******************************************************************************** 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/ceh-19.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrII:9577763-9577843 1.0000 80 chrIII:3140417-3140497 1.0000 80 chrX:15545647-15545727 1.0000 80 chrI:2608681-2608761 1.0000 80 chrX:5734003-5734083 1.0000 80 chrII:7632871-7632951 1.0000 80 chrX:12179178-12179258 1.0000 80 chrV:11872130-11872210 1.0000 80 chrX:7710343-7710423 1.0000 80 chrI:14229274-14229354 1.0000 80 chrV:13576044-13576124 1.0000 80 chrV:10044910-10044990 1.0000 80 chrX:10226232-10226312 1.0000 80 chrX:16941258-16941338 1.0000 80 chrI:2679502-2679582 1.0000 80 chrV:9422908-9422988 1.0000 80 chrI:14232466-14232546 1.0000 80 chrV:5323048-5323128 1.0000 80 chrIV:3826773-3826853 1.0000 80 chrX:2043348-2043428 1.0000 80 chrI:11198599-11198679 1.0000 80 chrII:8899128-8899208 1.0000 80 chrII:7810950-7811030 1.0000 80 chrV:8439969-8440049 1.0000 80 chrI:10097141-10097221 1.0000 80 chrV:5848609-5848689 1.0000 80 chrII:5948111-5948191 1.0000 80 chrII:4130415-4130495 1.0000 80 chrII:6724109-6724189 1.0000 80 chrIII:3603577-3603657 1.0000 80 chrM:150-230 1.0000 80 chrX:6131502-6131582 1.0000 80 chrV:18716127-18716207 1.0000 80 chrV:14144547-14144627 1.0000 80 chrI:8307653-8307733 1.0000 80 chrIII:4626346-4626426 1.0000 80 chrX:16944108-16944188 1.0000 80 chrV:6468013-6468093 1.0000 80 chrM:5415-5495 1.0000 80 chrX:6134664-6134744 1.0000 80 chrI:12227872-12227952 1.0000 80 chrIV:6384995-6385075 1.0000 80 chrIII:10672056-10672136 1.0000 80 chrIV:5753006-5753086 1.0000 80 chrV:6893778-6893858 1.0000 80 chrI:4888390-4888470 1.0000 80 chrIV:186240-186320 1.0000 80 chrIII:3600756-3600836 1.0000 80 chrV:14229043-14229123 1.0000 80 chrV:18720174-18720254 1.0000 80 chrV:5284759-5284839 1.0000 80 chrX:1022012-1022092 1.0000 80 chrM:3932-4012 1.0000 80 chrI:14807766-14807846 1.0000 80 chrX:3469452-3469532 1.0000 80 chrII:5948801-5948881 1.0000 80 chrI:3646119-3646199 1.0000 80 chrIV:4674465-4674545 1.0000 80 chrII:10202430-10202510 1.0000 80 chrIV:1905365-1905445 1.0000 80 chrI:9196297-9196377 1.0000 80 chrIII:13258398-13258478 1.0000 80 chrIII:8886521-8886601 1.0000 80 chrI:4311751-4311831 1.0000 80 chrI:9426608-9426688 1.0000 80 chrX:5140300-5140380 1.0000 80 chrIV:13030038-13030118 1.0000 80 chrX:2825142-2825222 1.0000 80 chrV:10265217-10265297 1.0000 80 chrIII:768159-768239 1.0000 80 chrX:3227063-3227143 1.0000 80 chrIII:1225607-1225687 1.0000 80 chrM:7541-7621 1.0000 80 chrV:13869045-13869125 1.0000 80 chrII:8830042-8830122 1.0000 80 chrIV:3823064-3823144 1.0000 80 chrX:7651301-7651381 1.0000 80 chrX:4961150-4961230 1.0000 80 chrIII:12920116-12920196 1.0000 80 chrIII:95098-95178 1.0000 80 chrX:14229583-14229663 1.0000 80 chrV:14933953-14934033 1.0000 80 chrX:3678834-3678914 1.0000 80 chrX:12693413-12693493 1.0000 80 chrV:12898965-12899045 1.0000 80 chrIII:4947571-4947651 1.0000 80 chrX:7651542-7651622 1.0000 80 chrI:933477-933557 1.0000 80 chrV:4964387-4964467 1.0000 80 chrM:10790-10870 1.0000 80 chrIII:8287729-8287809 1.0000 80 chrIV:14371826-14371906 1.0000 80 chrIII:7317470-7317550 1.0000 80 chrX:12688677-12688757 1.0000 80 chrX:5056378-5056458 1.0000 80 chrV:16553067-16553147 1.0000 80 chrX:16944381-16944461 1.0000 80 chrX:16591680-16591760 1.0000 80 chrIV:12584354-12584434 1.0000 80 chrIV:6809893-6809973 1.0000 80 chrII:11751814-11751894 1.0000 80 chrII:6182873-6182953 1.0000 80 chrX:2885466-2885546 1.0000 80 chrIII:9638340-9638420 1.0000 80 chrII:6120538-6120618 1.0000 80 chrV:20757432-20757512 1.0000 80 chrX:2457843-2457923 1.0000 80 chrX:5818377-5818457 1.0000 80 chrX:5354653-5354733 1.0000 80 chrI:9249349-9249429 1.0000 80 chrI:7712498-7712578 1.0000 80 chrIII:7010496-7010576 1.0000 80 chrX:11473350-11473430 1.0000 80 chrI:4932980-4933060 1.0000 80 chrV:11852534-11852614 1.0000 80 chrIII:5708138-5708218 1.0000 80 chrM:10107-10187 1.0000 80 chrII:3428351-3428431 1.0000 80 chrIII:4524814-4524894 1.0000 80 chrV:19722985-19723065 1.0000 80 chrIII:13525535-13525615 1.0000 80 chrII:13056823-13056903 1.0000 80 chrI:14948092-14948172 1.0000 80 chrX:12180110-12180190 1.0000 80 chrX:854416-854496 1.0000 80 chrX:6971422-6971502 1.0000 80 chrI:2831612-2831692 1.0000 80 chrV:20755171-20755251 1.0000 80 chrII:950502-950582 1.0000 80 chrIII:3499984-3500064 1.0000 80 chrV:20789172-20789252 1.0000 80 chrIII:931565-931645 1.0000 80 chrV:311620-311700 1.0000 80 chrIII:11467927-11468007 1.0000 80 chrV:11135545-11135625 1.0000 80 chrX:8569375-8569455 1.0000 80 chrX:2849482-2849562 1.0000 80 chrM:2843-2923 1.0000 80 chrIII:6138641-6138721 1.0000 80 chrX:11387955-11388035 1.0000 80 chrX:9296733-9296813 1.0000 80 chrI:12225459-12225539 1.0000 80 chrII:6721718-6721798 1.0000 80 chrV:15065303-15065383 1.0000 80 chrX:9737830-9737910 1.0000 80 chrII:6934859-6934939 1.0000 80 chrIV:2990572-2990652 1.0000 80 chrII:11537319-11537399 1.0000 80 chrIII:668421-668501 1.0000 80 chrI:3567683-3567763 1.0000 80 chrI:11204551-11204631 1.0000 80 chrX:12629480-12629560 1.0000 80 chrV:18709384-18709464 1.0000 80 chrV:11445505-11445585 1.0000 80 chrIII:7580781-7580861 1.0000 80 chrX:4391384-4391464 1.0000 80 chrX:10769911-10769991 1.0000 80 chrV:19153399-19153479 1.0000 80 chrV:6482070-6482150 1.0000 80 chrX:6850633-6850713 1.0000 80 chrIII:4667044-4667124 1.0000 80 chrII:9313410-9313490 1.0000 80 chrV:13411353-13411433 1.0000 80 chrIV:12130949-12131029 1.0000 80 chrI:6724486-6724566 1.0000 80 chrIV:6646006-6646086 1.0000 80 chrI:6283571-6283651 1.0000 80 chrV:16699866-16699946 1.0000 80 chrIV:4672953-4673033 1.0000 80 chrX:5368367-5368447 1.0000 80 chrIII:7724698-7724778 1.0000 80 chrX:14636752-14636832 1.0000 80 chrX:8602901-8602981 1.0000 80 chrIV:14295340-14295420 1.0000 80 chrIV:2998851-2998931 1.0000 80 chrX:5480219-5480299 1.0000 80 chrX:12084808-12084888 1.0000 80 chrX:16602593-16602673 1.0000 80 chrV:9664677-9664757 1.0000 80 chrV:9732107-9732187 1.0000 80 chrX:8156117-8156197 1.0000 80 chrI:9475005-9475085 1.0000 80 chrII:2502663-2502743 1.0000 80 chrM:3695-3775 1.0000 80 chrIII:10855530-10855610 1.0000 80 chrX:8566118-8566198 1.0000 80 chrIV:6648854-6648934 1.0000 80 chrX:7254652-7254732 1.0000 80 chrII:761750-761830 1.0000 80 chrX:11571862-11571942 1.0000 80 chrIII:13717767-13717847 1.0000 80 chrIV:3858277-3858357 1.0000 80 chrX:8995641-8995721 1.0000 80 chrI:3842525-3842605 1.0000 80 chrX:2632138-2632218 1.0000 80 chrX:6151369-6151449 1.0000 80 chrI:5422281-5422361 1.0000 80 chrX:2524081-2524161 1.0000 80 chrV:11341421-11341501 1.0000 80 chrX:601545-601625 1.0000 80 chrV:13396570-13396650 1.0000 80 chrIII:7659621-7659701 1.0000 80 chrI:13158717-13158797 1.0000 80 chrV:14833357-14833437 1.0000 80 chrIII:13697949-13698029 1.0000 80 chrII:9577967-9578047 1.0000 80 chrI:11095795-11095875 1.0000 80 chrM:5632-5712 1.0000 80 chrX:16447191-16447271 1.0000 80 chrIII:9983977-9984057 1.0000 80 chrIV:1657192-1657272 1.0000 80 chrII:13030151-13030231 1.0000 80 chrII:11393911-11393991 1.0000 80 chrX:17315048-17315128 1.0000 80 chrII:8222842-8222922 1.0000 80 chrX:3969489-3969569 1.0000 80 chrX:7719252-7719332 1.0000 80 chrIV:3169208-3169288 1.0000 80 chrII:1134584-1134664 1.0000 80 chrIV:128720-128800 1.0000 80 chrX:15344107-15344187 1.0000 80 chrII:9010796-9010876 1.0000 80 chrM:1308-1388 1.0000 80 chrIV:14620722-14620802 1.0000 80 chrM:7284-7364 1.0000 80 chrX:7478596-7478676 1.0000 80 chrIV:10303485-10303565 1.0000 80 chrII:9015218-9015298 1.0000 80 chrM:8306-8386 1.0000 80 chrI:11790790-11790870 1.0000 80 chrX:2776487-2776567 1.0000 80 chrX:11257247-11257327 1.0000 80 chrX:4576495-4576575 1.0000 80 chrX:859458-859538 1.0000 80 chrM:6333-6413 1.0000 80 chrI:3336195-3336275 1.0000 80 chrI:10175396-10175476 1.0000 80 chrX:2901326-2901406 1.0000 80 chrX:9899843-9899923 1.0000 80 chrX:3994580-3994660 1.0000 80 chrX:13225537-13225617 1.0000 80 chrIV:1067586-1067666 1.0000 80 chrIV:10403285-10403365 1.0000 80 chrIV:12417237-12417317 1.0000 80 chrI:6745548-6745628 1.0000 80 chrX:15877075-15877155 1.0000 80 chrV:18723733-18723813 1.0000 80 chrI:4005656-4005736 1.0000 80 chrI:6757146-6757226 1.0000 80 chrI:2487839-2487919 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_ceh-19/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/ceh-19.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 0.263 C 0.236 G 0.243 T 0.258 Background letter frequencies (from file dataset with add-one prior applied): A 0.263 C 0.236 G 0.243 T 0.258 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF CYCYYYCY MEME-1 width = 8 sites = 63 llr = 463 E-value = 5.7e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif CYCYYYCY MEME-1 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C a47633a4 probability G :::::::: matrix T :63477:6 bits 2.1 * * 1.9 * * 1.7 * * 1.5 * * Relative 1.2 * * * Entropy 1.0 ******** (10.6 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CTCCTTCT consensus CTTCC C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CYCYYYCY MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:8995641-8995721 19 1.37e-05 CCATCGTCTA CTCcttct tcttcttctt chrIV:6646006-6646086 47 1.37e-05 TGGGGGCAAC CTCCTTCT CCCTCTCTCC chrII:6182873-6182953 45 1.37e-05 GCGTCATCGA CTCCTTCT CAGGTTTCCC chrV:14833357-14833437 64 2.63e-05 CCCAATGTCT CCCCTTCT AACCCTTCC chrX:5368367-5368447 8 2.63e-05 AGCCTTC CCCCTTCT CCTTCTTCAC chrV:16553067-16553147 19 2.63e-05 TTTCGTATCT CCCCTTCT CGCAGATCCC chrI:4311751-4311831 7 3.89e-05 CCTTCA CTCCTTCC GTTAACTTGT chrX:2632138-2632218 48 6.54e-05 CTCTCACACT CTCTTTCT ATTTTCGTTC chrIII:13717767-13717847 69 6.54e-05 CACCATTGCC CCCCTTCC CGCC chrX:6971422-6971502 58 6.54e-05 tctcctcttc ctctttct tTTGGTCCTT chrX:5818377-5818457 8 6.54e-05 GTTCCAC CCCCTTCC GCGTTCACTC chrI:14232466-14232546 50 6.54e-05 TTGATTTTAC CCCCTTCC CTTATTTTCC chrIV:2998851-2998931 7 1.18e-04 CCCCCA CTCTTTCC ATTTTCGATG chrI:11204551-11204631 70 1.18e-04 TGCCCCTCTG CTCCCTCT AGC chrIII:668421-668501 56 1.18e-04 ctctctctct ctccctct ctgtctcAGG chrV:14933953-14934033 30 1.18e-04 CGCCCGCACT CTCCCTCT CTGAGGCACA chrIII:13258398-13258478 70 1.18e-04 ACTCGTCGTC CTCCTCCT CAG chrI:3646119-3646199 19 1.18e-04 CTAACCTTGG CTCTTTCC AATTGCAAAG chrV:10044910-10044990 47 1.18e-04 ATAGGCTCGA CTCCTCCT CACTGAGCAA chrIV:1067586-1067666 29 1.54e-04 GTTCCGCGCG CCCCTCCT GGTGTCGACT chrI:10175396-10175476 19 1.54e-04 CCCGCCACGC CCCTTTCC TCCCCCGTTT chrX:6151369-6151449 4 1.54e-04 TGA CCCTTTCC CGGGGTCTGC chrIII:5708138-5708218 18 1.54e-04 ACACAAGTGG CCCCCTCT GCACACACAA chrIV:186240-186320 62 1.54e-04 CAAACTCTTT CCCCCTCT GCCAGGTGCT chrI:12227872-12227952 10 1.54e-04 CACATGATA CCCCCTCT GCGCATAATA chrX:9296733-9296813 28 1.77e-04 TTCGGTGAGA CTCCTCCC CCATGCAACC chrX:6134664-6134744 4 1.77e-04 GGG CTCCCTCC TGCTGCTAGT chrIV:12130949-12131029 15 2.25e-04 CTCTCGAGCT CTCTCTCT ATTTTCAAAA chrV:13411353-13411433 38 2.25e-04 GCTCCCAAGA CTCTCTCT TCCATCCTTC chrII:9313410-9313490 14 2.25e-04 CACACCGAAC CTCTCTCT ATTCTCTTGT chrV:20789172-20789252 11 2.25e-04 CCAGCAAGTG CCCCTCCC TGCGTGTCAA chrIII:7317470-7317550 59 2.25e-04 TGAATGATTC CTCTCTCT TTTCTCCTCC chrIV:4674465-4674545 9 2.25e-04 ACCCTATG CCCCCTCC CCTAAATGCA chrII:5948801-5948881 26 2.25e-04 GTCTTGCGCC CTCTTCCT CCAGTTTTAT chrX:3469452-3469532 52 2.25e-04 CATCCTTCTT CTCTTCCT CCCAAATTGG chrX:2043348-2043428 11 2.25e-04 TGGCGTTGAG CTCTCTCT TGAAAATGTG chrIII:7580781-7580861 12 2.50e-04 TGTGCTCAAA CCCTTCCT CGTCCCAAGC chrIV:4672953-4673033 17 2.87e-04 GATTAACTGT CTCTTCCC CTCAAAAGCT chrX:2885466-2885546 7 2.87e-04 cCATTC CTCTTCCC ATTCCCCGCT chrIV:6809893-6809973 6 2.87e-04 GAGAG CTCTTCCC GAAGAAGGGA chrV:19722985-19723065 22 3.35e-04 CTCCTAACCG CCCTTCCC TCCCCGCCGA chrIV:12584354-12584434 71 3.35e-04 tgttctactg cttcttct tt chrV:18716127-18716207 42 3.35e-04 TGCCGTGAAG CTTCTTCT GCATATATCC chrX:4576495-4576575 43 3.60e-04 TCGCTTTCCT CTCCCCCC ATCCCATCGC chrIV:14295340-14295420 56 3.60e-04 AGCACCTGCT CCTCTTCT CACAGGGTGT chrIV:128720-128800 56 3.96e-04 CTcccccccc cccccccc acctcaacct chrIII:6138641-6138721 33 3.96e-04 CCTGTCTCCG CTTCTTCC CGAGACTTCC chrX:12688677-12688757 36 3.96e-04 CAACAccccc cccccccc ccccGTTTTC chrIV:1905365-1905445 44 3.96e-04 TTccctcccc cccccccc cccTGCTTTT chrX:1022012-1022092 31 3.96e-04 GCATTAGccc cccccccc cccccaccAC chrX:7710343-7710423 73 3.96e-04 CACGTGTTCC CCCCCCCC chrIII:11467927-11468007 42 4.36e-04 TCTTTGCTTC CTTTTTCT TCCCCAATGC chrII:8222842-8222922 5 4.63e-04 TAAC CCTTTTCT ACCTCTCGTG chrX:8156117-8156197 6 4.63e-04 GCATG CCTTTTCT TTGCGTGCCA chrI:10097141-10097221 36 4.63e-04 GAAATCGGAA CCTTTTCT GGGGGCACAC chrV:11872130-11872210 55 4.63e-04 ACTACGTGGC CCTTTTCT CTCTTTTGAT chrX:11257247-11257327 56 5.16e-04 TTCTCCTTAG CTTTTTCC GCGAGCCATC chrX:2524081-2524161 22 5.16e-04 TTGGAGAGAA CTTTTTCC GAATTGGTTT chrI:14948092-14948172 4 5.55e-04 TTT CCTCTCCT ACGAGCCTAC chrIII:8287729-8287809 4 5.80e-04 ATG CTTCTCCC CGTTAACCAA chrI:933477-933557 33 6.33e-04 CACCAATTAT CTTTCTCT CTGtggcttc chrX:601545-601625 51 7.85e-04 GGCGGTCCGT CCTTCCCT CTACTTCGGT chrII:13030151-13030231 34 7.98e-04 TCGCCCGGGT CTTTCCCC CCGTCCCAAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CYCYYYCY MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:8995641-8995721 1.4e-05 18_[+1]_54 chrIV:6646006-6646086 1.4e-05 46_[+1]_26 chrII:6182873-6182953 1.4e-05 44_[+1]_28 chrV:14833357-14833437 2.6e-05 63_[+1]_9 chrX:5368367-5368447 2.6e-05 7_[+1]_65 chrV:16553067-16553147 2.6e-05 18_[+1]_54 chrI:4311751-4311831 3.9e-05 6_[+1]_66 chrX:2632138-2632218 6.5e-05 47_[+1]_25 chrIII:13717767-13717847 6.5e-05 68_[+1]_4 chrX:6971422-6971502 6.5e-05 57_[+1]_15 chrX:5818377-5818457 6.5e-05 7_[+1]_65 chrI:14232466-14232546 6.5e-05 49_[+1]_23 chrIV:2998851-2998931 0.00012 6_[+1]_66 chrI:11204551-11204631 0.00012 69_[+1]_3 chrIII:668421-668501 0.00012 55_[+1]_17 chrV:14933953-14934033 0.00012 29_[+1]_43 chrIII:13258398-13258478 0.00012 69_[+1]_3 chrI:3646119-3646199 0.00012 18_[+1]_54 chrV:10044910-10044990 0.00012 46_[+1]_26 chrIV:1067586-1067666 0.00015 28_[+1]_44 chrI:10175396-10175476 0.00015 18_[+1]_54 chrX:6151369-6151449 0.00015 3_[+1]_69 chrIII:5708138-5708218 0.00015 17_[+1]_55 chrIV:186240-186320 0.00015 61_[+1]_11 chrI:12227872-12227952 0.00015 9_[+1]_63 chrX:9296733-9296813 0.00018 27_[+1]_45 chrX:6134664-6134744 0.00018 3_[+1]_69 chrIV:12130949-12131029 0.00023 14_[+1]_58 chrV:13411353-13411433 0.00023 37_[+1]_35 chrII:9313410-9313490 0.00023 13_[+1]_59 chrV:20789172-20789252 0.00023 10_[+1]_62 chrIII:7317470-7317550 0.00023 58_[+1]_14 chrIV:4674465-4674545 0.00023 8_[+1]_64 chrII:5948801-5948881 0.00023 25_[+1]_47 chrX:3469452-3469532 0.00023 51_[+1]_21 chrX:2043348-2043428 0.00023 10_[+1]_62 chrIII:7580781-7580861 0.00025 11_[+1]_61 chrIV:4672953-4673033 0.00029 16_[+1]_56 chrX:2885466-2885546 0.00029 6_[+1]_66 chrIV:6809893-6809973 0.00029 5_[+1]_67 chrV:19722985-19723065 0.00034 21_[+1]_51 chrIV:12584354-12584434 0.00034 70_[+1]_2 chrV:18716127-18716207 0.00034 41_[+1]_31 chrX:4576495-4576575 0.00036 42_[+1]_30 chrIV:14295340-14295420 0.00036 55_[+1]_17 chrIV:128720-128800 0.0004 55_[+1]_17 chrIII:6138641-6138721 0.0004 32_[+1]_40 chrX:12688677-12688757 0.0004 35_[+1]_37 chrIV:1905365-1905445 0.0004 43_[+1]_29 chrX:1022012-1022092 0.0004 30_[+1]_42 chrX:7710343-7710423 0.0004 72_[+1] chrIII:11467927-11468007 0.00044 41_[+1]_31 chrII:8222842-8222922 0.00046 4_[+1]_68 chrX:8156117-8156197 0.00046 5_[+1]_67 chrI:10097141-10097221 0.00046 35_[+1]_37 chrV:11872130-11872210 0.00046 54_[+1]_18 chrX:11257247-11257327 0.00052 55_[+1]_17 chrX:2524081-2524161 0.00052 21_[+1]_51 chrI:14948092-14948172 0.00055 3_[+1]_69 chrIII:8287729-8287809 0.00058 3_[+1]_69 chrI:933477-933557 0.00063 32_[+1]_40 chrX:601545-601625 0.00079 50_[+1]_22 chrII:13030151-13030231 0.0008 33_[+1]_39 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CYCYYYCY MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CYCYYYCY width=8 seqs=63 chrX:8995641-8995721 ( 19) CTCCTTCT 1 chrIV:6646006-6646086 ( 47) CTCCTTCT 1 chrII:6182873-6182953 ( 45) CTCCTTCT 1 chrV:14833357-14833437 ( 64) CCCCTTCT 1 chrX:5368367-5368447 ( 8) CCCCTTCT 1 chrV:16553067-16553147 ( 19) CCCCTTCT 1 chrI:4311751-4311831 ( 7) CTCCTTCC 1 chrX:2632138-2632218 ( 48) CTCTTTCT 1 chrIII:13717767-13717847 ( 69) CCCCTTCC 1 chrX:6971422-6971502 ( 58) CTCTTTCT 1 chrX:5818377-5818457 ( 8) CCCCTTCC 1 chrI:14232466-14232546 ( 50) CCCCTTCC 1 chrIV:2998851-2998931 ( 7) CTCTTTCC 1 chrI:11204551-11204631 ( 70) CTCCCTCT 1 chrIII:668421-668501 ( 56) CTCCCTCT 1 chrV:14933953-14934033 ( 30) CTCCCTCT 1 chrIII:13258398-13258478 ( 70) CTCCTCCT 1 chrI:3646119-3646199 ( 19) CTCTTTCC 1 chrV:10044910-10044990 ( 47) CTCCTCCT 1 chrIV:1067586-1067666 ( 29) CCCCTCCT 1 chrI:10175396-10175476 ( 19) CCCTTTCC 1 chrX:6151369-6151449 ( 4) CCCTTTCC 1 chrIII:5708138-5708218 ( 18) CCCCCTCT 1 chrIV:186240-186320 ( 62) CCCCCTCT 1 chrI:12227872-12227952 ( 10) CCCCCTCT 1 chrX:9296733-9296813 ( 28) CTCCTCCC 1 chrX:6134664-6134744 ( 4) CTCCCTCC 1 chrIV:12130949-12131029 ( 15) CTCTCTCT 1 chrV:13411353-13411433 ( 38) CTCTCTCT 1 chrII:9313410-9313490 ( 14) CTCTCTCT 1 chrV:20789172-20789252 ( 11) CCCCTCCC 1 chrIII:7317470-7317550 ( 59) CTCTCTCT 1 chrIV:4674465-4674545 ( 9) CCCCCTCC 1 chrII:5948801-5948881 ( 26) CTCTTCCT 1 chrX:3469452-3469532 ( 52) CTCTTCCT 1 chrX:2043348-2043428 ( 11) CTCTCTCT 1 chrIII:7580781-7580861 ( 12) CCCTTCCT 1 chrIV:4672953-4673033 ( 17) CTCTTCCC 1 chrX:2885466-2885546 ( 7) CTCTTCCC 1 chrIV:6809893-6809973 ( 6) CTCTTCCC 1 chrV:19722985-19723065 ( 22) CCCTTCCC 1 chrIV:12584354-12584434 ( 71) CTTCTTCT 1 chrV:18716127-18716207 ( 42) CTTCTTCT 1 chrX:4576495-4576575 ( 43) CTCCCCCC 1 chrIV:14295340-14295420 ( 56) CCTCTTCT 1 chrIV:128720-128800 ( 56) CCCCCCCC 1 chrIII:6138641-6138721 ( 33) CTTCTTCC 1 chrX:12688677-12688757 ( 36) CCCCCCCC 1 chrIV:1905365-1905445 ( 44) CCCCCCCC 1 chrX:1022012-1022092 ( 31) CCCCCCCC 1 chrX:7710343-7710423 ( 73) CCCCCCCC 1 chrIII:11467927-11468007 ( 42) CTTTTTCT 1 chrII:8222842-8222922 ( 5) CCTTTTCT 1 chrX:8156117-8156197 ( 6) CCTTTTCT 1 chrI:10097141-10097221 ( 36) CCTTTTCT 1 chrV:11872130-11872210 ( 55) CCTTTTCT 1 chrX:11257247-11257327 ( 56) CTTTTTCC 1 chrX:2524081-2524161 ( 22) CTTTTTCC 1 chrI:14948092-14948172 ( 4) CCTCTCCT 1 chrIII:8287729-8287809 ( 4) CTTCTCCC 1 chrI:933477-933557 ( 33) CTTTCTCT 1 chrX:601545-601625 ( 51) CCTTCCCT 1 chrII:13030151-13030231 ( 34) CTTTCCCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CYCYYYCY MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.1725 E= 5.7e-004 -1262 208 -1262 -1262 -1262 91 -1262 111 -1262 166 -1262 -2 -1262 123 -1262 79 -1262 56 -1262 134 -1262 56 -1262 134 -1262 208 -1262 -1262 -1262 86 -1262 115 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CYCYYYCY MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 63 E= 5.7e-004 0.000000 1.000000 0.000000 0.000000 0.000000 0.444444 0.000000 0.555556 0.000000 0.746032 0.000000 0.253968 0.000000 0.555556 0.000000 0.444444 0.000000 0.349206 0.000000 0.650794 0.000000 0.349206 0.000000 0.650794 0.000000 1.000000 0.000000 0.000000 0.000000 0.428571 0.000000 0.571429 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CYCYYYCY MEME-1 regular expression -------------------------------------------------------------------------------- C[TC][CT][CT][TC][TC]C[TC] -------------------------------------------------------------------------------- Time 9.92 secs. ******************************************************************************** ******************************************************************************** MOTIF CACACACA MEME-2 width = 8 sites = 32 llr = 273 E-value = 1.3e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif CACACACA MEME-2 Description -------------------------------------------------------------------------------- Simplified A :9:a29:a pos.-specific C 9:8:8:9: probability G :1::1:1: matrix T ::3::1:: bits 2.1 1.9 1.7 ** * *** 1.5 ** * *** Relative 1.2 **** *** Entropy 1.0 ******** (12.3 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CACACACA consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACACACA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:15877075-15877155 59 1.48e-05 GCGTAGcaca cacacaca cacatttcac chrX:8569375-8569455 38 1.48e-05 cacacacaca cacacaca ctcacacata chrIII:5708138-5708218 27 1.48e-05 GCCCCCTCTG CACACACA AGATGATGGA chrII:8830042-8830122 6 1.48e-05 TATAC CACACACA CCGGGTCAAA chrV:13869045-13869125 19 1.48e-05 cacacacaca cacacaca cacacacaca chrX:2825142-2825222 19 1.48e-05 TGTGCGTACG CACACACA CACTCACTTT chrI:12227872-12227952 60 1.48e-05 TGGTGGGGCA CACACACA CACAAAAAGA chrIII:4626346-4626426 44 1.48e-05 cacacacaca cacacaca caTTATTTTC chrV:5323048-5323128 18 1.48e-05 CACCTATGGT CACACACA ATTTCCTCTC chrV:10044910-10044990 28 1.48e-05 TGGCGCGACA CACACACA CATAGGCTCG chrII:8222842-8222922 37 3.11e-05 CGCACGCTCA CATACACA CGCGGAGGAT chrV:13396570-13396650 3 3.11e-05 CG CATACACA GAAGCGAAGA chrI:5422281-5422361 31 3.11e-05 TTCTAACCAA CATACACA ATCTATAATA chrX:6151369-6151449 51 3.11e-05 CAGAGACACA CATACACA CCTTGGGACC chrV:20789172-20789252 49 3.11e-05 ATGGGAGACA CATACACA TAAAGAGAAG chrIII:13525535-13525615 19 3.11e-05 GGCTCTCCGA CATACACA ATAAGCTTTT chrX:12180110-12180190 13 4.76e-05 TTCCGAAACC CACAAACA AAGATTGTTT chrV:10265217-10265297 58 4.76e-05 CTTCACAGAC CACAAACA GAGTCTGATT chrI:14229274-14229354 24 4.76e-05 CGGGGTGCTT CACAAACA ATGCCATCTG chrV:14933953-14934033 44 6.29e-05 CTCTCTGAGG CACACAGA GACATTCTCC chrII:4130415-4130495 57 7.82e-05 gtTGTCCCAT CACAGACA AATCAGAGAG chrX:9296733-9296813 72 9.19e-05 GCCACTATGC CGCACACA A chrX:2885466-2885546 48 9.19e-05 ACCACACATA CGCACACA CTGGCCGAAT chrIV:6646006-6646086 22 1.06e-04 ATATCGTATT CACACTCA GTCACTATGG chrI:4932980-4933060 52 1.52e-04 CTCGCCATTG CACACACG GCTACAATAG chrII:9577763-9577843 56 1.52e-04 TAGACTTGCT CACGCACA GGAAATTTGA chrI:14948092-14948172 19 1.85e-04 CCTACGAGCC TACACACA AGGAGAGGAA chrX:5354653-5354733 26 1.85e-04 gcccctcgcc AACACACA ACGCCGCATC chrI:4888390-4888470 56 2.18e-04 GACAAGTTGA CATAGACA CACTTGCCAA chrIV:5753006-5753086 37 2.49e-04 CTCACGCTTT CATACTCA AGGATGTGAC chrIII:7724698-7724778 16 2.66e-04 ATTTGAGAAA CACAAAGA TCCGTGGATG chrIII:3603577-3603657 56 2.66e-04 GGCGCGGCGG CACAAAGA GCAATGGAGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACACACA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:15877075-15877155 1.5e-05 58_[+2]_14 chrX:8569375-8569455 1.5e-05 37_[+2]_35 chrIII:5708138-5708218 1.5e-05 26_[+2]_46 chrII:8830042-8830122 1.5e-05 5_[+2]_67 chrV:13869045-13869125 1.5e-05 18_[+2]_54 chrX:2825142-2825222 1.5e-05 18_[+2]_54 chrI:12227872-12227952 1.5e-05 59_[+2]_13 chrIII:4626346-4626426 1.5e-05 43_[+2]_29 chrV:5323048-5323128 1.5e-05 17_[+2]_55 chrV:10044910-10044990 1.5e-05 27_[+2]_45 chrII:8222842-8222922 3.1e-05 36_[+2]_36 chrV:13396570-13396650 3.1e-05 2_[+2]_70 chrI:5422281-5422361 3.1e-05 30_[+2]_42 chrX:6151369-6151449 3.1e-05 50_[+2]_22 chrV:20789172-20789252 3.1e-05 48_[+2]_24 chrIII:13525535-13525615 3.1e-05 18_[+2]_54 chrX:12180110-12180190 4.8e-05 12_[+2]_60 chrV:10265217-10265297 4.8e-05 57_[+2]_15 chrI:14229274-14229354 4.8e-05 23_[+2]_49 chrV:14933953-14934033 6.3e-05 43_[+2]_29 chrII:4130415-4130495 7.8e-05 56_[+2]_16 chrX:9296733-9296813 9.2e-05 71_[+2]_1 chrX:2885466-2885546 9.2e-05 47_[+2]_25 chrIV:6646006-6646086 0.00011 21_[+2]_51 chrI:4932980-4933060 0.00015 51_[+2]_21 chrII:9577763-9577843 0.00015 55_[+2]_17 chrI:14948092-14948172 0.00018 18_[+2]_54 chrX:5354653-5354733 0.00018 25_[+2]_47 chrI:4888390-4888470 0.00022 55_[+2]_17 chrIV:5753006-5753086 0.00025 36_[+2]_36 chrIII:7724698-7724778 0.00027 15_[+2]_57 chrIII:3603577-3603657 0.00027 55_[+2]_17 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACACACA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CACACACA width=8 seqs=32 chrX:15877075-15877155 ( 59) CACACACA 1 chrX:8569375-8569455 ( 38) CACACACA 1 chrIII:5708138-5708218 ( 27) CACACACA 1 chrII:8830042-8830122 ( 6) CACACACA 1 chrV:13869045-13869125 ( 19) CACACACA 1 chrX:2825142-2825222 ( 19) CACACACA 1 chrI:12227872-12227952 ( 60) CACACACA 1 chrIII:4626346-4626426 ( 44) CACACACA 1 chrV:5323048-5323128 ( 18) CACACACA 1 chrV:10044910-10044990 ( 28) CACACACA 1 chrII:8222842-8222922 ( 37) CATACACA 1 chrV:13396570-13396650 ( 3) CATACACA 1 chrI:5422281-5422361 ( 31) CATACACA 1 chrX:6151369-6151449 ( 51) CATACACA 1 chrV:20789172-20789252 ( 49) CATACACA 1 chrIII:13525535-13525615 ( 19) CATACACA 1 chrX:12180110-12180190 ( 13) CACAAACA 1 chrV:10265217-10265297 ( 58) CACAAACA 1 chrI:14229274-14229354 ( 24) CACAAACA 1 chrV:14933953-14934033 ( 44) CACACAGA 1 chrII:4130415-4130495 ( 57) CACAGACA 1 chrX:9296733-9296813 ( 72) CGCACACA 1 chrX:2885466-2885546 ( 48) CGCACACA 1 chrIV:6646006-6646086 ( 22) CACACTCA 1 chrI:4932980-4933060 ( 52) CACACACG 1 chrII:9577763-9577843 ( 56) CACGCACA 1 chrI:14948092-14948172 ( 19) TACACACA 1 chrX:5354653-5354733 ( 26) AACACACA 1 chrI:4888390-4888470 ( 56) CATAGACA 1 chrIV:5753006-5753086 ( 37) CATACTCA 1 chrIII:7724698-7724778 ( 16) CACAAAGA 1 chrIII:3603577-3603657 ( 56) CACAAAGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACACACA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.4765 E= 1.3e-002 -307 199 -1164 -304 183 -1164 -196 -1164 -1164 167 -1164 -4 188 -1164 -295 -1164 -75 172 -196 -1164 183 -1164 -1164 -204 -1164 194 -137 -1164 188 -1164 -295 -1164 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACACACA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 32 E= 1.3e-002 0.031250 0.937500 0.000000 0.031250 0.937500 0.000000 0.062500 0.000000 0.000000 0.750000 0.000000 0.250000 0.968750 0.000000 0.031250 0.000000 0.156250 0.781250 0.062500 0.000000 0.937500 0.000000 0.000000 0.062500 0.000000 0.906250 0.093750 0.000000 0.968750 0.000000 0.031250 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACACACA MEME-2 regular expression -------------------------------------------------------------------------------- CA[CT]ACACA -------------------------------------------------------------------------------- Time 13.87 secs. ******************************************************************************** ******************************************************************************** MOTIF GTGTGTGT MEME-3 width = 8 sites = 26 llr = 227 E-value = 3.1e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif GTGTGTGT MEME-3 Description -------------------------------------------------------------------------------- Simplified A ::::2::1 pos.-specific C 1::::1:1 probability G 8:a:8:a1 matrix T 1a:a:9:7 bits 2.1 * * 1.9 *** * 1.7 *** ** 1.5 ****** Relative 1.2 ****** Entropy 1.0 ******* (12.6 bits) 0.8 ******* 0.6 ******* 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GTGTGTGT consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGTGT MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrI:6757146-6757226 58 1.54e-05 CAGAGCGAGA GTGTGTGT GCCAATCGAA chrI:4005656-4005736 29 1.54e-05 GGGGTGAAGC GTGTGTGT GGAGCAAGCC chrX:7478596-7478676 64 1.54e-05 TGTCTCACTT GTGTGTGT GTGTGCCGT chrIV:4672953-4673033 43 1.54e-05 CTATACGTGT GTGTGTGT GTGCTGCTTT chrIII:4667044-4667124 41 1.54e-05 AAGAGAAGTG GTGTGTGT TGGGGTGTCT chrI:3567683-3567763 9 1.54e-05 gtgtgtgt gtgtgtgt gtgtgtTTCA chrI:2831612-2831692 22 1.54e-05 AGAAGGCCCT GTGTGTGT GCGCAGGTGG chrX:14229583-14229663 6 1.54e-05 tgtgt gtgtgtgt gtgtgtgtgt chrX:3227063-3227143 51 1.54e-05 gtgtatgtgt gtgtgtgt tttgtgtgtT chrI:9426608-9426688 25 1.54e-05 CACCGCCCGT GTGTGTGT GTGTAACTGA chrII:4130415-4130495 21 1.54e-05 gtgtgtgtgt gtgtgtgt gtgtgtgtgt chrIV:6809893-6809973 53 4.41e-05 GTGGCTGTGC GTGTGTGC ACCAGTTTGT chrI:10097141-10097221 62 4.41e-05 ACGAATTGCT GTGTGTGG TAAACAAAAA chrI:2608681-2608761 73 4.41e-05 TTTTTGCAAA GTGTGTGG chrX:4576495-4576575 9 7.66e-05 TGTGGTCG GTGTGTGA CGAGCGGCGG chrX:4961150-4961230 51 7.66e-05 TATGTTTTTA GTGTATGT AGAGTATTGT chrX:7710343-7710423 1 7.66e-05 . gtgtgtgA GAAAGAAAGT chrIV:6648854-6648934 5 9.30e-05 TAGG TTGTGTGT ATATATTGTG chrII:5948801-5948881 58 9.30e-05 TTGGCGGCAG TTGTGTGT CTCGTTCTCT chrX:8156117-8156197 38 1.08e-04 GTTGTATAGG CTGTGTGT TCTCCTATTA chrX:2825142-2825222 8 1.22e-04 ATAGATT GTGTGCGT ACGCACACAC chrIII:3600756-3600836 38 1.53e-04 GGGTCCCCGC GTGTATGG CAAAACAGGT chrM:1308-1388 8 1.70e-04 TTGACTC GTGTATGA TCGTTTATTT chrV:20755171-20755251 8 2.35e-04 ATCCCAC TTGTATGT AATTCTATAC chrI:6283571-6283651 73 2.63e-04 GCTGCTGCCA CTGTGTGC chrII:8222842-8222922 20 3.21e-04 TCTACCTCTC GTGTGCGC GCACGCTCAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGTGT MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:6757146-6757226 1.5e-05 57_[+3]_15 chrI:4005656-4005736 1.5e-05 28_[+3]_44 chrX:7478596-7478676 1.5e-05 63_[+3]_9 chrIV:4672953-4673033 1.5e-05 42_[+3]_30 chrIII:4667044-4667124 1.5e-05 40_[+3]_32 chrI:3567683-3567763 1.5e-05 8_[+3]_64 chrI:2831612-2831692 1.5e-05 21_[+3]_51 chrX:14229583-14229663 1.5e-05 5_[+3]_67 chrX:3227063-3227143 1.5e-05 50_[+3]_22 chrI:9426608-9426688 1.5e-05 24_[+3]_48 chrII:4130415-4130495 1.5e-05 20_[+3]_52 chrIV:6809893-6809973 4.4e-05 52_[+3]_20 chrI:10097141-10097221 4.4e-05 61_[+3]_11 chrI:2608681-2608761 4.4e-05 72_[+3] chrX:4576495-4576575 7.7e-05 8_[+3]_64 chrX:4961150-4961230 7.7e-05 50_[+3]_22 chrX:7710343-7710423 7.7e-05 [+3]_72 chrIV:6648854-6648934 9.3e-05 4_[+3]_68 chrII:5948801-5948881 9.3e-05 57_[+3]_15 chrX:8156117-8156197 0.00011 37_[+3]_35 chrX:2825142-2825222 0.00012 7_[+3]_65 chrIII:3600756-3600836 0.00015 37_[+3]_35 chrM:1308-1388 0.00017 7_[+3]_65 chrV:20755171-20755251 0.00024 7_[+3]_65 chrI:6283571-6283651 0.00026 72_[+3] chrII:8222842-8222922 0.00032 19_[+3]_53 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGTGT MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GTGTGTGT width=8 seqs=26 chrI:6757146-6757226 ( 58) GTGTGTGT 1 chrI:4005656-4005736 ( 29) GTGTGTGT 1 chrX:7478596-7478676 ( 64) GTGTGTGT 1 chrIV:4672953-4673033 ( 43) GTGTGTGT 1 chrIII:4667044-4667124 ( 41) GTGTGTGT 1 chrI:3567683-3567763 ( 9) GTGTGTGT 1 chrI:2831612-2831692 ( 22) GTGTGTGT 1 chrX:14229583-14229663 ( 6) GTGTGTGT 1 chrX:3227063-3227143 ( 51) GTGTGTGT 1 chrI:9426608-9426688 ( 25) GTGTGTGT 1 chrII:4130415-4130495 ( 21) GTGTGTGT 1 chrIV:6809893-6809973 ( 53) GTGTGTGC 1 chrI:10097141-10097221 ( 62) GTGTGTGG 1 chrI:2608681-2608761 ( 73) GTGTGTGG 1 chrX:4576495-4576575 ( 9) GTGTGTGA 1 chrX:4961150-4961230 ( 51) GTGTATGT 1 chrX:7710343-7710423 ( 1) GTGTGTGA 1 chrIV:6648854-6648934 ( 5) TTGTGTGT 1 chrII:5948801-5948881 ( 58) TTGTGTGT 1 chrX:8156117-8156197 ( 38) CTGTGTGT 1 chrX:2825142-2825222 ( 8) GTGTGCGT 1 chrIII:3600756-3600836 ( 38) GTGTATGG 1 chrM:1308-1388 ( 8) GTGTATGA 1 chrV:20755171-20755251 ( 8) TTGTATGT 1 chrI:6283571-6283651 ( 73) CTGTGTGC 1 chrII:8222842-8222922 ( 20) GTGTGCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGTGT MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.6186 E= 3.1e+000 -1134 -162 173 -116 -1134 -1134 -1134 196 -1134 -1134 204 -1134 -1134 -1134 -1134 196 -77 -1134 180 -1134 -1134 -162 -1134 184 -1134 -1134 204 -1134 -119 -103 -107 134 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGTGT MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 26 E= 3.1e+000 0.000000 0.076923 0.807692 0.115385 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.153846 0.000000 0.846154 0.000000 0.000000 0.076923 0.000000 0.923077 0.000000 0.000000 1.000000 0.000000 0.115385 0.115385 0.115385 0.653846 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGTGT MEME-3 regular expression -------------------------------------------------------------------------------- GTGTGTGT -------------------------------------------------------------------------------- Time 17.42 secs. ******************************************************************************** ******************************************************************************** MOTIF RRAGARRG MEME-4 width = 8 sites = 82 llr = 566 E-value = 1.6e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif RRAGARRG MEME-4 Description -------------------------------------------------------------------------------- Simplified A 45a18453 pos.-specific C :::::::: probability G 65:92657 matrix T :::::::: bits 2.1 1.9 * 1.7 * 1.5 ** Relative 1.2 *** * Entropy 1.0 ******** (10.0 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GGAGAGGG consensus AA AAA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RRAGARRG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrI:6283571-6283651 8 1.42e-05 AGAGACG GGAGAGGG ACACATTTGC chrX:4961150-4961230 70 1.42e-05 GAGTATTGTT GGAGAGGG GCC chrX:7651301-7651381 68 1.42e-05 CGTCCGGAGA GGAGAGGG CGGCA chrI:4005656-4005736 6 4.51e-05 GAGCA GAAGAGGG TGGTTGGGGT chrX:14636752-14636832 26 4.51e-05 ATGGCTGAAG GAAGAGGG GGGGGTCGAA chrX:5368367-5368447 58 4.51e-05 TGATGAGAGC GAAGAGGG GCCAGACCGG chrI:14948092-14948172 34 4.51e-05 ACAAGGAGAG GAAGAGGG GGCCCCAATA chrI:2679502-2679582 46 4.51e-05 TACGATAGAT GGAGAGAG AATCAGAGAT chrV:13576044-13576124 38 4.51e-05 CTACTATGAA GGAGAGAG AGTGACATAC chrIII:3140417-3140497 25 4.51e-05 TGTGTAAGGT GGAGAGAG CCGAGAGAGA chrIV:6648854-6648934 66 6.18e-05 AAGAATTGGA GAAGAGAG AGAGAGA chrX:16591680-16591760 51 6.18e-05 cgGAAAACAA GAAGAGAG GTGTCCCATT chrX:7651542-7651622 20 6.18e-05 GTAGGGCGCG GAAGAGAG ATGCAGACGT chrX:5734003-5734083 10 6.18e-05 TTTTGGGTG GAagagag agagagagag chrII:2502663-2502743 61 7.72e-05 CAGAATAAAT GGAGAAGG GAGAGAACGA chrI:9475005-9475085 15 7.72e-05 GGCCACGGGG GGagaagg cgaagaagaa chrII:9010796-9010876 57 1.11e-04 aaaagatgaa gaagaagg cgatgatgat chrV:13396570-13396650 16 1.11e-04 ACACAGAAGC GAAGAAGG GGACACATCT chrX:12629480-12629560 29 1.11e-04 ACTGAAATGG GAAGAAGG GACACGAGTC chrIV:6809893-6809973 14 1.11e-04 AGCTCTTCCC GAAGAAGG GAAAGCTAGT chrX:3678834-3678914 20 1.11e-04 TGAGAAGAGT GAAGAAgg ggtggggggg chrII:8830042-8830122 51 1.11e-04 GGATTGGACT GAAGAAGG GAGCACTCCT chrX:5140300-5140380 50 1.11e-04 GCTGCGAGAG GGAGAAAG AGTGGGCACA chrX:6134664-6134744 31 1.11e-04 TGTTTGAGGG GAAGAAGG CGGGTTGAGG chrII:6934859-6934939 30 1.44e-04 AACCACAACG AGAGAGGG AAATTCGACA chrIV:3823064-3823144 13 1.44e-04 ACAGTGGAAC GAAGAAAG TTTTGGAAAA chrIII:8886521-8886601 35 1.44e-04 CGAAGCAGTA GAAGAAAG CCGAGAAATG chrII:9015218-9015298 11 1.77e-04 GTGTACCCAG AGAGAGAG GTTTTCAAAA chrII:13030151-13030231 13 1.77e-04 GAGAGCGTAG AGAGAGAG CGCTCGCCCG chrIV:2990572-2990652 25 1.77e-04 agtgagagag agagagag ggagatagTG chrIII:931565-931645 36 1.77e-04 gtgggaagcc agagagag taaaatatgg chrX:854416-854496 21 1.77e-04 AGAGACGGTG AGAGAGAG GGGACTTGTT chrI:9249349-9249429 47 1.77e-04 AGCGAACGGA AAAGAGGG CGGGGTTGAG chrIII:10672056-10672136 68 1.77e-04 agagagagag agagagag agagT chrII:6724109-6724189 12 1.77e-04 AGTGCAAATG AGAGAGAG AAAATGAAAA chrI:2831612-2831692 68 1.95e-04 GAAGAGGTTA AAAGAGAG CATGG chrV:14229043-14229123 9 1.95e-04 TTTGAGTG AAAGAGAG ATCAAGTTTC chrI:10175396-10175476 61 2.11e-04 CTGACTGACG GGAGAGGA AGGATGGACG chrX:16447191-16447271 39 2.11e-04 GGGTTCATCG GGAGAGGA TAATATTACA chrV:9664677-9664757 42 2.11e-04 AAGAAAATGA GGAGAGGA GGAGGAAGGC chrX:2524081-2524161 14 2.61e-04 ACTTGTAATT GGAGAGAA CTTTTTCCGA chrII:11751814-11751894 29 2.61e-04 TCGAGTGGCC AGAGAAGG GAGATGGGGa chrIV:6384995-6385075 65 2.61e-04 GGAAAGAAAA GGAGAGAA AAGAACTG chrI:8307653-8307733 68 2.61e-04 CACAGCAGCC GAAGAGGA GTAAA chrIV:3169208-3169288 70 3.48e-04 CTACAAAAAA AAAGAAAG CTT chrIII:12920116-12920196 36 3.48e-04 CAGGCAGGTA GGAGGGGG GGAACCGAAT chrX:7710343-7710423 10 3.48e-04 gtgtgtgAG AAAGAAAG TGAGTGAAAG chrX:9737830-9737910 62 3.76e-04 GGGAAAAATG GGAGGGAG ATGGCTTGAA chrX:15545647-15545727 16 4.08e-04 GATCCAGCGG GAAGGGAG AAATTTGTTT chrX:5480219-5480299 68 4.44e-04 ATAAGAAGGC GAAGAAGA CGCAG chrII:1134584-1134664 67 4.81e-04 TATTTTTCTC GAAGAAAA CGATAC chrII:8222842-8222922 61 4.81e-04 GGATGTCCGT GAAGAAAA GAAAAGTAGA chrV:9732107-9732187 41 4.81e-04 ACATATTTCG AGAGAGGA GAAAACAAGA chrII:4130415-4130495 69 4.81e-04 CAGACAAATC AGAGAGGA GCCG chrII:5948111-5948191 64 4.81e-04 ataagtagta gaagaaaa aaggggaaa chrI:2608681-2608761 7 4.81e-04 ATACAC GAAGAAAA AGAGCACAAA chrV:13411353-13411433 56 5.31e-04 TCCATCCTTC GGAGGAGG TGGTTGCGGA chrX:2849482-2849562 37 5.31e-04 TAACCAGGCC AGAGAGAA CGGATCTCTT chrIII:3499984-3500064 66 5.31e-04 GGCCCCACGG AAAGAGGA TCTGCGA chrIII:4524814-4524894 46 5.31e-04 TTTCTGGTTG GGAGGAGG GTCCTGTGGT chrI:6745548-6745628 60 5.81e-04 GTTGAAGAAT GAAGGAGG TATTGGTGTC chrIII:4667044-4667124 30 5.81e-04 GAGGACGAGA AAAGAGAA GTGGTGTGTG chrV:20789172-20789252 58 5.81e-04 ACATACACAT AAAGAGAA GAAGAAGACG chrV:12898965-12899045 42 5.81e-04 TAGGAAAATG GGAGGAAG AAGCAGCAAA chrV:14144547-14144627 32 5.81e-04 CAAGAGAGGC AAAGAGAA GATGGCTTGA chrX:11571862-11571942 61 6.28e-04 TATTACGGCG GGAAAGGG GGCACTCCTT chrI:7712498-7712578 66 6.28e-04 TTAGGGAAAG GAAGGAAG GGTCTGA chrIV:3826773-3826853 57 6.28e-04 ATTATTGTAC AGAGGGGG CAAAAATTTG chrI:3842525-3842605 36 6.92e-04 AATCGACAAA AAAGGGGG CGATGACATC chrIV:12130949-12131029 37 8.19e-04 TCAAAATTCA AAAGAAAA CGAGTCCTCT chrX:7719252-7719332 27 8.82e-04 CAGGGGCATG AGAGGAGG ACTCGACTAG chrIII:7659621-7659701 59 8.82e-04 ACGTTAAGAG GGAAAAGG CTGCTGGCTG chrX:7254652-7254732 64 8.82e-04 ATGTCGTATT GGAGGGAA CGGGTGAGT chrV:9422908-9422988 69 8.82e-04 TAACTCTCAC GGAAAAGG CGCA chrII:3428351-3428431 62 9.68e-04 ATTGATTTTG GAAGGGAA TACGTGAAGA chrX:3469452-3469532 17 9.68e-04 aagaagaata agaggaag aagcagCATC chrIII:3600756-3600836 63 9.68e-04 GGTAAACAAC GAAAAAGG CATGAGATCA chrX:16944108-16944188 20 9.68e-04 CTATAAAAGT GAAAAAGG AGCCGCGTTA chrIV:10403285-10403365 43 1.02e-03 AATGAGAGAT AGAAAGGG TGGAAAGGAA chrX:6131502-6131582 23 1.18e-03 CAATACATTG GGAAAGGA TGAATTACAA chrV:5848609-5848689 38 1.26e-03 AGAGACGGCG AGAAAAGG TAAATGTAAT chrM:7541-7621 12 1.34e-03 TATATTAATT AGAAAAAG TATATTTGTA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RRAGARRG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:6283571-6283651 1.4e-05 7_[+4]_65 chrX:4961150-4961230 1.4e-05 69_[+4]_3 chrX:7651301-7651381 1.4e-05 67_[+4]_5 chrI:4005656-4005736 4.5e-05 5_[+4]_67 chrX:14636752-14636832 4.5e-05 25_[+4]_47 chrX:5368367-5368447 4.5e-05 57_[+4]_15 chrI:14948092-14948172 4.5e-05 33_[+4]_39 chrI:2679502-2679582 4.5e-05 45_[+4]_27 chrV:13576044-13576124 4.5e-05 37_[+4]_35 chrIII:3140417-3140497 4.5e-05 24_[+4]_48 chrIV:6648854-6648934 6.2e-05 65_[+4]_7 chrX:16591680-16591760 6.2e-05 50_[+4]_22 chrX:7651542-7651622 6.2e-05 19_[+4]_53 chrX:5734003-5734083 6.2e-05 9_[+4]_63 chrII:2502663-2502743 7.7e-05 60_[+4]_12 chrI:9475005-9475085 7.7e-05 14_[+4]_58 chrII:9010796-9010876 0.00011 56_[+4]_16 chrV:13396570-13396650 0.00011 15_[+4]_57 chrX:12629480-12629560 0.00011 28_[+4]_44 chrIV:6809893-6809973 0.00011 13_[+4]_59 chrX:3678834-3678914 0.00011 19_[+4]_53 chrII:8830042-8830122 0.00011 50_[+4]_22 chrX:5140300-5140380 0.00011 49_[+4]_23 chrX:6134664-6134744 0.00011 30_[+4]_42 chrII:6934859-6934939 0.00014 29_[+4]_43 chrIV:3823064-3823144 0.00014 12_[+4]_60 chrIII:8886521-8886601 0.00014 34_[+4]_38 chrII:9015218-9015298 0.00018 10_[+4]_62 chrII:13030151-13030231 0.00018 12_[+4]_60 chrIV:2990572-2990652 0.00018 24_[+4]_48 chrIII:931565-931645 0.00018 35_[+4]_37 chrX:854416-854496 0.00018 20_[+4]_52 chrI:9249349-9249429 0.00018 46_[+4]_26 chrIII:10672056-10672136 0.00018 67_[+4]_5 chrII:6724109-6724189 0.00018 11_[+4]_61 chrI:2831612-2831692 0.0002 67_[+4]_5 chrV:14229043-14229123 0.0002 8_[+4]_64 chrI:10175396-10175476 0.00021 60_[+4]_12 chrX:16447191-16447271 0.00021 38_[+4]_34 chrV:9664677-9664757 0.00021 41_[+4]_31 chrX:2524081-2524161 0.00026 13_[+4]_59 chrII:11751814-11751894 0.00026 28_[+4]_44 chrIV:6384995-6385075 0.00026 64_[+4]_8 chrI:8307653-8307733 0.00026 67_[+4]_5 chrIV:3169208-3169288 0.00035 69_[+4]_3 chrIII:12920116-12920196 0.00035 35_[+4]_37 chrX:7710343-7710423 0.00035 9_[+4]_63 chrX:9737830-9737910 0.00038 61_[+4]_11 chrX:15545647-15545727 0.00041 15_[+4]_57 chrX:5480219-5480299 0.00044 67_[+4]_5 chrII:1134584-1134664 0.00048 66_[+4]_6 chrII:8222842-8222922 0.00048 60_[+4]_12 chrV:9732107-9732187 0.00048 40_[+4]_32 chrII:4130415-4130495 0.00048 68_[+4]_4 chrII:5948111-5948191 0.00048 63_[+4]_9 chrI:2608681-2608761 0.00048 6_[+4]_66 chrV:13411353-13411433 0.00053 55_[+4]_17 chrX:2849482-2849562 0.00053 36_[+4]_36 chrIII:3499984-3500064 0.00053 65_[+4]_7 chrIII:4524814-4524894 0.00053 45_[+4]_27 chrI:6745548-6745628 0.00058 59_[+4]_13 chrIII:4667044-4667124 0.00058 29_[+4]_43 chrV:20789172-20789252 0.00058 57_[+4]_15 chrV:12898965-12899045 0.00058 41_[+4]_31 chrV:14144547-14144627 0.00058 31_[+4]_41 chrX:11571862-11571942 0.00063 60_[+4]_12 chrI:7712498-7712578 0.00063 65_[+4]_7 chrIV:3826773-3826853 0.00063 56_[+4]_16 chrI:3842525-3842605 0.00069 35_[+4]_37 chrIV:12130949-12131029 0.00082 36_[+4]_36 chrX:7719252-7719332 0.00088 26_[+4]_46 chrIII:7659621-7659701 0.00088 58_[+4]_14 chrX:7254652-7254732 0.00088 63_[+4]_9 chrV:9422908-9422988 0.00088 68_[+4]_4 chrII:3428351-3428431 0.00097 61_[+4]_11 chrX:3469452-3469532 0.00097 16_[+4]_56 chrIII:3600756-3600836 0.00097 62_[+4]_10 chrX:16944108-16944188 0.00097 19_[+4]_53 chrIV:10403285-10403365 0.001 42_[+4]_30 chrX:6131502-6131582 0.0012 22_[+4]_50 chrV:5848609-5848689 0.0013 37_[+4]_35 chrM:7541-7621 0.0013 11_[+4]_61 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RRAGARRG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF RRAGARRG width=8 seqs=82 chrI:6283571-6283651 ( 8) GGAGAGGG 1 chrX:4961150-4961230 ( 70) GGAGAGGG 1 chrX:7651301-7651381 ( 68) GGAGAGGG 1 chrI:4005656-4005736 ( 6) GAAGAGGG 1 chrX:14636752-14636832 ( 26) GAAGAGGG 1 chrX:5368367-5368447 ( 58) GAAGAGGG 1 chrI:14948092-14948172 ( 34) GAAGAGGG 1 chrI:2679502-2679582 ( 46) GGAGAGAG 1 chrV:13576044-13576124 ( 38) GGAGAGAG 1 chrIII:3140417-3140497 ( 25) GGAGAGAG 1 chrIV:6648854-6648934 ( 66) GAAGAGAG 1 chrX:16591680-16591760 ( 51) GAAGAGAG 1 chrX:7651542-7651622 ( 20) GAAGAGAG 1 chrX:5734003-5734083 ( 10) GAAGAGAG 1 chrII:2502663-2502743 ( 61) GGAGAAGG 1 chrI:9475005-9475085 ( 15) GGAGAAGG 1 chrII:9010796-9010876 ( 57) GAAGAAGG 1 chrV:13396570-13396650 ( 16) GAAGAAGG 1 chrX:12629480-12629560 ( 29) GAAGAAGG 1 chrIV:6809893-6809973 ( 14) GAAGAAGG 1 chrX:3678834-3678914 ( 20) GAAGAAGG 1 chrII:8830042-8830122 ( 51) GAAGAAGG 1 chrX:5140300-5140380 ( 50) GGAGAAAG 1 chrX:6134664-6134744 ( 31) GAAGAAGG 1 chrII:6934859-6934939 ( 30) AGAGAGGG 1 chrIV:3823064-3823144 ( 13) GAAGAAAG 1 chrIII:8886521-8886601 ( 35) GAAGAAAG 1 chrII:9015218-9015298 ( 11) AGAGAGAG 1 chrII:13030151-13030231 ( 13) AGAGAGAG 1 chrIV:2990572-2990652 ( 25) AGAGAGAG 1 chrIII:931565-931645 ( 36) AGAGAGAG 1 chrX:854416-854496 ( 21) AGAGAGAG 1 chrI:9249349-9249429 ( 47) AAAGAGGG 1 chrIII:10672056-10672136 ( 68) AGAGAGAG 1 chrII:6724109-6724189 ( 12) AGAGAGAG 1 chrI:2831612-2831692 ( 68) AAAGAGAG 1 chrV:14229043-14229123 ( 9) AAAGAGAG 1 chrI:10175396-10175476 ( 61) GGAGAGGA 1 chrX:16447191-16447271 ( 39) GGAGAGGA 1 chrV:9664677-9664757 ( 42) GGAGAGGA 1 chrX:2524081-2524161 ( 14) GGAGAGAA 1 chrII:11751814-11751894 ( 29) AGAGAAGG 1 chrIV:6384995-6385075 ( 65) GGAGAGAA 1 chrI:8307653-8307733 ( 68) GAAGAGGA 1 chrIV:3169208-3169288 ( 70) AAAGAAAG 1 chrIII:12920116-12920196 ( 36) GGAGGGGG 1 chrX:7710343-7710423 ( 10) AAAGAAAG 1 chrX:9737830-9737910 ( 62) GGAGGGAG 1 chrX:15545647-15545727 ( 16) GAAGGGAG 1 chrX:5480219-5480299 ( 68) GAAGAAGA 1 chrII:1134584-1134664 ( 67) GAAGAAAA 1 chrII:8222842-8222922 ( 61) GAAGAAAA 1 chrV:9732107-9732187 ( 41) AGAGAGGA 1 chrII:4130415-4130495 ( 69) AGAGAGGA 1 chrII:5948111-5948191 ( 64) GAAGAAAA 1 chrI:2608681-2608761 ( 7) GAAGAAAA 1 chrV:13411353-13411433 ( 56) GGAGGAGG 1 chrX:2849482-2849562 ( 37) AGAGAGAA 1 chrIII:3499984-3500064 ( 66) AAAGAGGA 1 chrIII:4524814-4524894 ( 46) GGAGGAGG 1 chrI:6745548-6745628 ( 60) GAAGGAGG 1 chrIII:4667044-4667124 ( 30) AAAGAGAA 1 chrV:20789172-20789252 ( 58) AAAGAGAA 1 chrV:12898965-12899045 ( 42) GGAGGAAG 1 chrV:14144547-14144627 ( 32) AAAGAGAA 1 chrX:11571862-11571942 ( 61) GGAAAGGG 1 chrI:7712498-7712578 ( 66) GAAGGAAG 1 chrIV:3826773-3826853 ( 57) AGAGGGGG 1 chrI:3842525-3842605 ( 36) AAAGGGGG 1 chrIV:12130949-12131029 ( 37) AAAGAAAA 1 chrX:7719252-7719332 ( 27) AGAGGAGG 1 chrIII:7659621-7659701 ( 59) GGAAAAGG 1 chrX:7254652-7254732 ( 64) GGAGGGAA 1 chrV:9422908-9422988 ( 69) GGAAAAGG 1 chrII:3428351-3428431 ( 62) GAAGGGAA 1 chrX:3469452-3469532 ( 17) AGAGGAAG 1 chrIII:3600756-3600836 ( 63) GAAAAAGG 1 chrX:16944108-16944188 ( 20) GAAAAAGG 1 chrIV:10403285-10403365 ( 43) AGAAAGGG 1 chrX:6131502-6131582 ( 23) GGAAAGGA 1 chrV:5848609-5848689 ( 38) AGAAAAGG 1 chrM:7541-7621 ( 12) AGAAAAAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RRAGARRG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.64284 E= 1.6e-004 43 -1300 141 -1300 89 -1300 108 -1300 193 -1300 -1300 -1300 -126 -1300 187 -1300 166 -1300 -51 -1300 66 -1300 127 -1300 89 -1300 108 -1300 3 -1300 159 -1300 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RRAGARRG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 82 E= 1.6e-004 0.353659 0.000000 0.646341 0.000000 0.487805 0.000000 0.512195 0.000000 1.000000 0.000000 0.000000 0.000000 0.109756 0.000000 0.890244 0.000000 0.829268 0.000000 0.170732 0.000000 0.414634 0.000000 0.585366 0.000000 0.487805 0.000000 0.512195 0.000000 0.268293 0.000000 0.731707 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RRAGARRG MEME-4 regular expression -------------------------------------------------------------------------------- [GA][GA]AGA[GA][GA][GA] -------------------------------------------------------------------------------- Time 20.96 secs. ******************************************************************************** ******************************************************************************** MOTIF CGCCCCCC MEME-5 width = 8 sites = 3 llr = 35 E-value = 2.3e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif CGCCCCCC MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C a:aaaaaa probability G :a:::::: matrix T :::::::: bits 2.1 ******** 1.9 ******** 1.7 ******** 1.5 ******** Relative 1.2 ******** Entropy 1.0 ******** (16.6 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CGCCCCCC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCCCCCC MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:1067586-1067666 59 9.91e-06 CACGTCGGGG CGCCCCCC CGCTGGCCAC chrIII:11467927-11468007 17 9.91e-06 GCGGGGGACC CGCCCCCC GTCTCCATCT chrV:6468013-6468093 47 9.91e-06 AATAACATCT CGCCCCCC GAACCACAGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCCCCCC MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:1067586-1067666 9.9e-06 58_[+5]_14 chrIII:11467927-11468007 9.9e-06 16_[+5]_56 chrV:6468013-6468093 9.9e-06 46_[+5]_26 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCCCCCC MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CGCCCCCC width=8 seqs=3 chrIV:1067586-1067666 ( 59) CGCCCCCC 1 chrIII:11467927-11468007 ( 17) CGCCCCCC 1 chrV:6468013-6468093 ( 47) CGCCCCCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCCCCCC MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 12.2293 E= 2.3e+004 -823 208 -823 -823 -823 -823 204 -823 -823 208 -823 -823 -823 208 -823 -823 -823 208 -823 -823 -823 208 -823 -823 -823 208 -823 -823 -823 208 -823 -823 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCCCCCC MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 3 E= 2.3e+004 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCCCCCC MEME-5 regular expression -------------------------------------------------------------------------------- CGCCCCCC -------------------------------------------------------------------------------- Time 24.36 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrII:9577763-9577843 8.83e-02 80 chrIII:3140417-3140497 1.13e-01 24_[+4(4.51e-05)]_48 chrX:15545647-15545727 1.62e-01 80 chrI:2608681-2608761 4.75e-03 72_[+3(4.41e-05)] chrX:5734003-5734083 1.37e-01 9_[+4(6.18e-05)]_63 chrII:7632871-7632951 4.40e-01 80 chrX:12179178-12179258 9.47e-01 80 chrV:11872130-11872210 6.40e-01 80 chrX:7710343-7710423 2.74e-04 [+3(7.66e-05)]_72 chrI:14229274-14229354 9.66e-02 23_[+2(4.76e-05)]_49 chrV:13576044-13576124 3.52e-02 37_[+4(4.51e-05)]_35 chrV:10044910-10044990 2.56e-03 25_[+2(1.48e-05)]_47 chrX:10226232-10226312 9.88e-01 80 chrX:16941258-16941338 9.79e-01 80 chrI:2679502-2679582 6.91e-03 45_[+4(4.51e-05)]_27 chrV:9422908-9422988 3.05e-01 80 chrI:14232466-14232546 3.06e-01 49_[+1(6.54e-05)]_23 chrV:5323048-5323128 2.68e-02 17_[+2(1.48e-05)]_55 chrIV:3826773-3826853 2.23e-01 80 chrX:2043348-2043428 4.07e-02 80 chrI:11198599-11198679 7.52e-01 80 chrII:8899128-8899208 4.96e-01 80 chrII:7810950-7811030 8.16e-01 80 chrV:8439969-8440049 8.49e-01 80 chrI:10097141-10097221 2.54e-02 61_[+3(4.41e-05)]_11 chrV:5848609-5848689 4.67e-01 80 chrII:5948111-5948191 3.09e-01 80 chrII:4130415-4130495 6.20e-04 [+3(1.54e-05)]_[+3(1.54e-05)]_\ [+3(1.54e-05)]_[+3(1.54e-05)]_[+3(1.54e-05)]_[+3(1.54e-05)]_8_\ [+2(7.82e-05)]_16 chrII:6724109-6724189 5.31e-01 80 chrIII:3603577-3603657 2.18e-02 80 chrM:150-230 7.68e-01 80 chrX:6131502-6131582 6.35e-01 80 chrV:18716127-18716207 5.54e-01 80 chrV:14144547-14144627 6.20e-01 80 chrI:8307653-8307733 1.22e-01 80 chrIII:4626346-4626426 1.76e-01 1_[+2(1.48e-05)]_[+2(1.48e-05)]_\ [+2(1.48e-05)]_[+2(1.48e-05)]_[+2(1.48e-05)]_[+2(1.48e-05)]_31 chrX:16944108-16944188 6.80e-01 80 chrV:6468013-6468093 2.20e-02 46_[+5(9.91e-06)]_26 chrM:5415-5495 9.96e-01 80 chrX:6134664-6134744 3.43e-03 80 chrI:12227872-12227952 1.84e-03 57_[+2(1.48e-05)]_15 chrIV:6384995-6385075 5.84e-01 80 chrIII:10672056-10672136 8.12e-02 80 chrIV:5753006-5753086 1.39e-01 80 chrV:6893778-6893858 8.46e-01 80 chrI:4888390-4888470 4.50e-01 80 chrIV:186240-186320 1.40e-01 80 chrIII:3600756-3600836 8.00e-03 80 chrV:14229043-14229123 2.51e-01 80 chrV:18720174-18720254 9.18e-01 80 chrV:5284759-5284839 9.55e-01 80 chrX:1022012-1022092 1.10e-01 80 chrM:3932-4012 9.97e-01 80 chrI:14807766-14807846 7.83e-01 80 chrX:3469452-3469532 1.48e-01 80 chrII:5948801-5948881 1.82e-02 57_[+3(9.30e-05)]_15 chrI:3646119-3646199 1.21e-01 80 chrIV:4674465-4674545 4.69e-02 80 chrII:10202430-10202510 5.62e-01 80 chrIV:1905365-1905445 1.12e-01 80 chrI:9196297-9196377 7.22e-01 80 chrIII:13258398-13258478 5.82e-03 80 chrIII:8886521-8886601 4.66e-01 80 chrI:4311751-4311831 1.61e-01 6_[+1(3.89e-05)]_66 chrI:9426608-9426688 8.98e-03 22_[+3(1.54e-05)]_50 chrX:5140300-5140380 1.20e-01 80 chrIV:13030038-13030118 5.63e-01 80 chrX:2825142-2825222 7.07e-03 18_[+2(1.48e-05)]_54 chrV:10265217-10265297 1.59e-01 57_[+2(4.76e-05)]_15 chrIII:768159-768239 4.93e-01 80 chrX:3227063-3227143 1.02e-01 46_[+3(1.54e-05)]_5_[+3(9.30e-05)]_\ 13 chrIII:1225607-1225687 7.60e-01 80 chrM:7541-7621 7.49e-01 80 chrV:13869045-13869125 1.44e-01 [+2(1.48e-05)]_[+2(1.48e-05)]_\ [+2(1.48e-05)]_[+2(1.48e-05)]_[+2(1.48e-05)]_[+2(1.48e-05)]_32 chrII:8830042-8830122 6.50e-03 5_[+2(1.48e-05)]_67 chrIV:3823064-3823144 2.87e-01 80 chrX:7651301-7651381 3.00e-02 67_[+4(1.42e-05)]_5 chrX:4961150-4961230 5.95e-03 50_[+3(7.66e-05)]_11_[+4(1.42e-05)]_\ 3 chrIII:12920116-12920196 4.73e-01 80 chrIII:95098-95178 6.27e-01 80 chrX:14229583-14229663 1.93e-01 1_[+3(1.54e-05)]_[+3(1.54e-05)]_\ [+3(1.54e-05)]_[+3(1.54e-05)]_[+3(1.54e-05)]_[+3(1.54e-05)]_[+3(1.54e-05)]_\ [+3(1.54e-05)]_[+3(1.54e-05)]_7 chrV:14933953-14934033 7.96e-03 43_[+2(6.29e-05)]_29 chrX:3678834-3678914 1.70e-01 80 chrX:12693413-12693493 9.74e-01 80 chrV:12898965-12899045 7.37e-01 80 chrIII:4947571-4947651 5.16e-01 80 chrX:7651542-7651622 4.73e-02 19_[+4(6.18e-05)]_53 chrI:933477-933557 5.45e-01 80 chrV:4964387-4964467 6.76e-01 80 chrM:10790-10870 9.69e-01 80 chrIII:8287729-8287809 2.89e-02 80 chrIV:14371826-14371906 9.61e-01 80 chrIII:7317470-7317550 5.41e-02 80 chrX:12688677-12688757 4.16e-02 80 chrX:5056378-5056458 8.97e-01 80 chrV:16553067-16553147 1.73e-01 18_[+1(2.63e-05)]_54 chrX:16944381-16944461 7.78e-01 80 chrX:16591680-16591760 1.95e-01 50_[+4(6.18e-05)]_22 chrIV:12584354-12584434 1.78e-01 80 chrIV:6809893-6809973 4.00e-04 52_[+3(4.41e-05)]_20 chrII:11751814-11751894 5.19e-01 80 chrII:6182873-6182953 1.19e-01 44_[+1(1.37e-05)]_28 chrX:2885466-2885546 2.08e-02 47_[+2(9.19e-05)]_25 chrIII:9638340-9638420 8.20e-01 80 chrII:6120538-6120618 8.75e-01 80 chrV:20757432-20757512 2.51e-01 80 chrX:2457843-2457923 2.95e-01 80 chrX:5818377-5818457 9.37e-02 7_[+1(6.54e-05)]_65 chrX:5354653-5354733 2.58e-02 80 chrI:9249349-9249429 1.95e-02 80 chrI:7712498-7712578 1.03e-01 80 chrIII:7010496-7010576 7.23e-01 80 chrX:11473350-11473430 8.41e-01 80 chrI:4932980-4933060 4.51e-01 80 chrV:11852534-11852614 7.64e-01 80 chrIII:5708138-5708218 2.38e-03 26_[+2(1.48e-05)]_46 chrM:10107-10187 9.25e-01 80 chrII:3428351-3428431 9.76e-02 80 chrIII:4524814-4524894 2.21e-01 80 chrV:19722985-19723065 3.20e-01 80 chrIII:13525535-13525615 5.72e-02 18_[+2(3.11e-05)]_54 chrII:13056823-13056903 8.99e-01 80 chrI:14948092-14948172 2.54e-03 33_[+4(4.51e-05)]_39 chrX:12180110-12180190 2.52e-02 12_[+2(4.76e-05)]_60 chrX:854416-854496 2.08e-01 80 chrX:6971422-6971502 3.46e-01 57_[+1(6.54e-05)]_15 chrI:2831612-2831692 9.57e-03 4_[+3(7.66e-05)]_9_[+3(1.54e-05)]_\ 51 chrV:20755171-20755251 1.34e-01 80 chrII:950502-950582 5.41e-01 80 chrIII:3499984-3500064 1.56e-01 80 chrV:20789172-20789252 1.79e-04 48_[+2(3.11e-05)]_24 chrIII:931565-931645 9.72e-02 80 chrV:311620-311700 6.40e-01 80 chrIII:11467927-11468007 4.81e-03 16_[+5(9.91e-06)]_56 chrV:11135545-11135625 8.39e-01 80 chrX:8569375-8569455 1.13e-02 27_[+2(1.48e-05)]_[+2(1.48e-05)]_37 chrX:2849482-2849562 5.46e-01 80 chrM:2843-2923 7.91e-01 80 chrIII:6138641-6138721 3.99e-01 80 chrX:11387955-11388035 9.96e-01 80 chrX:9296733-9296813 1.12e-02 71_[+2(9.19e-05)]_1 chrI:12225459-12225539 4.92e-01 80 chrII:6721718-6721798 8.87e-01 80 chrV:15065303-15065383 6.27e-01 80 chrX:9737830-9737910 3.61e-01 80 chrII:6934859-6934939 7.84e-02 80 chrIV:2990572-2990652 5.19e-02 80 chrII:11537319-11537399 4.12e-01 80 chrIII:668421-668501 3.45e-01 80 chrI:3567683-3567763 1.24e-01 [+3(1.54e-05)]_[+3(1.54e-05)]_64 chrI:11204551-11204631 7.53e-02 51_[+1(6.54e-05)]_21 chrX:12629480-12629560 2.00e-01 80 chrV:18709384-18709464 9.82e-01 80 chrV:11445505-11445585 7.12e-01 80 chrIII:7580781-7580861 9.99e-02 80 chrX:4391384-4391464 8.42e-01 80 chrX:10769911-10769991 5.93e-01 80 chrV:19153399-19153479 3.21e-01 80 chrV:6482070-6482150 9.17e-01 80 chrX:6850633-6850713 6.89e-01 80 chrIII:4667044-4667124 2.60e-02 40_[+3(1.54e-05)]_32 chrII:9313410-9313490 3.58e-01 80 chrV:13411353-13411433 8.79e-02 80 chrIV:12130949-12131029 1.47e-01 80 chrI:6724486-6724566 5.63e-01 80 chrIV:6646006-6646086 7.29e-03 46_[+1(1.37e-05)]_26 chrI:6283571-6283651 6.80e-03 7_[+4(1.42e-05)]_65 chrV:16699866-16699946 9.98e-01 80 chrIV:4672953-4673033 1.37e-02 38_[+3(1.54e-05)]_[+3(4.41e-05)]_26 chrX:5368367-5368447 1.85e-04 13_[+1(1.37e-05)]_36_[+4(4.51e-05)]_\ 15 chrIII:7724698-7724778 1.08e-01 80 chrX:14636752-14636832 1.00e-01 25_[+4(4.51e-05)]_47 chrX:8602901-8602981 9.99e-01 80 chrIV:14295340-14295420 4.67e-01 80 chrIV:2998851-2998931 2.92e-01 80 chrX:5480219-5480299 1.90e-01 80 chrX:12084808-12084888 8.79e-01 80 chrX:16602593-16602673 4.44e-01 80 chrV:9664677-9664757 2.79e-01 80 chrV:9732107-9732187 5.77e-01 80 chrX:8156117-8156197 5.45e-02 80 chrI:9475005-9475085 1.06e-01 14_[+4(7.72e-05)]_58 chrII:2502663-2502743 8.17e-02 60_[+4(7.72e-05)]_12 chrM:3695-3775 1.00e+00 80 chrIII:10855530-10855610 8.50e-01 80 chrX:8566118-8566198 3.13e-01 80 chrIV:6648854-6648934 1.56e-02 4_[+3(9.30e-05)]_53_[+4(6.18e-05)]_\ 7 chrX:7254652-7254732 2.08e-01 80 chrII:761750-761830 8.17e-01 80 chrX:11571862-11571942 3.45e-02 80 chrIII:13717767-13717847 2.11e-02 68_[+1(6.54e-05)]_4 chrIV:3858277-3858357 2.27e-01 80 chrX:8995641-8995721 1.01e-01 18_[+1(1.37e-05)]_54 chrI:3842525-3842605 5.18e-01 80 chrX:2632138-2632218 2.35e-01 47_[+1(6.54e-05)]_25 chrX:6151369-6151449 1.11e-02 50_[+2(3.11e-05)]_22 chrI:5422281-5422361 2.05e-02 30_[+2(3.11e-05)]_42 chrX:2524081-2524161 1.11e-01 80 chrV:11341421-11341501 1.08e-01 80 chrX:601545-601625 3.13e-01 80 chrV:13396570-13396650 8.28e-03 2_[+2(3.11e-05)]_70 chrIII:7659621-7659701 3.01e-01 80 chrI:13158717-13158797 4.44e-01 80 chrV:14833357-14833437 6.84e-02 63_[+1(2.63e-05)]_9 chrIII:13697949-13698029 5.88e-01 80 chrII:9577967-9578047 7.91e-01 80 chrI:11095795-11095875 3.62e-01 80 chrM:5632-5712 1.00e+00 80 chrX:16447191-16447271 1.45e-01 80 chrIII:9983977-9984057 7.26e-01 80 chrIV:1657192-1657272 4.46e-01 80 chrII:13030151-13030231 1.63e-02 80 chrII:11393911-11393991 2.38e-01 80 chrX:17315048-17315128 7.57e-01 80 chrII:8222842-8222922 2.07e-04 36_[+2(3.11e-05)]_36 chrX:3969489-3969569 9.63e-01 80 chrX:7719252-7719332 5.58e-01 80 chrIV:3169208-3169288 1.57e-01 80 chrII:1134584-1134664 4.34e-01 80 chrIV:128720-128800 1.15e-01 80 chrX:15344107-15344187 3.07e-01 80 chrII:9010796-9010876 1.18e-01 80 chrM:1308-1388 4.37e-01 80 chrIV:14620722-14620802 9.88e-01 80 chrM:7284-7364 8.01e-01 80 chrX:7478596-7478676 1.25e-01 63_[+3(1.54e-05)]_9 chrIV:10303485-10303565 9.95e-01 80 chrII:9015218-9015298 3.23e-01 80 chrM:8306-8386 8.91e-01 80 chrI:11790790-11790870 8.24e-01 80 chrX:2776487-2776567 7.03e-01 80 chrX:11257247-11257327 3.97e-01 80 chrX:4576495-4576575 2.95e-03 8_[+3(7.66e-05)]_64 chrX:859458-859538 9.59e-01 80 chrM:6333-6413 7.65e-01 80 chrI:3336195-3336275 5.33e-01 80 chrI:10175396-10175476 2.08e-02 80 chrX:2901326-2901406 3.55e-01 80 chrX:9899843-9899923 8.57e-01 80 chrX:3994580-3994660 9.50e-01 80 chrX:13225537-13225617 9.11e-01 80 chrIV:1067586-1067666 6.62e-03 58_[+5(9.91e-06)]_14 chrIV:10403285-10403365 4.67e-01 80 chrIV:12417237-12417317 9.44e-01 80 chrI:6745548-6745628 3.52e-01 80 chrX:15877075-15877155 5.71e-03 54_[+2(1.48e-05)]_[+2(1.48e-05)]_10 chrV:18723733-18723813 5.18e-01 80 chrI:4005656-4005736 2.90e-03 5_[+4(4.51e-05)]_15_[+3(1.54e-05)]_\ 44 chrI:6757146-6757226 9.12e-02 14_[+3(7.66e-05)]_35_[+3(1.54e-05)]_\ 15 chrI:2487839-2487919 7.98e-01 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n08.farnam.hpc.yale.internal ********************************************************************************