******************************************************************************** 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/hlh-15.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrV:265283-265363 1.0000 80 chrIII:3499981-3500061 1.0000 80 chrV:11933445-11933525 1.0000 80 chrIII:3476304-3476384 1.0000 80 chrII:14635348-14635428 1.0000 80 chrI:1575659-1575739 1.0000 80 chrX:9296758-9296838 1.0000 80 chrI:1175838-1175918 1.0000 80 chrII:6721792-6721872 1.0000 80 chrX:5816460-5816540 1.0000 80 chrIV:9316171-9316251 1.0000 80 chrII:5836569-5836649 1.0000 80 chrIII:640501-640581 1.0000 80 chrIII:3664364-3664444 1.0000 80 chrV:13396605-13396685 1.0000 80 chrX:8155858-8155938 1.0000 80 chrII:12042349-12042429 1.0000 80 chrIII:8971774-8971854 1.0000 80 chrX:8638915-8638995 1.0000 80 chrI:1415987-1416067 1.0000 80 chrI:3350044-3350124 1.0000 80 chrI:2487808-2487888 1.0000 80 chrV:14689471-14689551 1.0000 80 chrI:10026063-10026143 1.0000 80 chrII:6828958-6829038 1.0000 80 chrV:19723040-19723120 1.0000 80 chrIII:11290695-11290775 1.0000 80 chrII:14528465-14528545 1.0000 80 chrIII:6805547-6805627 1.0000 80 chrII:7708708-7708788 1.0000 80 chrI:1823185-1823265 1.0000 80 chrI:9268993-9269073 1.0000 80 chrV:16553074-16553154 1.0000 80 chrV:7231034-7231114 1.0000 80 chrIII:3476504-3476584 1.0000 80 chrV:3587783-3587863 1.0000 80 chrII:7001478-7001558 1.0000 80 chrII:3482403-3482483 1.0000 80 chrI:12225479-12225559 1.0000 80 chrX:3994610-3994690 1.0000 80 chrI:3176526-3176606 1.0000 80 chrV:13715441-13715521 1.0000 80 chrI:11978757-11978837 1.0000 80 chrII:6898273-6898353 1.0000 80 chrV:11239347-11239427 1.0000 80 chrX:3969516-3969596 1.0000 80 chrI:10469078-10469158 1.0000 80 chrII:3567788-3567868 1.0000 80 chrIV:1911152-1911232 1.0000 80 chrV:1003911-1003991 1.0000 80 chrIV:5371006-5371086 1.0000 80 chrII:14063259-14063339 1.0000 80 chrV:13176479-13176559 1.0000 80 chrX:14478661-14478741 1.0000 80 chrIV:16776018-16776098 1.0000 80 chrII:6741544-6741624 1.0000 80 chrIV:410657-410737 1.0000 80 chrI:853224-853304 1.0000 80 chrIV:5537994-5538074 1.0000 80 chrI:5165016-5165096 1.0000 80 chrII:14144008-14144088 1.0000 80 chrI:2996337-2996417 1.0000 80 chrI:11323312-11323392 1.0000 80 chrV:15554007-15554087 1.0000 80 chrI:27035-27115 1.0000 80 chrIV:12559188-12559268 1.0000 80 chrI:11322096-11322176 1.0000 80 chrIII:1962237-1962317 1.0000 80 chrV:1821444-1821524 1.0000 80 chrX:14115663-14115743 1.0000 80 chrIII:3175130-3175210 1.0000 80 chrIII:11317272-11317352 1.0000 80 chrIII:3916797-3916877 1.0000 80 chrIII:11091754-11091834 1.0000 80 chrI:14721617-14721697 1.0000 80 chrI:6341919-6341999 1.0000 80 chrX:3348015-3348095 1.0000 80 chrIV:16995558-16995638 1.0000 80 chrII:4238032-4238112 1.0000 80 chrI:10807115-10807195 1.0000 80 chrIV:14225038-14225118 1.0000 80 chrIV:796716-796796 1.0000 80 chrIII:8650393-8650473 1.0000 80 chrI:5176400-5176480 1.0000 80 chrV:1004116-1004196 1.0000 80 chrIV:16415242-16415322 1.0000 80 chrV:10356068-10356148 1.0000 80 chrV:4731549-4731629 1.0000 80 chrIII:4426868-4426948 1.0000 80 chrI:7772611-7772691 1.0000 80 chrIV:16946872-16946952 1.0000 80 chrII:13117244-13117324 1.0000 80 chrX:1858796-1858876 1.0000 80 chrIV:1388182-1388262 1.0000 80 chrIV:14576596-14576676 1.0000 80 chrX:9622799-9622879 1.0000 80 chrI:9393668-9393748 1.0000 80 chrV:11039715-11039795 1.0000 80 chrIV:11310738-11310818 1.0000 80 chrV:12780417-12780497 1.0000 80 chrIV:16415494-16415574 1.0000 80 chrV:11113364-11113444 1.0000 80 chrIII:5211446-5211526 1.0000 80 chrIII:7199001-7199081 1.0000 80 chrI:5316224-5316304 1.0000 80 chrII:7072676-7072756 1.0000 80 chrIII:8768043-8768123 1.0000 80 chrX:6220097-6220177 1.0000 80 chrIII:4171136-4171216 1.0000 80 chrV:6709229-6709309 1.0000 80 chrI:13421101-13421181 1.0000 80 chrIV:9191322-9191402 1.0000 80 chrI:4967555-4967635 1.0000 80 chrIII:12399945-12400025 1.0000 80 chrIII:11119485-11119565 1.0000 80 chrIII:4568724-4568804 1.0000 80 chrX:13781587-13781667 1.0000 80 chrIV:17087582-17087662 1.0000 80 chrV:8631590-8631670 1.0000 80 chrIII:5349324-5349404 1.0000 80 chrX:13264650-13264730 1.0000 80 chrX:11252583-11252663 1.0000 80 chrX:16298337-16298417 1.0000 80 chrI:1070015-1070095 1.0000 80 chrX:5707973-5708053 1.0000 80 chrX:5022862-5022942 1.0000 80 chrI:2410110-2410190 1.0000 80 chrIII:535326-535406 1.0000 80 chrV:13962154-13962234 1.0000 80 chrIII:8144720-8144800 1.0000 80 chrI:11505565-11505645 1.0000 80 chrIII:11119696-11119776 1.0000 80 chrV:13468324-13468404 1.0000 80 chrIV:1745664-1745744 1.0000 80 chrI:8223080-8223160 1.0000 80 chrIV:11026143-11026223 1.0000 80 chrX:1837859-1837939 1.0000 80 chrI:1416198-1416278 1.0000 80 chrI:14737423-14737503 1.0000 80 chrII:11534677-11534757 1.0000 80 chrII:9566178-9566258 1.0000 80 chrIII:7030505-7030585 1.0000 80 chrI:8530126-8530206 1.0000 80 chrI:1958519-1958599 1.0000 80 chrI:1444194-1444274 1.0000 80 chrIV:9477735-9477815 1.0000 80 chrII:11959430-11959510 1.0000 80 chrII:6248667-6248747 1.0000 80 chrIII:4369665-4369745 1.0000 80 chrIII:1122441-1122521 1.0000 80 chrIV:13386182-13386262 1.0000 80 chrI:9605815-9605895 1.0000 80 chrIII:11792827-11792907 1.0000 80 chrII:3439419-3439499 1.0000 80 chrIII:1424549-1424629 1.0000 80 chrX:16928328-16928408 1.0000 80 chrIII:5555095-5555175 1.0000 80 chrIV:192219-192299 1.0000 80 chrX:5319378-5319458 1.0000 80 chrX:9637823-9637903 1.0000 80 chrII:3521542-3521622 1.0000 80 chrII:11980254-11980334 1.0000 80 chrX:15606979-15607059 1.0000 80 chrV:10526036-10526116 1.0000 80 chrV:15551863-15551943 1.0000 80 chrI:10642526-10642606 1.0000 80 chrIV:2033199-2033279 1.0000 80 chrI:13161091-13161171 1.0000 80 chrIV:143957-144037 1.0000 80 chrIII:11371417-11371497 1.0000 80 chrIV:7947074-7947154 1.0000 80 chrIV:12724810-12724890 1.0000 80 chrIII:4414247-4414327 1.0000 80 chrIV:322653-322733 1.0000 80 chrIII:9861678-9861758 1.0000 80 chrX:16604755-16604835 1.0000 80 chrIII:13268961-13269041 1.0000 80 chrII:8547144-8547224 1.0000 80 chrX:6593523-6593603 1.0000 80 chrI:13310336-13310416 1.0000 80 chrX:14804921-14805001 1.0000 80 chrIII:11142246-11142326 1.0000 80 chrX:10963776-10963856 1.0000 80 chrX:6292296-6292376 1.0000 80 chrX:12563816-12563896 1.0000 80 chrIII:4378658-4378738 1.0000 80 chrX:15741986-15742066 1.0000 80 chrX:1880846-1880926 1.0000 80 chrIII:6158747-6158827 1.0000 80 chrIII:6551632-6551712 1.0000 80 chrII:8107311-8107391 1.0000 80 chrV:12291778-12291858 1.0000 80 chrV:5790987-5791067 1.0000 80 chrV:4194967-4195047 1.0000 80 chrX:6903175-6903255 1.0000 80 chrX:353302-353382 1.0000 80 chrIII:11870086-11870166 1.0000 80 chrII:4740206-4740286 1.0000 80 chrII:3502814-3502894 1.0000 80 chrIV:3050898-3050978 1.0000 80 chrIV:8253012-8253092 1.0000 80 chrII:13199992-13200072 1.0000 80 chrI:5807424-5807504 1.0000 80 chrV:12870109-12870189 1.0000 80 chrV:16592142-16592222 1.0000 80 chrX:6371411-6371491 1.0000 80 chrIII:10460746-10460826 1.0000 80 chrX:3697737-3697817 1.0000 80 chrV:11610638-11610718 1.0000 80 chrIV:9074390-9074470 1.0000 80 chrIII:8937683-8937763 1.0000 80 chrI:5986313-5986393 1.0000 80 chrII:12494743-12494823 1.0000 80 chrX:9467751-9467831 1.0000 80 chrIII:10707215-10707295 1.0000 80 chrX:12106175-12106255 1.0000 80 chrX:489886-489966 1.0000 80 chrV:12596899-12596979 1.0000 80 chrII:10248527-10248607 1.0000 80 chrIII:8678529-8678609 1.0000 80 chrIII:10461273-10461353 1.0000 80 chrIII:4470919-4470999 1.0000 80 chrX:11935140-11935220 1.0000 80 chrII:5105229-5105309 1.0000 80 chrI:14113225-14113305 1.0000 80 chrX:13511969-13512049 1.0000 80 chrII:9940595-9940675 1.0000 80 chrIII:5294955-5295035 1.0000 80 chrX:2809745-2809825 1.0000 80 chrI:12198603-12198683 1.0000 80 chrII:11484801-11484881 1.0000 80 chrV:9970254-9970334 1.0000 80 chrX:8386126-8386206 1.0000 80 chrV:53435-53515 1.0000 80 chrV:9503534-9503614 1.0000 80 chrX:1379595-1379675 1.0000 80 chrIII:10989975-10990055 1.0000 80 chrII:9566379-9566459 1.0000 80 chrIV:11474211-11474291 1.0000 80 chrII:6853144-6853224 1.0000 80 chrI:8259547-8259627 1.0000 80 chrV:19643191-19643271 1.0000 80 chrIV:3524805-3524885 1.0000 80 chrII:7184013-7184093 1.0000 80 chrX:2549506-2549586 1.0000 80 chrIII:8106626-8106706 1.0000 80 chrII:5032768-5032848 1.0000 80 chrII:5358389-5358469 1.0000 80 chrV:15002282-15002362 1.0000 80 chrIII:7520829-7520909 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_hlh-15/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/hlh-15.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 0.232 G 0.238 T 0.267 Background letter frequencies (from file dataset with add-one prior applied): A 0.263 C 0.232 G 0.238 T 0.266 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF CTMGGCCA MEME-1 width = 8 sites = 28 llr = 264 E-value = 7.5e-011 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTMGGCCA MEME-1 Description -------------------------------------------------------------------------------- Simplified A ::6:2::a pos.-specific C a14::aa: probability G :1:a8::: matrix T :8:::::: bits 2.1 * * ** 1.9 * * *** 1.7 * * *** 1.5 * * *** Relative 1.3 * ***** Entropy 1.1 ******** (13.6 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CTAGGCCA consensus C A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTMGGCCA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIII:7520829-7520909 28 1.30e-05 AATTTGGATT CTAGGCCA TGCAGTCTTT chrII:5358389-5358469 34 1.30e-05 GGTGCGATTT CTAGGCCA GCAGGGCTCT chrII:3502814-3502894 10 1.30e-05 TGGAGTTTT CTAGGCCA CGAGTTGCAT chrIII:6158747-6158827 3 1.30e-05 GT CTAGGCCA CGAAAGTTGT chrV:13468324-13468404 48 1.30e-05 TGTGCGTTTT CTAGGCCA TTTTGGCGTG chrI:5316224-5316304 72 1.30e-05 ATGGCGGTCT CTAGGCCA T chrII:13117244-13117324 71 1.30e-05 CCCCGAAATG CTAGGCCA CG chrV:10356068-10356148 70 1.30e-05 GAGGGATATT CTAGGCCA TAT chrI:11322096-11322176 34 1.30e-05 ATTTGGATTT CTAGGCCA CCAACTGGAA chrII:11484801-11484881 6 2.45e-05 CACCA CTCGGCCA CAAATGCAGT chrII:5105229-5105309 53 2.45e-05 ACGCTAACCA CTCGGCCA CACATGTCAG chrX:353302-353382 20 2.45e-05 CCTTAGACCG CTCGGCCA TCTCTCCACA chrX:6903175-6903255 6 2.45e-05 GACCG CTCGGCCA TCTCTCCACA chrIII:11371417-11371497 50 2.45e-05 CACACTGCCA CTCGGCCA CGCGTGCATC chrIV:192219-192299 21 2.45e-05 AGCACGATTT CTCGGCCA CGCGCCGTGT chrII:14635348-14635428 54 2.45e-05 CCTTAGACCG CTCGGCCA TCTCACCGGA chrI:8259547-8259627 8 3.89e-05 GAGACCA CTAGACCA CGCGCGCATA chrX:13511969-13512049 58 3.89e-05 AATCATACCA CTAGACCA TTCGGCCATG chrX:9467751-9467831 35 3.89e-05 AATCATACCA CTAGACCA TTCGGCCACA chrX:1880846-1880926 28 3.89e-05 AATCATACCT CTAGACCA TCCGGCCACT chrI:8530126-8530206 59 3.89e-05 ATCCTAACCA CTAGACCA CAACGGAGCG chrIII:8650393-8650473 45 3.89e-05 AATCATACCT CTAGACCA TCCGGCCACT chrIII:4470919-4470999 33 7.35e-05 CATTAGGCCA CGCGGCCA CGAGAGCAGC chrX:11252583-11252663 73 7.35e-05 CATTGCGCCA CGCGGCCA chrX:6220097-6220177 39 7.35e-05 CATTGCGCCA CGCGGCCA CATTTTCAAA chrIII:7199001-7199081 38 7.35e-05 TTCAAATGTG CGCGGCCA CGGCCACTGT chrIV:9477735-9477815 2 8.48e-05 G CCAGGCCA CACTTTTACC chrII:11959430-11959510 4 9.48e-05 GAT CCCGGCCA GGACCTATGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTMGGCCA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIII:7520829-7520909 1.3e-05 27_[+1]_45 chrII:5358389-5358469 1.3e-05 33_[+1]_39 chrII:3502814-3502894 1.3e-05 9_[+1]_63 chrIII:6158747-6158827 1.3e-05 2_[+1]_70 chrV:13468324-13468404 1.3e-05 47_[+1]_25 chrI:5316224-5316304 1.3e-05 71_[+1]_1 chrII:13117244-13117324 1.3e-05 70_[+1]_2 chrV:10356068-10356148 1.3e-05 69_[+1]_3 chrI:11322096-11322176 1.3e-05 33_[+1]_39 chrII:11484801-11484881 2.4e-05 5_[+1]_67 chrII:5105229-5105309 2.4e-05 52_[+1]_20 chrX:353302-353382 2.4e-05 19_[+1]_53 chrX:6903175-6903255 2.4e-05 5_[+1]_67 chrIII:11371417-11371497 2.4e-05 49_[+1]_23 chrIV:192219-192299 2.4e-05 20_[+1]_52 chrII:14635348-14635428 2.4e-05 53_[+1]_19 chrI:8259547-8259627 3.9e-05 7_[+1]_65 chrX:13511969-13512049 3.9e-05 57_[+1]_15 chrX:9467751-9467831 3.9e-05 34_[+1]_38 chrX:1880846-1880926 3.9e-05 27_[+1]_45 chrI:8530126-8530206 3.9e-05 58_[+1]_14 chrIII:8650393-8650473 3.9e-05 44_[+1]_28 chrIII:4470919-4470999 7.3e-05 32_[+1]_40 chrX:11252583-11252663 7.3e-05 72_[+1] chrX:6220097-6220177 7.3e-05 38_[+1]_34 chrIII:7199001-7199081 7.3e-05 37_[+1]_35 chrIV:9477735-9477815 8.5e-05 1_[+1]_71 chrII:11959430-11959510 9.5e-05 3_[+1]_69 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTMGGCCA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTMGGCCA width=8 seqs=28 chrIII:7520829-7520909 ( 28) CTAGGCCA 1 chrII:5358389-5358469 ( 34) CTAGGCCA 1 chrII:3502814-3502894 ( 10) CTAGGCCA 1 chrIII:6158747-6158827 ( 3) CTAGGCCA 1 chrV:13468324-13468404 ( 48) CTAGGCCA 1 chrI:5316224-5316304 ( 72) CTAGGCCA 1 chrII:13117244-13117324 ( 71) CTAGGCCA 1 chrV:10356068-10356148 ( 70) CTAGGCCA 1 chrI:11322096-11322176 ( 34) CTAGGCCA 1 chrII:11484801-11484881 ( 6) CTCGGCCA 1 chrII:5105229-5105309 ( 53) CTCGGCCA 1 chrX:353302-353382 ( 20) CTCGGCCA 1 chrX:6903175-6903255 ( 6) CTCGGCCA 1 chrIII:11371417-11371497 ( 50) CTCGGCCA 1 chrIV:192219-192299 ( 21) CTCGGCCA 1 chrII:14635348-14635428 ( 54) CTCGGCCA 1 chrI:8259547-8259627 ( 8) CTAGACCA 1 chrX:13511969-13512049 ( 58) CTAGACCA 1 chrX:9467751-9467831 ( 35) CTAGACCA 1 chrX:1880846-1880926 ( 28) CTAGACCA 1 chrI:8530126-8530206 ( 59) CTAGACCA 1 chrIII:8650393-8650473 ( 45) CTAGACCA 1 chrIII:4470919-4470999 ( 33) CGCGGCCA 1 chrX:11252583-11252663 ( 73) CGCGGCCA 1 chrX:6220097-6220177 ( 39) CGCGGCCA 1 chrIII:7199001-7199081 ( 38) CGCGGCCA 1 chrIV:9477735-9477815 ( 2) CCAGGCCA 1 chrII:11959430-11959510 ( 4) CCCGGCCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTMGGCCA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.95252 E= 7.5e-011 -1145 210 -1145 -1145 -1145 -170 -73 156 112 88 -1145 -1145 -1145 -1145 207 -1145 -30 -1145 172 -1145 -1145 210 -1145 -1145 -1145 210 -1145 -1145 192 -1145 -1145 -1145 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTMGGCCA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 28 E= 7.5e-011 0.000000 1.000000 0.000000 0.000000 0.000000 0.071429 0.142857 0.785714 0.571429 0.428571 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.214286 0.000000 0.785714 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTMGGCCA MEME-1 regular expression -------------------------------------------------------------------------------- CT[AC]G[GA]CCA -------------------------------------------------------------------------------- Time 5.63 secs. ******************************************************************************** ******************************************************************************** MOTIF GCGCGCKC MEME-2 width = 8 sites = 53 llr = 413 E-value = 5.6e-009 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCGCGCKC MEME-2 Description -------------------------------------------------------------------------------- Simplified A :2::::2: pos.-specific C 15:a:a17 probability G 9:a:a:52 matrix T :2::::31 bits 2.1 * * 1.9 **** 1.7 * **** 1.5 * **** Relative 1.3 * **** Entropy 1.1 * **** (11.3 bits) 0.8 * **** * 0.6 ****** * 0.4 ****** * 0.2 ******** 0.0 -------- Multilevel GCGCGCGC consensus A TG sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCGCKC MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:9970254-9970334 61 9.30e-06 CAAGAACGAC GCGCGCGC CTCTTCCCCA chrIII:5555095-5555175 42 9.30e-06 TGCGCAAAAA GCGCGCGC ACATTGCGTT chrV:6709229-6709309 13 9.30e-06 TCTGCAACGC GCGCGCGC GTTTTTCGCA chrV:4731549-4731629 53 9.30e-06 GCAAAAACGC GCGCGCGC ATTGCATGTA chrI:14721617-14721697 2 9.30e-06 T GCGCGCGC GCGGTTTTCG chrIII:3916797-3916877 35 9.30e-06 TGCAAACACT GCGCGCGC AGCTTGCAAG chrII:7708708-7708788 46 9.30e-06 ACAATGCAAT GCGCGCGC ACGGTTTTTG chrIII:11142246-11142326 61 1.97e-05 GAAATTGCAA GCGCGCTC TACTGCAAGG chrX:1837859-1837939 14 1.97e-05 GGAGCGCCAG GCGCGCTC GCCACTCGGC chrII:14063259-14063339 64 1.97e-05 CTCCTCGCAA GCGCGCTC CACTGACAT chrII:5105229-5105309 35 3.02e-05 TCAATTCGTA GAGCGCGC ACGCTAACCA chrIII:10461273-10461353 24 6.07e-05 TGTGTAAAAT GCGCGCGG CACACTTGCG chrV:12870109-12870189 26 6.07e-05 AAGAGAAAAC GCGCGCAC TTCCTCTGCC chrV:13962154-13962234 52 6.07e-05 TGCATAAACT GCGCGCGG CAACTGCAAA chrIII:4171136-4171216 28 6.07e-05 AATGTCATCT GCGCGCGG CATATCTGCA chrV:9503534-9503614 48 7.25e-05 CTCAGGGGTA GAGCGCTC GCTTCGCATG chrX:6292296-6292376 26 7.25e-05 CATGCAAAGC GAGCGCTC TACCCCTGAG chrX:9637823-9637903 73 7.25e-05 CATGCTAAGG GAGCGCTC chrX:9622799-9622879 69 7.25e-05 CATGCTAAGG GAGCGCTC TACC chrIV:9316171-9316251 19 7.25e-05 CTAATAACGA GAGCGCTC GATAATGAAA chrV:14689471-14689551 1 8.31e-05 . GCGCGCGT TTTCTCTCAT chrIII:13268961-13269041 46 1.04e-04 TGCGAAAACT GCGCGCCC GCATTGCATA chrI:1416198-1416278 12 1.04e-04 CTCCTCTCAA GCGCGCCC CACCGCACTC chrIII:1962237-1962317 47 1.04e-04 GTCAAATATG GTGCGCTC GGTGTTTGCG chrI:11323312-11323392 69 1.04e-04 TGCAAATATC GCGCGCCC GCAT chrII:3482403-3482483 11 1.04e-04 TGTGGTGCAA GTGCGCTC TGTTGCGGAT chrI:2410110-2410190 58 1.15e-04 GTAAACTGTA GCGCGCTG GTTCGATCCC chrV:15002282-15002362 16 1.37e-04 CTGCACAGTG GAGCGCAC TTGCCACACA chrIV:2033199-2033279 4 1.37e-04 ATA GAGCGCAC TTGCAACTGA chrI:2996337-2996417 49 1.37e-04 ATTCTCAATG GAGCGCGG TTGCGTTACT chrV:13715441-13715521 7 1.37e-04 GCGGTA GAGCGCGG TTGCGTTGAC chrIII:8937683-8937763 48 1.60e-04 GCAATAGGTT GTGCGCAC AAACTGCGTC chrV:11610638-11610718 21 1.60e-04 TGCAAAAAAT GTGCGCGG GGGTTGCAGC chrI:14737423-14737503 68 1.60e-04 TGCAAAATGT GTGCGCAC CACTT chrIV:11310738-11310818 55 1.60e-04 AAGAGGAAAA GTGCGCGG CGGGCTTGCA chrIV:16946872-16946952 50 1.60e-04 AATAAATCCC GTGCGCAC CACTTGCAAA chrV:11239347-11239427 21 1.60e-04 CACGCAACCA GTGCGCGG GTTTTTTGCA chrII:7001478-7001558 59 1.60e-04 TTCTTCGCCT GTGCGCGG CAGTAAACTT chrIII:3664364-3664444 57 1.80e-04 TTGCAACACG CCGCGCGC ATTTCGCAAC chrV:19643191-19643271 28 2.04e-04 GGCGGCAGGC GAGCGCGT TAGCCACTAA chrI:8223080-8223160 56 2.04e-04 TTACTCAATA GAGCGCGT TTGCGAAAAA chrII:7072676-7072756 43 2.04e-04 ATTGGCTTTA GAGCGCGT TTGTATTTAA chrIII:8144720-8144800 17 2.38e-04 GAACAAAAAT GTGCGCGT GAGTATTGGC chrI:8259547-8259627 17 2.60e-04 ACTAGACCAC GCGCGCAT AGCATTGGAA chrIV:12559188-12559268 6 2.60e-04 AACTC GCGCGCAT TTTCTTGCAG chrI:1175838-1175918 40 2.60e-04 TGCAAAAACC GTGCGCCC ACCTTGCAAT chrIII:11290695-11290775 70 2.91e-04 GTCCCGGGTC GCGCCCGC GAA chrII:3502814-3502894 28 3.23e-04 CGAGTTGCAT CCGCGCTC CATTGCGAAT chrIII:4378658-4378738 38 3.23e-04 CAGAAGTACT GCACGCGC AGTTCTTAAT chrIII:4369665-4369745 20 4.13e-04 ACAAAAGCCA CCGCGCGG TGCAGTGGCC chrV:7231034-7231114 2 4.13e-04 C CCGCGCAC TTTTTATGCA chrIII:535326-535406 29 4.47e-04 TGTTTTCTAA GCGCCCTC CGGACGGCAT chrI:9268993-9269073 13 4.82e-04 AGCCACGTTC GCACGCTC GCCCCTCTGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCGCKC MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:9970254-9970334 9.3e-06 60_[+2]_12 chrIII:5555095-5555175 9.3e-06 41_[+2]_31 chrV:6709229-6709309 9.3e-06 12_[+2]_60 chrV:4731549-4731629 9.3e-06 52_[+2]_20 chrI:14721617-14721697 9.3e-06 1_[+2]_71 chrIII:3916797-3916877 9.3e-06 34_[+2]_38 chrII:7708708-7708788 9.3e-06 45_[+2]_27 chrIII:11142246-11142326 2e-05 60_[+2]_12 chrX:1837859-1837939 2e-05 13_[+2]_59 chrII:14063259-14063339 2e-05 63_[+2]_9 chrII:5105229-5105309 3e-05 34_[+2]_38 chrIII:10461273-10461353 6.1e-05 23_[+2]_49 chrV:12870109-12870189 6.1e-05 25_[+2]_47 chrV:13962154-13962234 6.1e-05 51_[+2]_21 chrIII:4171136-4171216 6.1e-05 27_[+2]_45 chrV:9503534-9503614 7.2e-05 47_[+2]_25 chrX:6292296-6292376 7.2e-05 25_[+2]_47 chrX:9637823-9637903 7.2e-05 72_[+2] chrX:9622799-9622879 7.2e-05 68_[+2]_4 chrIV:9316171-9316251 7.2e-05 18_[+2]_54 chrV:14689471-14689551 8.3e-05 [+2]_72 chrIII:13268961-13269041 0.0001 45_[+2]_27 chrI:1416198-1416278 0.0001 11_[+2]_61 chrIII:1962237-1962317 0.0001 46_[+2]_26 chrI:11323312-11323392 0.0001 68_[+2]_4 chrII:3482403-3482483 0.0001 10_[+2]_62 chrI:2410110-2410190 0.00011 57_[+2]_15 chrV:15002282-15002362 0.00014 15_[+2]_57 chrIV:2033199-2033279 0.00014 3_[+2]_69 chrI:2996337-2996417 0.00014 48_[+2]_24 chrV:13715441-13715521 0.00014 6_[+2]_66 chrIII:8937683-8937763 0.00016 47_[+2]_25 chrV:11610638-11610718 0.00016 20_[+2]_52 chrI:14737423-14737503 0.00016 67_[+2]_5 chrIV:11310738-11310818 0.00016 54_[+2]_18 chrIV:16946872-16946952 0.00016 49_[+2]_23 chrV:11239347-11239427 0.00016 20_[+2]_52 chrII:7001478-7001558 0.00016 58_[+2]_14 chrIII:3664364-3664444 0.00018 56_[+2]_16 chrV:19643191-19643271 0.0002 27_[+2]_45 chrI:8223080-8223160 0.0002 55_[+2]_17 chrII:7072676-7072756 0.0002 42_[+2]_30 chrIII:8144720-8144800 0.00024 16_[+2]_56 chrI:8259547-8259627 0.00026 16_[+2]_56 chrIV:12559188-12559268 0.00026 5_[+2]_67 chrI:1175838-1175918 0.00026 39_[+2]_33 chrIII:11290695-11290775 0.00029 69_[+2]_3 chrII:3502814-3502894 0.00032 27_[+2]_45 chrIII:4378658-4378738 0.00032 37_[+2]_35 chrIII:4369665-4369745 0.00041 19_[+2]_53 chrV:7231034-7231114 0.00041 1_[+2]_71 chrIII:535326-535406 0.00045 28_[+2]_44 chrI:9268993-9269073 0.00048 12_[+2]_60 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCGCKC MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCGCGCKC width=8 seqs=53 chrV:9970254-9970334 ( 61) GCGCGCGC 1 chrIII:5555095-5555175 ( 42) GCGCGCGC 1 chrV:6709229-6709309 ( 13) GCGCGCGC 1 chrV:4731549-4731629 ( 53) GCGCGCGC 1 chrI:14721617-14721697 ( 2) GCGCGCGC 1 chrIII:3916797-3916877 ( 35) GCGCGCGC 1 chrII:7708708-7708788 ( 46) GCGCGCGC 1 chrIII:11142246-11142326 ( 61) GCGCGCTC 1 chrX:1837859-1837939 ( 14) GCGCGCTC 1 chrII:14063259-14063339 ( 64) GCGCGCTC 1 chrII:5105229-5105309 ( 35) GAGCGCGC 1 chrIII:10461273-10461353 ( 24) GCGCGCGG 1 chrV:12870109-12870189 ( 26) GCGCGCAC 1 chrV:13962154-13962234 ( 52) GCGCGCGG 1 chrIII:4171136-4171216 ( 28) GCGCGCGG 1 chrV:9503534-9503614 ( 48) GAGCGCTC 1 chrX:6292296-6292376 ( 26) GAGCGCTC 1 chrX:9637823-9637903 ( 73) GAGCGCTC 1 chrX:9622799-9622879 ( 69) GAGCGCTC 1 chrIV:9316171-9316251 ( 19) GAGCGCTC 1 chrV:14689471-14689551 ( 1) GCGCGCGT 1 chrIII:13268961-13269041 ( 46) GCGCGCCC 1 chrI:1416198-1416278 ( 12) GCGCGCCC 1 chrIII:1962237-1962317 ( 47) GTGCGCTC 1 chrI:11323312-11323392 ( 69) GCGCGCCC 1 chrII:3482403-3482483 ( 11) GTGCGCTC 1 chrI:2410110-2410190 ( 58) GCGCGCTG 1 chrV:15002282-15002362 ( 16) GAGCGCAC 1 chrIV:2033199-2033279 ( 4) GAGCGCAC 1 chrI:2996337-2996417 ( 49) GAGCGCGG 1 chrV:13715441-13715521 ( 7) GAGCGCGG 1 chrIII:8937683-8937763 ( 48) GTGCGCAC 1 chrV:11610638-11610718 ( 21) GTGCGCGG 1 chrI:14737423-14737503 ( 68) GTGCGCAC 1 chrIV:11310738-11310818 ( 55) GTGCGCGG 1 chrIV:16946872-16946952 ( 50) GTGCGCAC 1 chrV:11239347-11239427 ( 21) GTGCGCGG 1 chrII:7001478-7001558 ( 59) GTGCGCGG 1 chrIII:3664364-3664444 ( 57) CCGCGCGC 1 chrV:19643191-19643271 ( 28) GAGCGCGT 1 chrI:8223080-8223160 ( 56) GAGCGCGT 1 chrII:7072676-7072756 ( 43) GAGCGCGT 1 chrIII:8144720-8144800 ( 17) GTGCGCGT 1 chrI:8259547-8259627 ( 17) GCGCGCAT 1 chrIV:12559188-12559268 ( 6) GCGCGCAT 1 chrI:1175838-1175918 ( 40) GTGCGCCC 1 chrIII:11290695-11290775 ( 70) GCGCCCGC 1 chrII:3502814-3502894 ( 28) CCGCGCTC 1 chrIII:4378658-4378738 ( 38) GCACGCGC 1 chrIII:4369665-4369745 ( 20) CCGCGCGG 1 chrV:7231034-7231114 ( 2) CCGCGCAC 1 chrIII:535326-535406 ( 29) GCGCCCTC 1 chrI:9268993-9269073 ( 13) GCACGCTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCGCKC MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.3679 E= 5.6e-009 -1237 -162 196 -1237 -10 124 -1237 -36 -280 -1237 202 -1237 -1237 211 -1237 -1237 -1237 -262 202 -1237 -1237 211 -1237 -1237 -63 -162 104 -1 -1237 151 -20 -101 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCGCKC MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 53 E= 5.6e-009 0.000000 0.075472 0.924528 0.000000 0.245283 0.547170 0.000000 0.207547 0.037736 0.000000 0.962264 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.037736 0.962264 0.000000 0.000000 1.000000 0.000000 0.000000 0.169811 0.075472 0.490566 0.264151 0.000000 0.660377 0.207547 0.132075 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCGCKC MEME-2 regular expression -------------------------------------------------------------------------------- G[CAT]GCGC[GT][CG] -------------------------------------------------------------------------------- Time 10.21 secs. ******************************************************************************** ******************************************************************************** MOTIF TCGAACCC MEME-3 width = 8 sites = 33 llr = 282 E-value = 4.7e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif TCGAACCC MEME-3 Description -------------------------------------------------------------------------------- Simplified A :::97::2 pos.-specific C :8:119a7 probability G ::a:1::: matrix T a2::11:1 bits 2.1 * 1.9 * * * 1.7 * ** ** 1.5 **** ** Relative 1.3 **** ** Entropy 1.1 **** *** (12.3 bits) 0.8 **** *** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TCGAACCC consensus A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:1379595-1379675 23 1.27e-05 TCGGGGGGAA TCGAACCC CCGTCGAATG chrI:9605815-9605895 4 1.27e-05 GGT TCGAACCC TGCTCGCTGC chrI:8530126-8530206 17 1.27e-05 TTGCGGGGAA TCGAACCC CGGCCTTATG chrIV:14576596-14576676 41 1.27e-05 TCGGGGGGAA TCGAACCC CCGTCGAATG chrIV:1388182-1388262 49 1.27e-05 ATGCCGGGAA TCGAACCC GGGCCGCGTG chrIII:8650393-8650473 3 1.27e-05 AA TCGAACCC GGGACCTCTC chrII:14635348-14635428 2 1.27e-05 T TCGAACCC ACGCCCCCGA chrX:2549506-2549586 37 2.71e-05 CCGGGTGGGC TCGAACCA CCAACCTTTC chrIII:7030505-7030585 67 2.71e-05 CATGCTGGAA TCGAACCA GCGACC chrX:13264650-13264730 48 2.71e-05 CGAACCGGAT TCGAACCA GTGACCTAAG chrI:3176526-3176606 35 2.71e-05 ATTGCTTGAT TCGAACCA TTTGTACTGA chrX:13511969-13512049 16 4.16e-05 GAACCGGGGA TTGAACCC GGGACCTCTC chrV:16592142-16592222 31 4.16e-05 TACGTGCAAA TTGAACCC CTTGGGAAAG chrX:9637823-9637903 44 4.16e-05 GTATGGGGAA TTGAACCC CAGCCCTCTC chrX:9622799-9622879 40 4.16e-05 GTATGGGGAA TTGAACCC CAGCCCTCTC chrI:12198603-12198683 54 5.44e-05 GATTGCAGGT TCGATCCC TGCCTGGGTC chrI:2410110-2410190 68 5.44e-05 GCGCGCTGGT TCGATCCC CACCA chrX:16298337-16298417 58 5.44e-05 GGTCGGCGGT TCGATCCC GCCCGAGATC chrII:5032768-5032848 57 6.56e-05 GGTCGCAGGT TCGACCCC TGCTGGCGGC chrII:12494743-12494823 53 6.56e-05 GGTCGCAGGT TCGACCCC TGCTGGCGGC chrII:6248667-6248747 35 6.56e-05 CAATGTAGGT TCGACCCC CGCTTTACTG chrI:13161091-13161171 24 7.71e-05 GGTCGGTGGT TCGAGCCC GCCCGAGATC chrV:19723040-19723120 45 7.71e-05 GGTTGGTGGT TCGAGCCC ACCCGGGAGC chrX:9467751-9467831 9 8.83e-05 GGGACCTC TCGCACCC AAAGCGAGAA chrX:1880846-1880926 2 8.83e-05 C TCGCACCC GAAGCGAGAA chrIV:11026143-11026223 15 1.03e-04 ACCGGTGGTG TCGAACCT GGGAGTATAA chrX:11252583-11252663 22 1.03e-04 ACGGCAGGAT TCGAACCT ACAATCTTCT chrIV:3524805-3524885 68 1.34e-04 GATTGCAGGT TCGAATCC TGCCG chrIII:11371417-11371497 8 1.34e-04 ATTGGTT TTGAACCA GTGACCTTCA chrIII:7199001-7199081 7 1.34e-04 CTCGAA TTGAACCA TTGGCCTAGA chrII:6721792-6721872 38 1.34e-04 GGGCGTGGGT TCGAATCC CACTCTCTTC chrIII:5294955-5295035 39 1.48e-04 GCGAGTGGTT TCGATCCA CCGACCTCTG chrIII:8678529-8678609 10 1.89e-04 GATCTGGAG TCGAACGC GCTACCATTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:1379595-1379675 1.3e-05 22_[+3]_50 chrI:9605815-9605895 1.3e-05 3_[+3]_69 chrI:8530126-8530206 1.3e-05 16_[+3]_56 chrIV:14576596-14576676 1.3e-05 40_[+3]_32 chrIV:1388182-1388262 1.3e-05 48_[+3]_24 chrIII:8650393-8650473 1.3e-05 2_[+3]_70 chrII:14635348-14635428 1.3e-05 1_[+3]_71 chrX:2549506-2549586 2.7e-05 36_[+3]_36 chrIII:7030505-7030585 2.7e-05 66_[+3]_6 chrX:13264650-13264730 2.7e-05 47_[+3]_25 chrI:3176526-3176606 2.7e-05 34_[+3]_38 chrX:13511969-13512049 4.2e-05 15_[+3]_57 chrV:16592142-16592222 4.2e-05 30_[+3]_42 chrX:9637823-9637903 4.2e-05 43_[+3]_29 chrX:9622799-9622879 4.2e-05 39_[+3]_33 chrI:12198603-12198683 5.4e-05 53_[+3]_19 chrI:2410110-2410190 5.4e-05 67_[+3]_5 chrX:16298337-16298417 5.4e-05 57_[+3]_15 chrII:5032768-5032848 6.6e-05 56_[+3]_16 chrII:12494743-12494823 6.6e-05 52_[+3]_20 chrII:6248667-6248747 6.6e-05 34_[+3]_38 chrI:13161091-13161171 7.7e-05 23_[+3]_49 chrV:19723040-19723120 7.7e-05 44_[+3]_28 chrX:9467751-9467831 8.8e-05 8_[+3]_64 chrX:1880846-1880926 8.8e-05 1_[+3]_71 chrIV:11026143-11026223 0.0001 14_[+3]_58 chrX:11252583-11252663 0.0001 21_[+3]_51 chrIV:3524805-3524885 0.00013 67_[+3]_5 chrIII:11371417-11371497 0.00013 7_[+3]_65 chrIII:7199001-7199081 0.00013 6_[+3]_66 chrII:6721792-6721872 0.00013 37_[+3]_35 chrIII:5294955-5295035 0.00015 38_[+3]_34 chrIII:8678529-8678609 0.00019 9_[+3]_63 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TCGAACCC width=8 seqs=33 chrX:1379595-1379675 ( 23) TCGAACCC 1 chrI:9605815-9605895 ( 4) TCGAACCC 1 chrI:8530126-8530206 ( 17) TCGAACCC 1 chrIV:14576596-14576676 ( 41) TCGAACCC 1 chrIV:1388182-1388262 ( 49) TCGAACCC 1 chrIII:8650393-8650473 ( 3) TCGAACCC 1 chrII:14635348-14635428 ( 2) TCGAACCC 1 chrX:2549506-2549586 ( 37) TCGAACCA 1 chrIII:7030505-7030585 ( 67) TCGAACCA 1 chrX:13264650-13264730 ( 48) TCGAACCA 1 chrI:3176526-3176606 ( 35) TCGAACCA 1 chrX:13511969-13512049 ( 16) TTGAACCC 1 chrV:16592142-16592222 ( 31) TTGAACCC 1 chrX:9637823-9637903 ( 44) TTGAACCC 1 chrX:9622799-9622879 ( 40) TTGAACCC 1 chrI:12198603-12198683 ( 54) TCGATCCC 1 chrI:2410110-2410190 ( 68) TCGATCCC 1 chrX:16298337-16298417 ( 58) TCGATCCC 1 chrII:5032768-5032848 ( 57) TCGACCCC 1 chrII:12494743-12494823 ( 53) TCGACCCC 1 chrII:6248667-6248747 ( 35) TCGACCCC 1 chrI:13161091-13161171 ( 24) TCGAGCCC 1 chrV:19723040-19723120 ( 45) TCGAGCCC 1 chrX:9467751-9467831 ( 9) TCGCACCC 1 chrX:1880846-1880926 ( 2) TCGCACCC 1 chrIV:11026143-11026223 ( 15) TCGAACCT 1 chrX:11252583-11252663 ( 22) TCGAACCT 1 chrIV:3524805-3524885 ( 68) TCGAATCC 1 chrIII:11371417-11371497 ( 8) TTGAACCA 1 chrIII:7199001-7199081 ( 7) TTGAACCA 1 chrII:6721792-6721872 ( 38) TCGAATCC 1 chrIII:5294955-5295035 ( 39) TCGATCCA 1 chrIII:8678529-8678609 ( 10) TCGAACGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.14407 E= 4.7e-004 -1169 -1169 -1169 191 -1169 182 -1169 -55 -1169 -1169 207 -1169 183 -194 -1169 -1169 147 -135 -197 -114 -1169 201 -1169 -214 -1169 206 -297 -1169 -31 165 -1169 -214 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 33 E= 4.7e-004 0.000000 0.000000 0.000000 1.000000 0.000000 0.818182 0.000000 0.181818 0.000000 0.000000 1.000000 0.000000 0.939394 0.060606 0.000000 0.000000 0.727273 0.090909 0.060606 0.121212 0.000000 0.939394 0.000000 0.060606 0.000000 0.969697 0.030303 0.000000 0.212121 0.727273 0.000000 0.060606 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-3 regular expression -------------------------------------------------------------------------------- TCGAACC[CA] -------------------------------------------------------------------------------- Time 13.90 secs. ******************************************************************************** ******************************************************************************** MOTIF TTKCGMAA MEME-4 width = 8 sites = 51 llr = 408 E-value = 4.9e-010 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTKCGMAA MEME-4 Description -------------------------------------------------------------------------------- Simplified A 1:::259a pos.-specific C :::8:51: probability G ::5:8::: matrix T 9a52:::: bits 2.1 1.9 * * 1.7 * * 1.5 ** * ** Relative 1.3 ** ** ** Entropy 1.1 ******** (11.5 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TTGCGAAA consensus T AC sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCGMAA MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:2809745-2809825 23 1.49e-05 ACGTCAATAT TTGCGCAA GCGACGAACA chrIII:10707215-10707295 23 1.49e-05 CAGTTGATGA TTGCGCAA ACGAGTGGCT chrI:5986313-5986393 30 1.49e-05 TTGTTACAAA TTGCGCAA GTGCAACCAC chrIII:5555095-5555175 31 1.49e-05 CGCGGGGCAC TTGCGCAA AAAGCGCGCG chrI:1958519-1958599 38 1.49e-05 TGCGGCGGTG TTGCGCAA CGGTGTGCGG chrIII:10461273-10461353 37 4.85e-05 CGCGGCACAC TTGCGAAA CCCTGTGCGG chrX:12563816-12563896 53 4.85e-05 AATTTCTTTT TTGCGAAA AAGTATTGGC chrIII:13268961-13269041 35 4.85e-05 TGCCGCACAC TTGCGAAA ACTGCGCGCC chrI:1444194-1444274 9 4.85e-05 CGCGCACT TTTCGCAA CCCCAGCGCA chrI:8223080-8223160 64 4.85e-05 TAGAGCGCGT TTGCGAAA AACATTTTG chrV:6709229-6709309 24 4.85e-05 CGCGCGCGTT TTTCGCAA CGCCACCGCA chrV:11113364-11113444 10 4.85e-05 ggcacgcgt tttcgcaa gtctgccgca chrI:5176400-5176480 37 4.85e-05 TGTGCGCATG TTGCGAAA TACCATGCGG chrII:4238032-4238112 59 4.85e-05 TGCGGCACAC TTGCGAAA ATGCGTGCGG chrI:14721617-14721697 15 4.85e-05 CGCGCGCGGT TTTCGCAA TATCGCCGCA chrV:1821444-1821524 24 4.85e-05 CGGCACGCGT TTTCGCAA TCTGCGCACA chrV:3587783-3587863 43 4.85e-05 CGGCGCGCGA TTTCGCAA CTCCGCCGCA chrIII:3664364-3664444 66 4.85e-05 GCCGCGCGCA TTTCGCAA CGCTGCC chrIV:9316171-9316251 62 4.85e-05 TGCGGCGGAA TTGCGAAA GCATGCGCCG chrV:10356068-10356148 6 6.74e-05 TATTA TTTCGAAA ACACCTTGTC chrII:6898273-6898353 23 6.74e-05 TGCTGTCACA TTTCGAAA AGTTTATTTT chrIII:11290695-11290775 2 6.74e-05 T TTTCGAAA TATCCTTGTC chrV:11610638-11610718 10 1.21e-04 GCGCTCATC TTGCAAAA AATGTGCGCG chrI:14737423-14737503 57 1.21e-04 TGCGAGCCCT TTGCAAAA TGTGTGCGCA chrV:11039715-11039795 45 1.21e-04 CTGTTTTTAT TTGCAAAA CACAAGTCCG chrV:4731549-4731629 41 1.21e-04 TGCGGGGACA TTGCAAAA ACGCGCGCGC chrI:11323312-11323392 11 1.21e-04 GCTTTTTTTT TTGCAAAA TAAAATAAAA chrII:14528465-14528545 44 1.21e-04 AAAAATGTAT TTTCACAA TAAGTGTATA chrI:1175838-1175918 29 1.21e-04 TGCGGCACAC TTGCAAAA ACCGTGCGCC chrIII:11792827-11792907 42 1.42e-04 GTTGGATTTT TTTCAAAA AAGTAGGATA chrI:9393668-9393748 26 1.42e-04 GCAGGATATT TTTCAAAA TTTAAACACA chrII:14144008-14144088 42 1.42e-04 TGTTTGAGTA TTTCAAAA TGAAGATAGA chrX:14478661-14478741 7 1.42e-04 CGTTGT TTTCAAAA GTACCCATTT chrI:10026063-10026143 42 1.42e-04 TACTGCCAAT TTTCAAAA ACGGAATTCT chrIII:11091754-11091834 42 1.59e-04 ACGTGCCTTG TTGTGCAA GAAGCTCCTT chrII:5358389-5358469 63 1.98e-04 CCAAAAAACT TTTTGCAA TTTTTGCTCT chrIV:9074390-9074470 33 1.98e-04 GCGGCCGCGT TTGTGAAA GTTCTTCCAT chrIII:4414247-4414327 39 1.98e-04 TCCAAATTTT TTGTGAAA TTTTCTATAA chrIII:1424549-1424629 34 1.98e-04 ATTTTTCTTG TTTTGCAA GGTTCGGCGG chrI:11505565-11505645 64 1.98e-04 CCCTAAATAA TTTTGCAA TTTTTCATT chrV:11239347-11239427 32 1.98e-04 TGCGCGGGTT TTTTGCAA CCCCGCCGCA chrII:7708708-7708788 59 1.98e-04 CGCGCACGGT TTTTGCAA TTCTCCCGCA chrIII:8678529-8678609 25 2.32e-04 CGCGCTACCA TTGCGCCA AGCAGTCACG chrV:12596899-12596979 56 2.32e-04 GGAAAATCGC TTGCGCCA CTGAACGACT chrX:11252583-11252663 65 2.32e-04 GCGTTATCCA TTGCGCCA CGCGGCCA chrX:6220097-6220177 31 2.32e-04 GCGTTATCCA TTGCGCCA CGCGGCCACA chrV:13396605-13396685 19 2.79e-04 GGAGGGCATC TTTCGACA AGTGCGGGAA chrIII:8971774-8971854 31 2.93e-04 TAATCGAGAA ATGCGCAA GGTACACGAA chrV:15002282-15002362 49 3.27e-04 CACTTTATCG ATTCGCAA GCAAACAGCT chrV:12870109-12870189 61 3.45e-04 TTGCGCGGAA ATTCGAAA AAAGAGAGTG chrIII:4378658-4378738 63 3.45e-04 AATGCTGATA ATTCGAAA CTTAGTATTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCGMAA MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:2809745-2809825 1.5e-05 22_[+4]_50 chrIII:10707215-10707295 1.5e-05 22_[+4]_50 chrI:5986313-5986393 1.5e-05 29_[+4]_43 chrIII:5555095-5555175 1.5e-05 30_[+4]_42 chrI:1958519-1958599 1.5e-05 37_[+4]_35 chrIII:10461273-10461353 4.9e-05 36_[+4]_36 chrX:12563816-12563896 4.9e-05 52_[+4]_20 chrIII:13268961-13269041 4.9e-05 34_[+4]_38 chrI:1444194-1444274 4.9e-05 8_[+4]_64 chrI:8223080-8223160 4.9e-05 63_[+4]_9 chrV:6709229-6709309 4.9e-05 23_[+4]_49 chrV:11113364-11113444 4.9e-05 9_[+4]_63 chrI:5176400-5176480 4.9e-05 36_[+4]_36 chrII:4238032-4238112 4.9e-05 58_[+4]_14 chrI:14721617-14721697 4.9e-05 14_[+4]_58 chrV:1821444-1821524 4.9e-05 23_[+4]_49 chrV:3587783-3587863 4.9e-05 42_[+4]_30 chrIII:3664364-3664444 4.9e-05 65_[+4]_7 chrIV:9316171-9316251 4.9e-05 61_[+4]_11 chrV:10356068-10356148 6.7e-05 5_[+4]_67 chrII:6898273-6898353 6.7e-05 22_[+4]_50 chrIII:11290695-11290775 6.7e-05 1_[+4]_71 chrV:11610638-11610718 0.00012 9_[+4]_63 chrI:14737423-14737503 0.00012 56_[+4]_16 chrV:11039715-11039795 0.00012 44_[+4]_28 chrV:4731549-4731629 0.00012 40_[+4]_32 chrI:11323312-11323392 0.00012 10_[+4]_62 chrII:14528465-14528545 0.00012 43_[+4]_29 chrI:1175838-1175918 0.00012 28_[+4]_44 chrIII:11792827-11792907 0.00014 41_[+4]_31 chrI:9393668-9393748 0.00014 25_[+4]_47 chrII:14144008-14144088 0.00014 41_[+4]_31 chrX:14478661-14478741 0.00014 6_[+4]_66 chrI:10026063-10026143 0.00014 41_[+4]_31 chrIII:11091754-11091834 0.00016 41_[+4]_31 chrII:5358389-5358469 0.0002 62_[+4]_10 chrIV:9074390-9074470 0.0002 32_[+4]_40 chrIII:4414247-4414327 0.0002 38_[+4]_34 chrIII:1424549-1424629 0.0002 33_[+4]_39 chrI:11505565-11505645 0.0002 63_[+4]_9 chrV:11239347-11239427 0.0002 31_[+4]_41 chrII:7708708-7708788 0.0002 58_[+4]_14 chrIII:8678529-8678609 0.00023 24_[+4]_48 chrV:12596899-12596979 0.00023 55_[+4]_17 chrX:11252583-11252663 0.00023 64_[+4]_8 chrX:6220097-6220177 0.00023 30_[+4]_42 chrV:13396605-13396685 0.00028 18_[+4]_54 chrIII:8971774-8971854 0.00029 30_[+4]_42 chrV:15002282-15002362 0.00033 48_[+4]_24 chrV:12870109-12870189 0.00035 60_[+4]_12 chrIII:4378658-4378738 0.00035 62_[+4]_10 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCGMAA MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTKCGMAA width=8 seqs=51 chrX:2809745-2809825 ( 23) TTGCGCAA 1 chrIII:10707215-10707295 ( 23) TTGCGCAA 1 chrI:5986313-5986393 ( 30) TTGCGCAA 1 chrIII:5555095-5555175 ( 31) TTGCGCAA 1 chrI:1958519-1958599 ( 38) TTGCGCAA 1 chrIII:10461273-10461353 ( 37) TTGCGAAA 1 chrX:12563816-12563896 ( 53) TTGCGAAA 1 chrIII:13268961-13269041 ( 35) TTGCGAAA 1 chrI:1444194-1444274 ( 9) TTTCGCAA 1 chrI:8223080-8223160 ( 64) TTGCGAAA 1 chrV:6709229-6709309 ( 24) TTTCGCAA 1 chrV:11113364-11113444 ( 10) TTTCGCAA 1 chrI:5176400-5176480 ( 37) TTGCGAAA 1 chrII:4238032-4238112 ( 59) TTGCGAAA 1 chrI:14721617-14721697 ( 15) TTTCGCAA 1 chrV:1821444-1821524 ( 24) TTTCGCAA 1 chrV:3587783-3587863 ( 43) TTTCGCAA 1 chrIII:3664364-3664444 ( 66) TTTCGCAA 1 chrIV:9316171-9316251 ( 62) TTGCGAAA 1 chrV:10356068-10356148 ( 6) TTTCGAAA 1 chrII:6898273-6898353 ( 23) TTTCGAAA 1 chrIII:11290695-11290775 ( 2) TTTCGAAA 1 chrV:11610638-11610718 ( 10) TTGCAAAA 1 chrI:14737423-14737503 ( 57) TTGCAAAA 1 chrV:11039715-11039795 ( 45) TTGCAAAA 1 chrV:4731549-4731629 ( 41) TTGCAAAA 1 chrI:11323312-11323392 ( 11) TTGCAAAA 1 chrII:14528465-14528545 ( 44) TTTCACAA 1 chrI:1175838-1175918 ( 29) TTGCAAAA 1 chrIII:11792827-11792907 ( 42) TTTCAAAA 1 chrI:9393668-9393748 ( 26) TTTCAAAA 1 chrII:14144008-14144088 ( 42) TTTCAAAA 1 chrX:14478661-14478741 ( 7) TTTCAAAA 1 chrI:10026063-10026143 ( 42) TTTCAAAA 1 chrIII:11091754-11091834 ( 42) TTGTGCAA 1 chrII:5358389-5358469 ( 63) TTTTGCAA 1 chrIV:9074390-9074470 ( 33) TTGTGAAA 1 chrIII:4414247-4414327 ( 39) TTGTGAAA 1 chrIII:1424549-1424629 ( 34) TTTTGCAA 1 chrI:11505565-11505645 ( 64) TTTTGCAA 1 chrV:11239347-11239427 ( 32) TTTTGCAA 1 chrII:7708708-7708788 ( 59) TTTTGCAA 1 chrIII:8678529-8678609 ( 25) TTGCGCCA 1 chrV:12596899-12596979 ( 56) TTGCGCCA 1 chrX:11252583-11252663 ( 65) TTGCGCCA 1 chrX:6220097-6220177 ( 31) TTGCGCCA 1 chrV:13396605-13396685 ( 19) TTTCGACA 1 chrIII:8971774-8971854 ( 31) ATGCGCAA 1 chrV:15002282-15002362 ( 49) ATTCGCAA 1 chrV:12870109-12870189 ( 61) ATTCGAAA 1 chrIII:4378658-4378738 ( 63) ATTCGAAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCGMAA MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 8.99089 E= 4.9e-010 -175 -1232 -1232 179 -1232 -1232 -1232 191 -1232 -1232 110 88 -1232 186 -1232 -76 -16 -1232 168 -1232 95 108 -1232 -1232 178 -124 -1232 -1232 193 -1232 -1232 -1232 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCGMAA MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 51 E= 4.9e-010 0.078431 0.000000 0.000000 0.921569 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.509804 0.490196 0.000000 0.843137 0.000000 0.156863 0.235294 0.000000 0.764706 0.000000 0.509804 0.490196 0.000000 0.000000 0.901961 0.098039 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCGMAA MEME-4 regular expression -------------------------------------------------------------------------------- TT[GT]C[GA][AC]AA -------------------------------------------------------------------------------- Time 17.45 secs. ******************************************************************************** ******************************************************************************** MOTIF GCMGCRYG MEME-5 width = 8 sites = 35 llr = 294 E-value = 2.8e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCMGCRYG MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::3:34:: pos.-specific C :a5:7:4: probability G a:2a:6:a matrix T ::::::6: bits 2.1 ** * * 1.9 ** * * 1.7 ** * * 1.5 ** * * Relative 1.3 ** * * Entropy 1.1 ** ***** (12.1 bits) 0.8 ** ***** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GCCGCGTG consensus A AAC sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMGCRYG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:3524805-3524885 15 1.07e-05 GTGGTGTCTG GCCGCGTG GCGCAATGGA chrII:9566178-9566258 64 1.07e-05 GGTTTTCATG GCCGCGTG GCCTAATGG chrX:5707973-5708053 6 1.07e-05 GAGCG GCCGCGTG TGGCGAGTAT chrIV:1388182-1388262 59 1.07e-05 TCGAACCCGG GCCGCGTG GGTGAAAACC chrII:11484801-11484881 26 4.38e-05 AATGCAGTCG GCAGCGTG TCTCTAAAGA chrV:8631590-8631670 2 4.38e-05 T GCCGCATG GTTTTATGTT chrV:11113364-11113444 22 4.38e-05 tcgcaagtct gccgcatg tctctcTGGG chrIV:16415242-16415322 37 4.38e-05 GGAGTACACG GCAGCGTG GCCTAGAAAA chrX:3348015-3348095 30 4.38e-05 CACAACAACA GCAGCGTG GTTGAGTGGT chrV:11239347-11239427 44 4.38e-05 TTGCAACCCC GCCGCATG CGGTAGTTAC chrX:9296758-9296838 22 4.38e-05 CATGCAACCC GCCGCATG GTGTTTTGCC chrII:6853144-6853224 69 5.59e-05 CGGTGAGATG GCCGAGTG GTCT chrV:53435-53515 50 5.59e-05 gtttcgcatg gccgagtg gttagtacgt chrX:11935140-11935220 73 5.59e-05 GAGTGGGGCG GCCGAGTG chrX:15741986-15742066 73 5.59e-05 CGCCGTTCTG GCCGAGTG chrIII:11290695-11290775 42 5.59e-05 ACACCGGGTG GCCGAGTG GGGATTTCTA chrIII:8106626-8106706 45 8.76e-05 AGCGCAGTAG GCAGCGCG TCAGTCTCAT chrV:9970254-9970334 22 8.76e-05 CGCCCAAATA GCAGCGCG CGAGGGTCGA chrX:3697737-3697817 37 8.76e-05 AGCGCAGTAG GCAGCGCG TCAGTCTCAT chrIII:8768043-8768123 42 8.76e-05 AGTAAACTGT GCGGCGTG TTTGCGGAAA chrI:14721617-14721697 27 8.76e-05 TCGCAATATC GCCGCACG GAGTTGCCGT chrV:7231034-7231114 25 8.76e-05 ATGCAATGCT GCCGCACG AATTCCTCTC chrIII:6805547-6805627 39 8.76e-05 GGCGCAATAG GCAGCGCG TTCGGCTGTT chrV:19723040-19723120 9 8.76e-05 CGCAATAG GCAGCGCG TTCGGCTGTT chrII:4238032-4238112 73 1.08e-04 GAAAATGCGT GCGGCGCG chrI:2996337-2996417 71 1.08e-04 GTTACTATTT GCGGCGCG AG chrV:3587783-3587863 32 1.08e-04 AGCGCAATCC GCGGCGCG CGATTTCGCA chrIV:14225038-14225118 65 1.48e-04 GGAAACGGTG GCCGAATG GTCTAGTG chrX:3969516-3969596 41 1.48e-04 GAAACATGTG GCCGAATG GTCTAGTGGT chrV:12780417-12780497 46 1.72e-04 CTCGGACATC GCAGCACG CCATTTCAAC chrX:2549506-2549586 63 2.08e-04 TCGGTTAACA GCCGAACG CGCTGCCTAT chrIV:5537994-5538074 2 2.08e-04 T GCGGAGTG CTCGAAATTT chrV:1821444-1821524 13 2.18e-04 CATGCAAGGC GCGGCACG CGTTTTCGCA chrII:8107311-8107391 23 2.71e-04 CCACAAGACG GCGGAATG ATGGAATCAA chrIV:9191322-9191402 31 2.71e-04 CCAGCGGCCT GCAGAACG ACACTCGAAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMGCRYG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:3524805-3524885 1.1e-05 14_[+5]_58 chrII:9566178-9566258 1.1e-05 63_[+5]_9 chrX:5707973-5708053 1.1e-05 5_[+5]_67 chrIV:1388182-1388262 1.1e-05 58_[+5]_14 chrII:11484801-11484881 4.4e-05 25_[+5]_47 chrV:8631590-8631670 4.4e-05 1_[+5]_71 chrV:11113364-11113444 4.4e-05 21_[+5]_51 chrIV:16415242-16415322 4.4e-05 36_[+5]_36 chrX:3348015-3348095 4.4e-05 29_[+5]_43 chrV:11239347-11239427 4.4e-05 43_[+5]_29 chrX:9296758-9296838 4.4e-05 21_[+5]_51 chrII:6853144-6853224 5.6e-05 68_[+5]_4 chrV:53435-53515 5.6e-05 49_[+5]_23 chrX:11935140-11935220 5.6e-05 72_[+5] chrX:15741986-15742066 5.6e-05 72_[+5] chrIII:11290695-11290775 5.6e-05 41_[+5]_31 chrIII:8106626-8106706 8.8e-05 44_[+5]_28 chrV:9970254-9970334 8.8e-05 21_[+5]_51 chrX:3697737-3697817 8.8e-05 36_[+5]_36 chrIII:8768043-8768123 8.8e-05 41_[+5]_31 chrI:14721617-14721697 8.8e-05 26_[+5]_46 chrV:7231034-7231114 8.8e-05 24_[+5]_48 chrIII:6805547-6805627 8.8e-05 38_[+5]_34 chrV:19723040-19723120 8.8e-05 8_[+5]_64 chrII:4238032-4238112 0.00011 72_[+5] chrI:2996337-2996417 0.00011 70_[+5]_2 chrV:3587783-3587863 0.00011 31_[+5]_41 chrIV:14225038-14225118 0.00015 64_[+5]_8 chrX:3969516-3969596 0.00015 40_[+5]_32 chrV:12780417-12780497 0.00017 45_[+5]_27 chrX:2549506-2549586 0.00021 62_[+5]_10 chrIV:5537994-5538074 0.00021 1_[+5]_71 chrV:1821444-1821524 0.00022 12_[+5]_60 chrII:8107311-8107391 0.00027 22_[+5]_50 chrIV:9191322-9191402 0.00027 30_[+5]_42 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMGCRYG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCMGCRYG width=8 seqs=35 chrIV:3524805-3524885 ( 15) GCCGCGTG 1 chrII:9566178-9566258 ( 64) GCCGCGTG 1 chrX:5707973-5708053 ( 6) GCCGCGTG 1 chrIV:1388182-1388262 ( 59) GCCGCGTG 1 chrII:11484801-11484881 ( 26) GCAGCGTG 1 chrV:8631590-8631670 ( 2) GCCGCATG 1 chrV:11113364-11113444 ( 22) GCCGCATG 1 chrIV:16415242-16415322 ( 37) GCAGCGTG 1 chrX:3348015-3348095 ( 30) GCAGCGTG 1 chrV:11239347-11239427 ( 44) GCCGCATG 1 chrX:9296758-9296838 ( 22) GCCGCATG 1 chrII:6853144-6853224 ( 69) GCCGAGTG 1 chrV:53435-53515 ( 50) GCCGAGTG 1 chrX:11935140-11935220 ( 73) GCCGAGTG 1 chrX:15741986-15742066 ( 73) GCCGAGTG 1 chrIII:11290695-11290775 ( 42) GCCGAGTG 1 chrIII:8106626-8106706 ( 45) GCAGCGCG 1 chrV:9970254-9970334 ( 22) GCAGCGCG 1 chrX:3697737-3697817 ( 37) GCAGCGCG 1 chrIII:8768043-8768123 ( 42) GCGGCGTG 1 chrI:14721617-14721697 ( 27) GCCGCACG 1 chrV:7231034-7231114 ( 25) GCCGCACG 1 chrIII:6805547-6805627 ( 39) GCAGCGCG 1 chrV:19723040-19723120 ( 9) GCAGCGCG 1 chrII:4238032-4238112 ( 73) GCGGCGCG 1 chrI:2996337-2996417 ( 71) GCGGCGCG 1 chrV:3587783-3587863 ( 32) GCGGCGCG 1 chrIV:14225038-14225118 ( 65) GCCGAATG 1 chrX:3969516-3969596 ( 41) GCCGAATG 1 chrV:12780417-12780497 ( 46) GCAGCACG 1 chrX:2549506-2549586 ( 63) GCCGAACG 1 chrIV:5537994-5538074 ( 2) GCGGAGTG 1 chrV:1821444-1821524 ( 13) GCGGCACG 1 chrII:8107311-8107391 ( 23) GCGGAATG 1 chrIV:9191322-9191402 ( 31) GCAGAACG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMGCRYG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.8043 E= 2.8e-003 -1177 -1177 207 -1177 -1177 210 -1177 -1177 12 115 -25 -1177 -1177 -1177 207 -1177 26 156 -1177 -1177 50 -1177 140 -1177 -1177 78 -1177 117 -1177 -1177 207 -1177 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMGCRYG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 35 E= 2.8e-003 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.285714 0.514286 0.200000 0.000000 0.000000 0.000000 1.000000 0.000000 0.314286 0.685714 0.000000 0.000000 0.371429 0.000000 0.628571 0.000000 0.000000 0.400000 0.000000 0.600000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMGCRYG MEME-5 regular expression -------------------------------------------------------------------------------- GC[CAG]G[CA][GA][TC]G -------------------------------------------------------------------------------- Time 20.91 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:265283-265363 6.06e-01 80 chrIII:3499981-3500061 2.60e-01 80 chrV:11933445-11933525 6.58e-01 80 chrIII:3476304-3476384 6.93e-01 80 chrII:14635348-14635428 2.83e-04 1_[+3(1.27e-05)]_44_[+1(2.45e-05)]_\ 19 chrI:1575659-1575739 8.26e-02 80 chrX:9296758-9296838 7.81e-03 21_[+5(4.38e-05)]_51 chrI:1175838-1175918 1.41e-02 80 chrII:6721792-6721872 7.29e-02 80 chrX:5816460-5816540 5.61e-01 80 chrIV:9316171-9316251 2.24e-03 18_[+2(7.25e-05)]_35_[+4(4.85e-05)]_\ 11 chrII:5836569-5836649 6.94e-01 80 chrIII:640501-640581 8.03e-01 80 chrIII:3664364-3664444 3.43e-05 55_[+5(2.00e-05)]_2_[+4(4.85e-05)]_\ 7 chrV:13396605-13396685 2.25e-01 80 chrX:8155858-8155938 7.73e-01 80 chrII:12042349-12042429 2.68e-01 80 chrIII:8971774-8971854 1.56e-01 80 chrX:8638915-8638995 1.50e-01 80 chrI:1415987-1416067 9.23e-01 80 chrI:3350044-3350124 6.27e-01 80 chrI:2487808-2487888 9.32e-01 80 chrV:14689471-14689551 3.04e-02 [+2(8.31e-05)]_72 chrI:10026063-10026143 1.27e-02 80 chrII:6828958-6829038 3.81e-01 80 chrV:19723040-19723120 3.30e-04 8_[+5(8.76e-05)]_28_[+3(7.71e-05)]_\ 28 chrIII:11290695-11290775 2.30e-05 1_[+4(6.74e-05)]_32_[+5(5.59e-05)]_\ 31 chrII:14528465-14528545 4.70e-01 80 chrIII:6805547-6805627 2.32e-02 38_[+5(8.76e-05)]_34 chrII:7708708-7708788 1.16e-03 45_[+2(9.30e-06)]_27 chrI:1823185-1823265 3.82e-01 80 chrI:9268993-9269073 5.82e-02 80 chrV:16553074-16553154 8.09e-01 80 chrV:7231034-7231114 8.29e-03 24_[+5(8.76e-05)]_48 chrIII:3476504-3476584 8.23e-01 80 chrV:3587783-3587863 1.90e-03 42_[+4(4.85e-05)]_30 chrII:7001478-7001558 5.00e-02 80 chrII:3482403-3482483 1.98e-02 80 chrI:12225479-12225559 1.79e-01 80 chrX:3994610-3994690 9.54e-02 80 chrI:3176526-3176606 5.28e-02 34_[+3(2.71e-05)]_38 chrV:13715441-13715521 1.77e-01 80 chrI:11978757-11978837 3.16e-01 80 chrII:6898273-6898353 3.50e-01 22_[+4(6.74e-05)]_50 chrV:11239347-11239427 1.50e-04 43_[+5(4.38e-05)]_29 chrX:3969516-3969596 1.06e-01 80 chrI:10469078-10469158 4.22e-01 80 chrII:3567788-3567868 1.94e-01 80 chrIV:1911152-1911232 7.53e-01 80 chrV:1003911-1003991 9.56e-01 80 chrIV:5371006-5371086 7.81e-01 80 chrII:14063259-14063339 3.69e-02 63_[+2(1.97e-05)]_9 chrV:13176479-13176559 6.75e-02 80 chrX:14478661-14478741 2.45e-01 80 chrIV:16776018-16776098 6.97e-01 80 chrII:6741544-6741624 8.17e-01 80 chrIV:410657-410737 8.43e-01 80 chrI:853224-853304 2.46e-01 80 chrIV:5537994-5538074 8.64e-02 80 chrI:5165016-5165096 6.36e-01 80 chrII:14144008-14144088 4.53e-01 80 chrI:2996337-2996417 1.28e-02 80 chrI:11323312-11323392 3.04e-03 80 chrV:15554007-15554087 8.49e-01 80 chrI:27035-27115 4.81e-01 80 chrIV:12559188-12559268 8.95e-02 80 chrI:11322096-11322176 1.28e-01 33_[+1(1.30e-05)]_39 chrIII:1962237-1962317 9.30e-02 80 chrV:1821444-1821524 2.96e-03 23_[+4(4.85e-05)]_49 chrX:14115663-14115743 4.59e-01 80 chrIII:3175130-3175210 8.35e-02 80 chrIII:11317272-11317352 9.24e-01 80 chrIII:3916797-3916877 4.51e-03 34_[+2(9.30e-06)]_38 chrIII:11091754-11091834 3.53e-01 80 chrI:14721617-14721697 5.28e-05 1_[+2(9.30e-06)]_5_[+4(4.85e-05)]_4_\ [+5(8.76e-05)]_46 chrI:6341919-6341999 8.57e-01 80 chrX:3348015-3348095 5.12e-02 29_[+5(4.38e-05)]_43 chrIV:16995558-16995638 9.58e-04 80 chrII:4238032-4238112 7.29e-03 58_[+4(4.85e-05)]_14 chrI:10807115-10807195 6.22e-01 80 chrIV:14225038-14225118 4.56e-02 80 chrIV:796716-796796 9.78e-01 80 chrIII:8650393-8650473 4.54e-04 2_[+3(1.27e-05)]_8_[+3(8.83e-05)]_\ 18_[+1(3.89e-05)]_28 chrI:5176400-5176480 2.47e-02 36_[+4(4.85e-05)]_36 chrV:1004116-1004196 3.49e-01 80 chrIV:16415242-16415322 4.04e-02 36_[+5(4.38e-05)]_36 chrV:10356068-10356148 2.17e-04 5_[+4(6.74e-05)]_56_[+1(1.30e-05)]_\ 3 chrV:4731549-4731629 7.09e-04 50_[+2(9.30e-06)]_22 chrIII:4426868-4426948 4.68e-01 80 chrI:7772611-7772691 1.41e-01 80 chrIV:16946872-16946952 8.61e-02 80 chrII:13117244-13117324 1.45e-03 70_[+1(1.30e-05)]_2 chrX:1858796-1858876 4.10e-02 80 chrIV:1388182-1388262 6.57e-05 48_[+3(1.27e-05)]_2_[+5(1.07e-05)]_\ 14 chrIV:14576596-14576676 9.88e-03 40_[+3(1.27e-05)]_32 chrX:9622799-9622879 5.11e-03 39_[+3(4.16e-05)]_21_[+2(7.25e-05)]_\ 4 chrI:9393668-9393748 4.05e-01 80 chrV:11039715-11039795 3.31e-01 80 chrIV:11310738-11310818 1.70e-02 80 chrV:12780417-12780497 4.69e-03 80 chrIV:16415494-16415574 8.10e-01 80 chrV:11113364-11113444 3.77e-04 9_[+4(4.85e-05)]_4_[+5(4.38e-05)]_\ 51 chrIII:5211446-5211526 1.41e-01 80 chrIII:7199001-7199081 1.21e-04 37_[+1(7.35e-05)]_35 chrI:5316224-5316304 3.89e-02 71_[+1(1.30e-05)]_1 chrII:7072676-7072756 2.30e-01 80 chrIII:8768043-8768123 1.43e-02 41_[+5(8.76e-05)]_31 chrX:6220097-6220177 2.29e-04 38_[+1(7.35e-05)]_34 chrIII:4171136-4171216 5.14e-02 27_[+2(6.07e-05)]_45 chrV:6709229-6709309 1.88e-04 10_[+2(9.30e-06)]_5_[+4(4.85e-05)]_\ 49 chrI:13421101-13421181 2.98e-01 80 chrIV:9191322-9191402 8.97e-02 80 chrI:4967555-4967635 4.22e-01 80 chrIII:12399945-12400025 3.28e-01 80 chrIII:11119485-11119565 8.38e-01 80 chrIII:4568724-4568804 1.55e-01 80 chrX:13781587-13781667 1.03e-01 80 chrIV:17087582-17087662 7.79e-01 80 chrV:8631590-8631670 1.63e-02 1_[+5(4.38e-05)]_71 chrIII:5349324-5349404 1.47e-01 80 chrX:13264650-13264730 1.30e-01 47_[+3(2.71e-05)]_25 chrX:11252583-11252663 3.24e-05 72_[+1(7.35e-05)] chrX:16298337-16298417 5.02e-02 57_[+3(5.44e-05)]_15 chrI:1070015-1070095 8.64e-02 80 chrX:5707973-5708053 1.63e-02 5_[+5(1.07e-05)]_50_[+5(5.59e-05)]_\ 9 chrX:5022862-5022942 5.53e-01 80 chrI:2410110-2410190 1.43e-03 67_[+3(5.44e-05)]_5 chrIII:535326-535406 4.51e-01 80 chrV:13962154-13962234 1.74e-02 51_[+2(6.07e-05)]_21 chrIII:8144720-8144800 3.79e-02 80 chrI:11505565-11505645 1.59e-02 80 chrIII:11119696-11119776 2.94e-01 80 chrV:13468324-13468404 2.41e-02 47_[+1(1.30e-05)]_25 chrIV:1745664-1745744 9.07e-01 80 chrI:8223080-8223160 1.74e-02 63_[+4(4.85e-05)]_9 chrIV:11026143-11026223 1.27e-01 80 chrX:1837859-1837939 1.77e-03 13_[+2(1.97e-05)]_59 chrI:1416198-1416278 7.31e-02 80 chrI:14737423-14737503 2.27e-03 80 chrII:11534677-11534757 5.79e-01 80 chrII:9566178-9566258 3.10e-02 63_[+5(1.07e-05)]_9 chrIII:7030505-7030585 2.00e-02 66_[+3(2.71e-05)]_6 chrI:8530126-8530206 2.10e-04 16_[+3(1.27e-05)]_34_[+1(3.89e-05)]_\ 14 chrI:1958519-1958599 3.20e-02 37_[+4(1.49e-05)]_35 chrI:1444194-1444274 1.19e-02 8_[+4(4.85e-05)]_64 chrIV:9477735-9477815 1.94e-02 1_[+1(8.48e-05)]_71 chrII:11959430-11959510 2.43e-01 3_[+1(9.48e-05)]_69 chrII:6248667-6248747 3.11e-02 34_[+3(6.56e-05)]_38 chrIII:4369665-4369745 1.63e-01 80 chrIII:1122441-1122521 2.81e-02 80 chrIV:13386182-13386262 3.31e-01 80 chrI:9605815-9605895 2.00e-02 3_[+3(1.27e-05)]_69 chrIII:11792827-11792907 9.71e-02 80 chrII:3439419-3439499 6.49e-01 80 chrIII:1424549-1424629 4.52e-02 80 chrX:16928328-16928408 5.25e-01 80 chrIII:5555095-5555175 4.04e-04 30_[+4(1.49e-05)]_3_[+2(9.30e-06)]_\ 31 chrIV:192219-192299 1.74e-03 20_[+1(2.45e-05)]_52 chrX:5319378-5319458 5.57e-02 80 chrX:9637823-9637903 3.42e-04 43_[+3(4.16e-05)]_21_[+2(7.25e-05)] chrII:3521542-3521622 2.60e-01 80 chrII:11980254-11980334 2.92e-01 80 chrX:15606979-15607059 1.95e-01 80 chrV:10526036-10526116 8.36e-01 80 chrV:15551863-15551943 4.00e-01 80 chrI:10642526-10642606 5.53e-01 80 chrIV:2033199-2033279 1.23e-01 80 chrI:13161091-13161171 8.04e-03 23_[+3(7.71e-05)]_49 chrIV:143957-144037 2.36e-01 80 chrIII:11371417-11371497 1.78e-04 49_[+1(2.45e-05)]_23 chrIV:7947074-7947154 9.20e-01 80 chrIV:12724810-12724890 7.48e-01 80 chrIII:4414247-4414327 4.92e-01 80 chrIV:322653-322733 1.32e-01 80 chrIII:9861678-9861758 2.00e-01 80 chrX:16604755-16604835 4.32e-01 80 chrIII:13268961-13269041 1.09e-03 34_[+4(4.85e-05)]_38 chrII:8547144-8547224 1.51e-01 80 chrX:6593523-6593603 8.98e-01 80 chrI:13310336-13310416 4.59e-02 80 chrX:14804921-14805001 2.40e-01 80 chrIII:11142246-11142326 6.15e-02 60_[+2(1.97e-05)]_12 chrX:10963776-10963856 1.74e-01 80 chrX:6292296-6292376 2.44e-02 25_[+2(7.25e-05)]_47 chrX:12563816-12563896 6.33e-02 52_[+4(4.85e-05)]_20 chrIII:4378658-4378738 3.96e-02 80 chrX:15741986-15742066 1.57e-01 72_[+5(5.59e-05)] chrX:1880846-1880926 3.74e-03 1_[+3(8.83e-05)]_18_[+1(3.89e-05)]_\ 45 chrIII:6158747-6158827 4.52e-02 2_[+1(1.30e-05)]_70 chrIII:6551632-6551712 9.01e-01 80 chrII:8107311-8107391 6.17e-02 80 chrV:12291778-12291858 1.05e-01 80 chrV:5790987-5791067 7.46e-01 80 chrV:4194967-4195047 6.50e-02 80 chrX:6903175-6903255 1.76e-02 5_[+1(2.45e-05)]_67 chrX:353302-353382 9.52e-03 19_[+1(2.45e-05)]_53 chrIII:11870086-11870166 2.88e-01 80 chrII:4740206-4740286 6.04e-01 80 chrII:3502814-3502894 2.83e-04 9_[+1(1.30e-05)]_63 chrIV:3050898-3050978 1.18e-01 80 chrIV:8253012-8253092 7.51e-02 80 chrII:13199992-13200072 6.72e-01 80 chrI:5807424-5807504 6.27e-01 80 chrV:12870109-12870189 1.48e-03 25_[+2(6.07e-05)]_47 chrV:16592142-16592222 3.83e-02 30_[+3(4.16e-05)]_42 chrX:6371411-6371491 7.90e-01 80 chrIII:10460746-10460826 5.13e-01 80 chrX:3697737-3697817 9.37e-03 36_[+5(8.76e-05)]_36 chrV:11610638-11610718 3.78e-03 80 chrIV:9074390-9074470 1.00e-02 80 chrIII:8937683-8937763 6.70e-02 80 chrI:5986313-5986393 1.13e-02 29_[+4(1.49e-05)]_43 chrII:12494743-12494823 1.04e-01 52_[+3(6.56e-05)]_20 chrX:9467751-9467831 7.87e-03 8_[+3(8.83e-05)]_18_[+1(3.89e-05)]_\ 38 chrIII:10707215-10707295 4.47e-02 22_[+4(1.49e-05)]_50 chrX:12106175-12106255 7.76e-01 80 chrX:489886-489966 1.59e-01 80 chrV:12596899-12596979 9.80e-02 80 chrII:10248527-10248607 1.74e-01 80 chrIII:8678529-8678609 9.24e-04 80 chrIII:10461273-10461353 2.60e-03 23_[+2(6.07e-05)]_5_[+4(4.85e-05)]_\ 36 chrIII:4470919-4470999 1.14e-02 32_[+1(7.35e-05)]_40 chrX:11935140-11935220 6.03e-02 72_[+5(5.59e-05)] chrII:5105229-5105309 6.88e-04 34_[+2(3.02e-05)]_10_[+1(2.45e-05)]_\ 20 chrI:14113225-14113305 5.39e-02 80 chrX:13511969-13512049 7.43e-04 15_[+3(4.16e-05)]_8_[+3(8.83e-05)]_\ 18_[+1(3.89e-05)]_15 chrII:9940595-9940675 8.19e-01 80 chrIII:5294955-5295035 1.06e-02 80 chrX:2809745-2809825 4.95e-03 22_[+4(1.49e-05)]_50 chrI:12198603-12198683 5.45e-02 53_[+3(5.44e-05)]_19 chrII:11484801-11484881 1.69e-03 5_[+1(2.45e-05)]_12_[+5(4.38e-05)]_\ 47 chrV:9970254-9970334 2.53e-04 21_[+5(8.76e-05)]_31_[+2(9.30e-06)]_\ 12 chrX:8386126-8386206 2.81e-01 80 chrV:53435-53515 9.43e-02 49_[+5(5.59e-05)]_23 chrV:9503534-9503614 2.89e-02 47_[+2(7.25e-05)]_25 chrX:1379595-1379675 7.49e-03 22_[+3(1.27e-05)]_50 chrIII:10989975-10990055 2.10e-01 80 chrII:9566379-9566459 8.84e-01 80 chrIV:11474211-11474291 1.67e-01 80 chrII:6853144-6853224 5.09e-02 68_[+5(5.59e-05)]_4 chrI:8259547-8259627 9.45e-03 7_[+1(3.89e-05)]_65 chrV:19643191-19643271 1.32e-02 80 chrIV:3524805-3524885 1.07e-03 14_[+5(1.07e-05)]_58 chrII:7184013-7184093 9.23e-01 80 chrX:2549506-2549586 9.48e-04 36_[+3(2.71e-05)]_36 chrIII:8106626-8106706 3.39e-02 44_[+5(8.76e-05)]_28 chrII:5032768-5032848 7.46e-02 56_[+3(6.56e-05)]_16 chrII:5358389-5358469 1.36e-03 33_[+1(1.30e-05)]_39 chrV:15002282-15002362 1.42e-02 80 chrIII:7520829-7520909 2.34e-02 27_[+1(1.30e-05)]_45 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n09.farnam.hpc.yale.internal ********************************************************************************