 chrI:9089220-9089300 4.7e-05 63_[+5]_9 chrIII:8355243-8355323 4.7e-05 48_[+5]_24 chrIII:9747337-9747417 5.8e-05 14_[+5]_58 chrIII:13423581-13423661 6.9e-05 30_[+5]_42 chrI:5999351-5999431 6.9e-05 43_[+5]_29 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSGTCTCG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GSGTCTCG width=8 seqs=18 chrIII:13106011-13106091 ( 72) GCGTCTCG 1 chrII:10658868-10658948 ( 53) GGGTCTCG 1 chrI:10567621-10567701 ( 43) GGGTCTCG 1 chrIV:15037142-15037222 ( 36) GGGTCTCG 1 chrII:8283387-8283467 ( 30) GGGTCTCG 1 chrII:8602498-8602578 ( 20) GGGTCTCG 1 chrIV:255604-255684 ( 29) GCGTCGCG 1 chrIII:6951617-6951697 ( 18) GCGTCGCG 1 chrV:11982488-11982568 ( 8) GCGTCGCG 1 chrII:7050298-7050378 ( 23) GCGTCGCG 1 chrV:10134291-10134371 ( 46) GCGTCGCG 1 chrIV:51446-51526 ( 16) GTGTCTCG 1 chrIII:13713071-13713151 ( 52) GTGTCTCG 1 chrI:9089220-9089300 ( 64) TCGTCTCG 1 chrIII:8355243-8355323 ( 49) TCGTCTCG 1 chrIII:9747337-9747417 ( 15) TGGTCTCG 1 chrIII:13423581-13423661 ( 31) GCGTCTCT 1 chrI:5999351-5999431 ( 44) GCGTCTCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSGTCTCG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.3895 E= 2.1e+001 -1081 -1081 200 -80 -1081 136 68 -139 -1081 -1081 226 -1081 -1081 -1081 -1081 178 -1081 221 -1081 -1081 -1081 -1081 42 131 -1081 221 -1081 -1081 -1081 -1081 209 -139 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSGTCTCG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 18 E= 2.1e+001 0.000000 0.000000 0.833333 0.166667 0.000000 0.555556 0.333333 0.111111 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.277778 0.722222 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.888889 0.111111 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSGTCTCG MEME-5 regular expression -------------------------------------------------------------------------------- G[CG]GTC[TG]CG -------------------------------------------------------------------------------- Time 22.39 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrM:13135-13215 1.00e+00 80 chrIII:12851092-12851172 9.84e-01 80 chrX:11474395-11474475 9.52e-01 80 chrI:6173165-6173245 1.38e-02 27_[+2(2.88e-05)]_45 chrV:4647565-4647645 6.70e-01 80 chrI:11964937-11965017 1.90e-01 61_[+2(6.81e-05)]_11 chrIV:9667240-9667320 1.07e-01 80 chrX:3824616-3824696 7.03e-02 80 chrIII:10248634-10248714 3.94e-01 80 chrI:14948192-14948272 3.21e-01 80 chrIV:9932172-9932252 1.86e-01 31_[+2(4.54e-05)]_41 chrV:6270191-6270271 4.36e-02 80 chrIV:5753416-5753496 9.05e-05 17_[+2(1.22e-05)]_55 chrIII:13182117-13182197 5.32e-04 44_[+1(1.09e-05)]_28 chrI:9087383-9087463 3.98e-03 80 chrIII:8355243-8355323 4.73e-03 48_[+5(4.75e-05)]_24 chrI:10622866-10622946 9.90e-01 80 chrV:2109411-2109491 5.17e-03 21_[+1(1.09e-05)]_51 chrI:5768822-5768902 1.49e-02 34_[+3(7.04e-05)]_38 chrI:5999351-5999431 2.81e-02 43_[+5(6.88e-05)]_29 chrII:6344060-6344140 3.57e-02 17_[+2(1.22e-05)]_55 chrV:20749214-20749294 7.43e-04 28_[+5(6.88e-05)]_44 chrIII:8809698-8809778 3.69e-02 42_[+3(1.53e-05)]_30 chrV:11083839-11083919 2.15e-02 80 chrII:8143454-8143534 3.31e-01 56_[+1(9.98e-05)]_16 chrX:11482786-11482866 7.53e-02 80 chrIV:1239827-1239907 7.12e-01 80 chrI:1256116-1256196 1.37e-01 80 chrI:14787886-14787966 4.42e-07 5_[+2(2.88e-05)]_38_[+3(1.53e-05)]_\ 9_[+1(2.61e-05)]_4 chrII:13083929-13084009 2.04e-01 80 chrIV:6648803-6648883 2.34e-02 18_[+1(6.35e-05)]_54 chrIV:7016696-7016776 2.43e-02 68_[+4(2.83e-05)]_4 chrII:8137595-8137675 8.12e-01 80 chrX:10576603-10576683 4.24e-01 80 chrV:9422913-9422993 7.90e-02 80 chrV:19190247-19190327 3.00e-01 80 chrII:10203908-10203988 2.36e-02 80 chrIII:8922141-8922221 3.62e-02 80 chrIII:13002255-13002335 5.78e-02 80 chrIV:5371072-5371152 6.30e-03 57_[+3(1.53e-05)]_15 chrIV:1655478-1655558 8.75e-04 53_[+2(1.22e-05)]_1_[+2(1.22e-05)]_\ 10 chrIV:5656132-5656212 8.22e-01 80 chrM:5637-5717 1.00e+00 80 chrI:6849982-6850062 5.61e-01 80 chrV:20762015-20762095 6.54e-02 80 chrIII:982123-982203 3.28e-03 49_[+1(6.35e-05)]_23 chrI:6073620-6073700 1.59e-02 18_[+2(1.22e-05)]_4_[+2(2.88e-05)]_\ 42 chrI:5997552-5997632 1.02e-02 80 chrI:4788601-4788681 2.52e-03 2_[+1(3.75e-05)]_22_[+3(5.42e-05)]_\ 40 chrII:3897123-3897203 9.74e-02 39_[+1(3.75e-05)]_33 chrIV:7561882-7561962 1.84e-03 52_[+5(2.08e-05)]_20 chrIV:4407254-4407334 1.84e-01 80 chrIV:14875054-14875134 2.68e-06 1_[+2(1.22e-05)]_51_[+1(1.09e-05)]_\ 12 chrII:10350653-10350733 4.43e-01 80 chrV:10338711-10338791 3.19e-02 46_[+4(9.71e-06)]_26 chrIII:12377395-12377475 1.80e-02 57_[+3(3.10e-05)]_15 chrIII:5563862-5563942 7.37e-02 80 chrI:6542046-6542126 2.34e-04 80 chrV:2218974-2219054 3.38e-01 80 chrII:5594389-5594469 8.29e-01 80 chrI:4175063-4175143 4.01e-02 80 chrX:15279539-15279619 1.23e-02 80 chrIV:14959620-14959700 8.85e-03 61_[+4(9.71e-06)]_11 chrI:2064041-2064121 2.37e-01 80 chrII:9706370-9706450 5.85e-02 80 chrV:11529744-11529824 2.27e-01 80 chrI:5485971-5486051 2.34e-01 80 chrIII:13106011-13106091 3.34e-03 71_[+5(7.79e-06)]_1 chrIII:5836937-5837017 6.06e-02 31_[+2(2.88e-05)]_41 chrIV:5731781-5731861 5.49e-05 2_[+3(5.42e-05)]_70 chrI:8027942-8028022 1.12e-02 28_[+2(4.54e-05)]_44 chrI:9089220-9089300 5.22e-02 63_[+5(4.75e-05)]_9 chrII:7147733-7147813 3.60e-02 41_[+3(6.49e-05)]_11_[+3(9.78e-05)]_\ 12 chrII:2454924-2455004 6.27e-02 52_[+1(1.09e-05)]_20 chrV:4135273-4135353 9.99e-01 80 chrIV:8170465-8170545 4.53e-01 80 chrI:12826677-12826757 2.75e-05 9_[+3(5.42e-05)]_19_[+1(1.09e-05)]_\ 36 chrIII:8137889-8137969 8.33e-01 80 chrII:13575684-13575764 1.03e-03 38_[+3(3.66e-05)]_20_[+1(1.09e-05)]_\ 6 chrI:3876888-3876968 4.33e-01 80 chrV:6359436-6359516 3.34e-02 71_[+4(5.05e-05)]_1 chrI:6756558-6756638 6.74e-01 80 chrM:187-267 9.04e-01 80 chrI:6175158-6175238 2.48e-02 80 chrV:12100890-12100970 1.19e-01 80 chrIII:7926168-7926248 1.32e-01 80 chrI:3096288-3096368 2.54e-03 17_[+2(2.88e-05)]_39_[+2(1.22e-05)]_\ [+2(1.22e-05)] chrIII:188561-188641 9.91e-01 80 chrIII:5405780-5405860 5.27e-04 21_[+2(2.88e-05)]_2_[+4(2.83e-05)]_\ 41 chrIII:7940945-7941025 7.11e-01 80 chrII:8602498-8602578 1.65e-02 19_[+5(1.53e-05)]_53 chrIII:7068829-7068909 2.76e-01 80 chrII:9128379-9128459 2.63e-02 80 chrI:8416288-8416368 8.31e-08 10_[+1(1.09e-05)]_41_[+2(7.70e-05)]_\ [+4(1.90e-05)]_5 chrII:2195726-2195806 1.09e-01 80 chrV:10134291-10134371 1.89e-03 45_[+5(2.08e-05)]_27 chrIII:908167-908247 3.07e-02 48_[+2(2.88e-05)]_24 chrI:14628132-14628212 6.13e-04 66_[+2(1.22e-05)]_6 chrII:7631291-7631371 3.74e-01 80 chrI:108232-108312 1.10e-01 80 chrII:5092514-5092594 2.93e-02 21_[+1(1.09e-05)]_3_[+1(3.75e-05)]_\ 40 chrI:11930621-11930701 3.82e-01 80 chrIV:9107650-9107730 1.41e-01 31_[+3(5.42e-05)]_41 chrI:4444448-4444528 6.49e-02 41_[+3(5.42e-05)]_31 chrII:14441314-14441394 3.50e-02 80 chrIII:13713071-13713151 4.65e-04 2_[+1(1.09e-05)]_41_[+5(4.75e-05)]_\ 21 chrI:11280762-11280842 3.60e-05 12_[+5(7.79e-06)]_60 chrI:7835612-7835692 2.42e-02 80 chrX:13995945-13996025 8.66e-04 32_[+3(5.42e-05)]_40 chrV:9212675-9212755 6.63e-02 56_[+3(3.10e-05)]_16 chrX:17181377-17181457 6.68e-03 21_[+1(1.09e-05)]_51 chrI:11416745-11416825 1.06e-01 80 chrV:8302655-8302735 1.67e-02 63_[+3(3.10e-05)]_9 chrII:6974163-6974243 1.16e-01 69_[+2(6.81e-05)]_3 chrI:3147893-3147973 8.03e-01 80 chrI:5518838-5518918 5.75e-03 10_[+5(6.88e-05)]_62 chrI:8449760-8449840 6.99e-02 46_[+1(7.94e-05)]_26 chrIII:1905772-1905852 1.17e-01 30_[+3(7.63e-05)]_42 chrIII:12688175-12688255 1.44e-01 51_[+3(7.63e-05)]_21 chrV:3759655-3759735 3.27e-01 80 chrIII:7277370-7277450 1.24e-02 65_[+3(7.46e-06)]_7 chrIV:14622028-14622108 5.30e-01 80 chrI:7480269-7480349 5.60e-01 80 chrIII:5567818-5567898 6.25e-01 80 chrV:8179072-8179152 1.36e-01 80 chrII:11778254-11778334 8.97e-03 80 chrII:10384818-10384898 1.69e-01 80 chrIII:13313928-13314008 1.01e-02 57_[+4(9.71e-06)]_15 chrI:14320500-14320580 2.38e-05 54_[+2(7.70e-05)]_[+2(1.22e-05)]_\ [+2(1.22e-05)]_2 chrIII:6968421-6968501 2.44e-01 80 chrX:11719048-11719128 6.72e-03 30_[+3(5.42e-05)]_42 chrI:9837229-9837309 3.78e-01 80 chrII:7050298-7050378 1.65e-03 22_[+5(2.08e-05)]_20_[+3(3.10e-05)]_\ 22 chrII:13888463-13888543 2.80e-01 80 chrI:14839836-14839916 4.05e-01 80 chrI:6626865-6626945 3.27e-03 44_[+1(2.61e-05)]_28 chrX:12750975-12751055 8.26e-02 33_[+1(4.89e-05)]_39 chrX:14557525-14557605 3.13e-01 80 chrI:2629408-2629488 2.67e-01 80 chrV:11082651-11082731 1.42e-03 15_[+2(2.88e-05)]_57 chrX:16157025-16157105 4.73e-03 53_[+1(6.35e-05)]_19 chrV:2281702-2281782 1.85e-01 80 chrI:6882104-6882184 4.66e-02 80 chrII:2204246-2204326 8.71e-03 80 chrI:11665018-11665098 1.15e-03 19_[+1(1.09e-05)]_53 chrX:15590712-15590792 3.00e-01 80 chrIII:4323243-4323323 1.41e-02 80 chrII:5886164-5886244 9.71e-01 80 chrII:8283387-8283467 4.92e-04 29_[+5(1.53e-05)]_43 chrIV:7774360-7774440 3.99e-04 12_[+3(3.10e-05)]_36_[+3(3.10e-05)]_\ 16 chrIII:8614558-8614638 4.36e-02 80 chrIV:13093834-13093914 7.43e-01 80 chrII:10798612-10798692 1.41e-01 80 chrIV:4215505-4215585 9.57e-05 30_[+4(9.71e-06)]_42 chrII:5931308-5931388 4.02e-04 18_[+2(7.70e-05)]_54 chrI:12968591-12968671 1.54e-01 80 chrI:10895126-10895206 6.19e-03 47_[+1(2.61e-05)]_25 chrX:8477528-8477608 1.81e-02 3_[+1(4.89e-05)]_69 chrII:6844709-6844789 1.09e-02 80 chrIV:5651031-5651111 9.60e-01 80 chrIII:4313583-4313663 8.80e-01 80 chrX:4871144-4871224 1.24e-01 80 chrI:9841135-9841215 7.77e-02 80 chrV:11344524-11344604 6.57e-01 80 chrIV:15037142-15037222 8.23e-04 35_[+5(1.53e-05)]_37 chrV:15880921-15881001 7.28e-01 80 chrIII:2805256-2805336 1.68e-01 39_[+3(6.49e-05)]_33 chrII:8216535-8216615 1.09e-02 80 chrV:10031572-10031652 9.65e-03 34_[+4(3.72e-05)]_38 chrI:1156157-1156237 4.19e-02 80 chrI:13161966-13162046 3.95e-03 9_[+3(7.46e-06)]_63 chrI:6061287-6061367 5.08e-01 80 chrI:9064689-9064769 6.19e-01 80 chrIII:12152305-12152385 6.35e-02 49_[+3(3.10e-05)]_23 chrX:14571470-14571550 5.15e-02 80 chrV:11993882-11993962 5.78e-01 80 chrII:10073772-10073852 2.72e-01 80 chrV:11982488-11982568 2.10e-03 7_[+5(2.08e-05)]_65 chrIII:8847873-8847953 8.04e-06 42_[+3(5.42e-05)]_14_[+4(9.71e-06)]_\ 8 chrIII:2815120-2815200 5.91e-01 80 chrV:152379-152459 5.43e-02 37_[+4(8.98e-05)]_35 chrX:12184502-12184582 1.66e-02 51_[+2(4.54e-05)]_21 chrI:7251575-7251655 9.93e-01 80 chrIII:2151604-2151684 3.25e-01 80 chrV:7820459-7820539 2.04e-01 80 chrX:325828-325908 6.07e-02 80 chrI:3684618-3684698 4.29e-02 80 chrIV:51446-51526 8.31e-05 15_[+5(4.75e-05)]_1_[+1(1.09e-05)]_\ 48 chrV:104621-104701 1.18e-03 61_[+3(7.46e-06)]_11 chrI:7258651-7258731 8.69e-01 80 chrII:7857645-7857725 7.59e-01 80 chrIV:1056558-1056638 6.14e-01 80 chrI:10173207-10173287 2.43e-02 80 chrV:7735073-7735153 2.61e-01 80 chrI:1877835-1877915 8.27e-03 13_[+2(4.54e-05)]_59 chrI:13289859-13289939 2.90e-01 80 chrIII:6951617-6951697 7.72e-04 17_[+5(2.08e-05)]_4_[+1(7.94e-05)]_\ 43 chrIV:11433892-11433972 6.51e-03 53_[+3(6.49e-05)]_19 chrIII:6929725-6929805 4.36e-02 27_[+1(2.61e-05)]_45 chrX:1965010-1965090 4.22e-03 47_[+4(9.71e-06)]_25 chrIII:349558-349638 4.07e-03 41_[+1(1.09e-05)]_31 chrII:11637389-11637469 1.42e-01 20_[+2(6.81e-05)]_52 chrV:13787697-13787777 2.70e-02 30_[+2(6.81e-05)]_22_[+2(2.88e-05)]_\ 12 chrIII:13310770-13310850 9.53e-02 80 chrI:8083409-8083489 1.49e-01 80 chrX:1961548-1961628 5.39e-03 11_[+4(7.03e-05)]_61 chrX:4210700-4210780 2.53e-01 58_[+2(6.81e-05)]_14 chrII:386116-386196 7.43e-02 80 chrI:14953257-14953337 5.22e-03 8_[+4(3.72e-05)]_7_[+2(6.81e-05)]_\ 49 chrV:4434802-4434882 6.07e-01 80 chrIII:9747337-9747417 1.11e-02 14_[+5(5.79e-05)]_58 chrIII:8093284-8093364 9.59e-01 80 chrII:14038533-14038613 3.47e-01 80 chrX:861812-861892 2.00e-01 80 chrII:10136770-10136850 8.89e-01 80 chrII:7111806-7111886 8.44e-03 42_[+3(5.42e-05)]_30 chrI:4299648-4299728 5.91e-03 38_[+4(9.71e-06)]_34 chrV:11148060-11148140 5.48e-01 80 chrX:11974862-11974942 1.33e-03 35_[+4(9.71e-06)]_15_[+2(1.22e-05)]_\ 14 chrIII:11565750-11565830 5.92e-01 80 chrIV:14605294-14605374 8.57e-01 80 chrIII:13423581-13423661 1.85e-02 30_[+5(6.88e-05)]_42 chrI:5375579-5375659 1.02e-03 69_[+2(1.22e-05)]_3 chrX:13669816-13669896 4.91e-01 80 chrIV:10346168-10346248 6.59e-02 63_[+4(5.05e-05)]_9 chrIII:4850307-4850387 6.99e-01 80 chrV:9347005-9347085 5.23e-01 80 chrI:3600893-3600973 1.91e-02 80 chrIII:86479-86559 2.69e-04 6_[+2(4.54e-05)]_49_[+3(3.66e-05)]_\ 9 chrV:11933360-11933440 8.80e-02 80 chrV:7179035-7179115 4.76e-01 80 chrV:1743629-1743709 1.49e-03 80 chrI:15035884-15035964 4.90e-01 80 chrI:289133-289213 1.31e-03 11_[+4(7.03e-05)]_61 chrIV:9525095-9525175 3.00e-02 34_[+3(7.63e-05)]_38 chrI:10567621-10567701 1.06e-03 42_[+5(1.53e-05)]_30 chrI:14955721-14955801 9.37e-01 80 chrIV:6910276-6910356 5.14e-01 80 chrX:573441-573521 2.29e-01 80 chrIV:14612567-14612647 7.47e-02 80 chrIII:5938130-5938210 6.92e-01 80 chrIV:10007904-10007984 7.93e-01 80 chrI:3781801-3781881 8.65e-01 80 chrX:16991505-16991585 2.78e-01 80 chrII:10658868-10658948 1.31e-05 35_[+4(9.71e-06)]_9_[+5(1.53e-05)]_\ 20 chrI:14651680-14651760 7.96e-01 80 chrIV:255604-255684 2.14e-03 28_[+5(2.08e-05)]_44 chrII:4698423-4698503 1.85e-01 80 chrIV:11142554-11142634 5.33e-01 80 chrX:6729689-6729769 8.80e-01 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n06.farnam.hpc.yale.internal ********************************************************************************