******************************************************************************** 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/attf-5.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrIII:9956836-9956916 1.0000 80 chrIV:6618766-6618846 1.0000 80 chrI:3412436-3412516 1.0000 80 chrV:16966799-16966879 1.0000 80 chrIV:13786884-13786964 1.0000 80 chrI:5358134-5358214 1.0000 80 chrII:6609576-6609656 1.0000 80 chrII:3119057-3119137 1.0000 80 chrV:12599641-12599721 1.0000 80 chrI:3684599-3684679 1.0000 80 chrI:3805783-3805863 1.0000 80 chrIII:6551287-6551367 1.0000 80 chrI:12954704-12954784 1.0000 80 chrIII:11989976-11990056 1.0000 80 chrV:2218993-2219073 1.0000 80 chrIII:3637422-3637502 1.0000 80 chrIII:11139066-11139146 1.0000 80 chrX:13669797-13669877 1.0000 80 chrII:10607599-10607679 1.0000 80 chrIII:3034626-3034706 1.0000 80 chrI:10485139-10485219 1.0000 80 chrII:8457565-8457645 1.0000 80 chrIII:1962670-1962750 1.0000 80 chrII:7662512-7662592 1.0000 80 chrIII:2733888-2733968 1.0000 80 chrI:13391288-13391368 1.0000 80 chrIII:188488-188568 1.0000 80 chrIII:6168984-6169064 1.0000 80 chrI:1050956-1051036 1.0000 80 chrII:11578477-11578557 1.0000 80 chrI:946063-946143 1.0000 80 chrX:5845442-5845522 1.0000 80 chrV:635766-635846 1.0000 80 chrI:6611377-6611457 1.0000 80 chrI:7726606-7726686 1.0000 80 chrV:10441660-10441740 1.0000 80 chrIV:9321297-9321377 1.0000 80 chrII:8162398-8162478 1.0000 80 chrIII:3703553-3703633 1.0000 80 chrV:7983785-7983865 1.0000 80 chrI:12194329-12194409 1.0000 80 chrI:8291110-8291190 1.0000 80 chrII:3662030-3662110 1.0000 80 chrI:2800981-2801061 1.0000 80 chrIV:17333691-17333771 1.0000 80 chrI:11964969-11965049 1.0000 80 chrI:13031490-13031570 1.0000 80 chrX:8605211-8605291 1.0000 80 chrIV:12527358-12527438 1.0000 80 chrIV:3739041-3739121 1.0000 80 chrI:545577-545657 1.0000 80 chrII:4715809-4715889 1.0000 80 chrIII:7911814-7911894 1.0000 80 chrI:6949508-6949588 1.0000 80 chrV:910765-910845 1.0000 80 chrIV:383483-383563 1.0000 80 chrIII:5163007-5163087 1.0000 80 chrIV:2846400-2846480 1.0000 80 chrV:5081096-5081176 1.0000 80 chrIV:9825258-9825338 1.0000 80 chrI:9963763-9963843 1.0000 80 chrI:8839243-8839323 1.0000 80 chrI:4650993-4651073 1.0000 80 chrI:10728800-10728880 1.0000 80 chrIV:10858769-10858849 1.0000 80 chrI:1687827-1687907 1.0000 80 chrX:14104717-14104797 1.0000 80 chrV:1467140-1467220 1.0000 80 chrI:7676254-7676334 1.0000 80 chrIII:10463840-10463920 1.0000 80 chrV:494462-494542 1.0000 80 chrIII:5380051-5380131 1.0000 80 chrII:1663719-1663799 1.0000 80 chrII:13166069-13166149 1.0000 80 chrIII:5405801-5405881 1.0000 80 chrIV:7561902-7561982 1.0000 80 chrV:20162584-20162664 1.0000 80 chrI:8412939-8413019 1.0000 80 chrV:20832013-20832093 1.0000 80 chrV:7681544-7681624 1.0000 80 chrIII:11496637-11496717 1.0000 80 chrIII:3396158-3396238 1.0000 80 chrII:8034102-8034182 1.0000 80 chrIV:10820249-10820329 1.0000 80 chrI:11497972-11498052 1.0000 80 chrIII:4404488-4404568 1.0000 80 chrI:8852528-8852608 1.0000 80 chrIV:12361874-12361954 1.0000 80 chrIII:620440-620520 1.0000 80 chrIII:7087368-7087448 1.0000 80 chrII:3911422-3911502 1.0000 80 chrIII:11981722-11981802 1.0000 80 chrI:9014094-9014174 1.0000 80 chrIII:1243369-1243449 1.0000 80 chrX:381151-381231 1.0000 80 chrI:13287268-13287348 1.0000 80 chrII:5907646-5907726 1.0000 80 chrII:7025581-7025661 1.0000 80 chrI:10478217-10478297 1.0000 80 chrIII:11947727-11947807 1.0000 80 chrIII:9528967-9529047 1.0000 80 chrIV:8830692-8830772 1.0000 80 chrX:16144055-16144135 1.0000 80 chrI:13812419-13812499 1.0000 80 chrI:5420457-5420537 1.0000 80 chrII:8567076-8567156 1.0000 80 chrIII:11834941-11835021 1.0000 80 chrV:11140537-11140617 1.0000 80 chrV:123651-123731 1.0000 80 chrV:6657598-6657678 1.0000 80 chrIV:9333196-9333276 1.0000 80 chrIII:1284741-1284821 1.0000 80 chrII:12352255-12352335 1.0000 80 chrIII:64125-64205 1.0000 80 chrI:9105110-9105190 1.0000 80 chrII:4726259-4726339 1.0000 80 chrV:3586193-3586273 1.0000 80 chrIV:5369024-5369104 1.0000 80 chrI:7857669-7857749 1.0000 80 chrIV:2709840-2709920 1.0000 80 chrV:12697634-12697714 1.0000 80 chrV:10022946-10023026 1.0000 80 chrI:2020128-2020208 1.0000 80 chrI:6914119-6914199 1.0000 80 chrI:663611-663691 1.0000 80 chrIV:4471613-4471693 1.0000 80 chrIV:2896164-2896244 1.0000 80 chrII:11965027-11965107 1.0000 80 chrIII:1819277-1819357 1.0000 80 chrV:1156050-1156130 1.0000 80 chrIII:8268431-8268511 1.0000 80 chrIII:1279292-1279372 1.0000 80 chrII:11169008-11169088 1.0000 80 chrII:8138170-8138250 1.0000 80 chrIV:6601375-6601455 1.0000 80 chrIII:4849917-4849997 1.0000 80 chrIII:120363-120443 1.0000 80 chrV:6606352-6606432 1.0000 80 chrI:12571089-12571169 1.0000 80 chrI:10560490-10560570 1.0000 80 chrV:7804227-7804307 1.0000 80 chrII:9738992-9739072 1.0000 80 chrIV:4394113-4394193 1.0000 80 chrII:8965006-8965086 1.0000 80 chrIV:9932205-9932285 1.0000 80 chrV:19982287-19982367 1.0000 80 chrV:15497908-15497988 1.0000 80 chrI:2857743-2857823 1.0000 80 chrI:13411554-13411634 1.0000 80 chrII:5689130-5689210 1.0000 80 chrV:10661806-10661886 1.0000 80 chrII:11814104-11814184 1.0000 80 chrV:20147896-20147976 1.0000 80 chrI:11577519-11577599 1.0000 80 chrV:2231021-2231101 1.0000 80 chrII:15197661-15197741 1.0000 80 chrI:11870263-11870343 1.0000 80 chrIII:8355247-8355327 1.0000 80 chrIII:3307491-3307571 1.0000 80 chrI:8608876-8608956 1.0000 80 chrIII:11251774-11251854 1.0000 80 chrIV:6522476-6522556 1.0000 80 chrII:8483352-8483432 1.0000 80 chrX:14349885-14349965 1.0000 80 chrV:3803532-3803612 1.0000 80 chrII:6683865-6683945 1.0000 80 chrIV:11298687-11298767 1.0000 80 chrII:8041809-8041889 1.0000 80 chrV:3088534-3088614 1.0000 80 chrIII:7829079-7829159 1.0000 80 chrII:50929-51009 1.0000 80 chrI:13381578-13381658 1.0000 80 chrI:2077024-2077104 1.0000 80 chrV:1599256-1599336 1.0000 80 chrI:4804635-4804715 1.0000 80 chrI:4672265-4672345 1.0000 80 chrV:2250288-2250368 1.0000 80 chrI:6945703-6945783 1.0000 80 chrV:2281679-2281759 1.0000 80 chrI:13289845-13289925 1.0000 80 chrIV:10197468-10197548 1.0000 80 chrIV:3368839-3368919 1.0000 80 chrII:10445908-10445988 1.0000 80 chrIV:16845492-16845572 1.0000 80 chrV:1262458-1262538 1.0000 80 chrX:11933701-11933781 1.0000 80 chrI:2312367-2312447 1.0000 80 chrV:7587813-7587893 1.0000 80 chrV:6615376-6615456 1.0000 80 chrI:395294-395374 1.0000 80 chrII:3129148-3129228 1.0000 80 chrIV:8205374-8205454 1.0000 80 chrIII:5810119-5810199 1.0000 80 chrIII:7165891-7165971 1.0000 80 chrIV:12079069-12079149 1.0000 80 chrII:2831350-2831430 1.0000 80 chrIV:5549023-5549103 1.0000 80 chrIII:12424192-12424272 1.0000 80 chrI:5485349-5485429 1.0000 80 chrX:15340851-15340931 1.0000 80 chrII:10450546-10450626 1.0000 80 chrI:2642375-2642455 1.0000 80 chrV:3388430-3388510 1.0000 80 chrII:9113954-9114034 1.0000 80 chrIII:4785877-4785957 1.0000 80 chrI:5127546-5127626 1.0000 80 chrI:7494707-7494787 1.0000 80 chrI:14647563-14647643 1.0000 80 chrV:185833-185913 1.0000 80 chrI:13290996-13291076 1.0000 80 chrIII:12839051-12839131 1.0000 80 chrIII:4808084-4808164 1.0000 80 chrIV:8922168-8922248 1.0000 80 chrI:12904054-12904134 1.0000 80 chrV:5131551-5131631 1.0000 80 chrI:9616391-9616471 1.0000 80 chrII:12691483-12691563 1.0000 80 chrII:5338443-5338523 1.0000 80 chrV:14597967-14598047 1.0000 80 chrIV:274328-274408 1.0000 80 chrV:15156675-15156755 1.0000 80 chrIV:17118775-17118855 1.0000 80 chrIII:3977143-3977223 1.0000 80 chrIII:12305106-12305186 1.0000 80 chrV:12041260-12041340 1.0000 80 chrX:15376757-15376837 1.0000 80 chrI:8010443-8010523 1.0000 80 chrII:11297382-11297462 1.0000 80 chrX:15007047-15007127 1.0000 80 chrIV:4720715-4720795 1.0000 80 chrIV:11149082-11149162 1.0000 80 chrIII:11197355-11197435 1.0000 80 chrIV:10843080-10843160 1.0000 80 chrIII:7357507-7357587 1.0000 80 chrI:310884-310964 1.0000 80 chrII:13036889-13036969 1.0000 80 chrIII:2947405-2947485 1.0000 80 chrV:19190113-19190193 1.0000 80 chrIII:3855010-3855090 1.0000 80 chrI:10045979-10046059 1.0000 80 chrV:6462760-6462840 1.0000 80 chrI:1628709-1628789 1.0000 80 chrIV:3814722-3814802 1.0000 80 chrII:10197248-10197328 1.0000 80 chrIII:9474718-9474798 1.0000 80 chrX:924615-924695 1.0000 80 chrIV:7948514-7948594 1.0000 80 chrIV:11364149-11364229 1.0000 80 chrI:2065511-2065591 1.0000 80 chrI:11280848-11280928 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_attf-5/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/attf-5.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 0.277 C 0.223 G 0.22 T 0.28 Background letter frequencies (from file dataset with add-one prior applied): A 0.277 C 0.223 G 0.22 T 0.279 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GAGACGCA MEME-1 width = 8 sites = 31 llr = 287 E-value = 2.8e-012 ******************************************************************************** -------------------------------------------------------------------------------- Motif GAGACGCA MEME-1 Description -------------------------------------------------------------------------------- Simplified A :919:::a pos.-specific C ::1:9:9: probability G a:71:a1: matrix T :11:1::: bits 2.2 * * 2.0 * * 1.7 * **** 1.5 * ***** Relative 1.3 ** ***** Entropy 1.1 ** ***** (13.3 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GAGACGCA consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGACGCA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:5131551-5131631 68 1.13e-05 GAAGTGGAAA GAGACGCA GGAGG chrV:185833-185913 70 1.13e-05 GTAGCGGTAA GAGACGCA GAG chrI:14647563-14647643 66 1.13e-05 AAAAGCCGGA GAGACGCA GACAGCT chrII:3129148-3129228 38 1.13e-05 CTCATGTACC GAGACGCA GGCGCCAAAA chrI:395294-395374 60 1.13e-05 GTGGATTCAG GAGACGCA GAGCGACCGT chrV:3803532-3803612 56 1.13e-05 GGAGAGGGAG GAGACGCA GGTATGAGTC chrI:13411554-13411634 12 1.13e-05 CCAAATAAGA GAGACGCA GTTGCATTGT chrI:10478217-10478297 30 1.13e-05 GCCTATTCAA GAGACGCA GAATGGATAG chrIII:1243369-1243449 16 1.13e-05 CTAGGCTACC GAGACGCA GAGAAAAAGA chrII:1663719-1663799 7 1.13e-05 TACTCA GAGACGCA GACGGCAAAA chrV:1467140-1467220 4 1.13e-05 AGT GAGACGCA TTGCATCTTG chrIV:2846400-2846480 63 1.13e-05 AACACTTTGA GAGACGCA GACACATAAA chrIV:17333691-17333771 16 1.13e-05 ATAGAGTGAA GAGACGCA GCTATTGAAG chrIV:8205374-8205454 71 2.02e-05 TGCGTAATAA GAGGCGCA GA chrII:12352255-12352335 35 2.02e-05 AAGAGATCAA GAGGCGCA GAGGGAAAAA chrIV:8922168-8922248 7 3.16e-05 CAGAAC GACACGCA CGTTCGGTTC chrIV:7561902-7561982 44 3.16e-05 CGTCGCGGTT GACACGCA ACGCACACAA chrII:8483352-8483432 16 4.58e-05 GCCCGTTTTT GAAACGCA GCATACGAGA chrIV:3739041-3739121 40 4.58e-05 TGTGACCACA GAAACGCA CAGAAAAGTG chrI:6611377-6611457 23 4.58e-05 AACAATCAAA GAAACGCA GACGATAAAG chrIV:4471613-4471693 10 5.99e-05 GAGACGCGA GAGATGCA GATGGAAAAG chrI:12194329-12194409 12 5.99e-05 agaggacgca gagaTGCA TACAGTCTCT chrI:3805783-3805863 44 5.99e-05 GGGAAACGGA GAGATGCA GGAACCACAA chrIV:7948514-7948594 32 9.66e-05 ACAAAACTGA GAGACGGA GGCTACCGGA chrI:13290996-13291076 39 9.66e-05 GGGCGCCAAA GTGACGCA GAGAAGCGAG chrIII:12424192-12424272 40 9.66e-05 TCACATACAG GTGACGCA GAGGTAAACT chrIV:12361874-12361954 22 9.66e-05 ACCGTAGTTA GATACGCA GGCATCGCCG chrIII:4404488-4404568 48 9.66e-05 GCCCCCTTGA GATACGCA CGCGGCACGC chrIII:5405801-5405881 10 9.66e-05 GAGAAAGAC GAGACGGA GACGAGGGCA chrX:924615-924695 44 1.06e-04 GCTGGACTGG GGGACGCA TAAGGGTATA chrV:3586193-3586273 37 1.15e-04 TGGGAGGAGC GACGCGca cacacacaca -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGACGCA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:5131551-5131631 1.1e-05 67_[+1]_5 chrV:185833-185913 1.1e-05 69_[+1]_3 chrI:14647563-14647643 1.1e-05 65_[+1]_7 chrII:3129148-3129228 1.1e-05 37_[+1]_35 chrI:395294-395374 1.1e-05 59_[+1]_13 chrV:3803532-3803612 1.1e-05 55_[+1]_17 chrI:13411554-13411634 1.1e-05 11_[+1]_61 chrI:10478217-10478297 1.1e-05 29_[+1]_43 chrIII:1243369-1243449 1.1e-05 15_[+1]_57 chrII:1663719-1663799 1.1e-05 6_[+1]_66 chrV:1467140-1467220 1.1e-05 3_[+1]_69 chrIV:2846400-2846480 1.1e-05 62_[+1]_10 chrIV:17333691-17333771 1.1e-05 15_[+1]_57 chrIV:8205374-8205454 2e-05 70_[+1]_2 chrII:12352255-12352335 2e-05 34_[+1]_38 chrIV:8922168-8922248 3.2e-05 6_[+1]_66 chrIV:7561902-7561982 3.2e-05 43_[+1]_29 chrII:8483352-8483432 4.6e-05 15_[+1]_57 chrIV:3739041-3739121 4.6e-05 39_[+1]_33 chrI:6611377-6611457 4.6e-05 22_[+1]_50 chrIV:4471613-4471693 6e-05 9_[+1]_63 chrI:12194329-12194409 6e-05 11_[+1]_61 chrI:3805783-3805863 6e-05 43_[+1]_29 chrIV:7948514-7948594 9.7e-05 31_[+1]_41 chrI:13290996-13291076 9.7e-05 38_[+1]_34 chrIII:12424192-12424272 9.7e-05 39_[+1]_33 chrIV:12361874-12361954 9.7e-05 21_[+1]_51 chrIII:4404488-4404568 9.7e-05 47_[+1]_25 chrIII:5405801-5405881 9.7e-05 9_[+1]_63 chrX:924615-924695 0.00011 43_[+1]_29 chrV:3586193-3586273 0.00011 36_[+1]_36 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGACGCA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GAGACGCA width=8 seqs=31 chrV:5131551-5131631 ( 68) GAGACGCA 1 chrV:185833-185913 ( 70) GAGACGCA 1 chrI:14647563-14647643 ( 66) GAGACGCA 1 chrII:3129148-3129228 ( 38) GAGACGCA 1 chrI:395294-395374 ( 60) GAGACGCA 1 chrV:3803532-3803612 ( 56) GAGACGCA 1 chrI:13411554-13411634 ( 12) GAGACGCA 1 chrI:10478217-10478297 ( 30) GAGACGCA 1 chrIII:1243369-1243449 ( 16) GAGACGCA 1 chrII:1663719-1663799 ( 7) GAGACGCA 1 chrV:1467140-1467220 ( 4) GAGACGCA 1 chrIV:2846400-2846480 ( 63) GAGACGCA 1 chrIV:17333691-17333771 ( 16) GAGACGCA 1 chrIV:8205374-8205454 ( 71) GAGGCGCA 1 chrII:12352255-12352335 ( 35) GAGGCGCA 1 chrIV:8922168-8922248 ( 7) GACACGCA 1 chrIV:7561902-7561982 ( 44) GACACGCA 1 chrII:8483352-8483432 ( 16) GAAACGCA 1 chrIV:3739041-3739121 ( 40) GAAACGCA 1 chrI:6611377-6611457 ( 23) GAAACGCA 1 chrIV:4471613-4471693 ( 10) GAGATGCA 1 chrI:12194329-12194409 ( 12) GAGATGCA 1 chrI:3805783-3805863 ( 44) GAGATGCA 1 chrIV:7948514-7948594 ( 32) GAGACGGA 1 chrI:13290996-13291076 ( 39) GTGACGCA 1 chrIII:12424192-12424272 ( 40) GTGACGCA 1 chrIV:12361874-12361954 ( 22) GATACGCA 1 chrIII:4404488-4404568 ( 48) GATACGCA 1 chrIII:5405801-5405881 ( 10) GAGACGGA 1 chrX:924615-924695 ( 44) GGGACGCA 1 chrV:3586193-3586273 ( 37) GACGCGCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGACGCA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.90618 E= 2.8e-012 -1160 -1160 218 -1160 170 -1160 -277 -211 -152 -120 175 -211 170 -1160 -119 -1160 -1160 202 -1160 -153 -1160 -1160 218 -1160 -1160 207 -177 -1160 185 -1160 -1160 -1160 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGACGCA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 31 E= 2.8e-012 0.000000 0.000000 1.000000 0.000000 0.903226 0.000000 0.032258 0.064516 0.096774 0.096774 0.741935 0.064516 0.903226 0.000000 0.096774 0.000000 0.000000 0.903226 0.000000 0.096774 0.000000 0.000000 1.000000 0.000000 0.000000 0.935484 0.064516 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGACGCA MEME-1 regular expression -------------------------------------------------------------------------------- GAGACGCA -------------------------------------------------------------------------------- Time 5.74 secs. ******************************************************************************** ******************************************************************************** MOTIF RAGAAAAA MEME-2 width = 8 sites = 70 llr = 504 E-value = 4.3e-006 ******************************************************************************** -------------------------------------------------------------------------------- Motif RAGAAAAA MEME-2 Description -------------------------------------------------------------------------------- Simplified A 37397aaa pos.-specific C 22:::::: probability G 51713::: matrix T :::::::: bits 2.2 2.0 1.7 *** 1.5 *** Relative 1.3 ** *** Entropy 1.1 ****** (10.4 bits) 0.9 ****** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GAGAAAAA consensus A A G sequence C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RAGAAAAA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:3388430-3388510 68 2.19e-05 GAGAGCCGCA GAGAAAAA GAGAG chrIII:1819277-1819357 4 2.19e-05 ACT GAGAAAAA GATAGGAAAA chrV:123651-123731 47 2.19e-05 GAACGTTCGA GAGAAAAA ATCAAAATAT chrIII:1243369-1243449 24 2.19e-05 CCGAGACGCA GAGAAAAA GAGCGTCAGT chrIII:620440-620520 7 2.19e-05 GTTAGA GAGAAAAA ATCAGAGAGT chrIII:11496637-11496717 65 2.19e-05 TGTCATAAGT GAGAAAAA ATGTCTTT chrI:11964969-11965049 30 2.19e-05 CGAAAAAATG GAGAAAAA CTAGGAAAAA chrI:13391288-13391368 48 2.19e-05 AAGAGAAATA GAGAAAAA AAGAGAGAAA chrIII:3034626-3034706 64 2.19e-05 aaataataga gagaaaaa aCTTTAAAA chrIII:12305106-12305186 45 4.94e-05 ACCAATTAGG AAGAAAAA TTGCGAAACC chrIII:4808084-4808164 58 4.94e-05 aaaaaaaaac aagaaaaa CTTCAAAATA chrI:5485349-5485429 19 4.94e-05 CATCAATTAA AAGAAAAA TGTACCTTTC chrII:12352255-12352335 51 4.94e-05 CAGAGGGAAA AAGAAAAA AAAAACGGTT chrII:3911422-3911502 2 4.94e-05 C AAGAAAAA TTGAAAAATT chrI:8010443-8010523 59 8.89e-05 agggggggga gagagaaa tatagataaa chrII:5338443-5338523 20 8.89e-05 AGTTTCATTC CAGAAAAA TCTCTCCACA chrI:395294-395374 18 8.89e-05 AAAAGGAGGC GAGAGAAA ACGGCTGACC chrII:8483352-8483432 30 8.89e-05 CGCAGCATAC GAGAGAAA TGTAGTACAC chrIV:8830692-8830772 44 8.89e-05 gatagacata gagagaaa cggcacgcag chrII:7025581-7025661 19 8.89e-05 TTCAGTACGA GAGAGAAA CCGTCTTTAT chrIII:7911814-7911894 73 8.89e-05 GTCAGATGGT CAGAAAAA chrI:8291110-8291190 21 8.89e-05 TCTGTCGAAA CAGAAAAA AGAGGACGAG chrIII:2733888-2733968 65 8.89e-05 GCAGGGTGGT GAGAGAAA TGAGAAAA chrII:10197248-10197328 65 1.07e-04 TGAATTCGCC GCGAAAAA GAAGCGCT chrI:10560490-10560570 52 1.07e-04 AAAAAATTTA GCGAAAAA TACATTTGCT chrIII:11834941-11835021 67 1.34e-04 TGAGGATGAC GAAAAAAA ATCAAA chrI:13287268-13287348 56 1.51e-04 TGCAGCAGAG GGGAAAAA TTGGGCAAAA chrIII:1962670-1962750 2 1.51e-04 G GGGAAAAA GATATGGCCT chrIV:11364149-11364229 2 1.91e-04 T GAGGAAAA AATCATATGA chrIV:7948514-7948594 48 1.91e-04 GAGGCTACCG GAGGAAAA TTCGAAGTTT chrI:5127546-5127626 22 1.91e-04 TGCAGCAATG AAGAGAAA CGAGAAAGAC chrI:4650993-4651073 56 1.91e-04 GTTATCGCAC GAGGAAAA GTGAAAGTTC chrIII:11139066-11139146 47 1.91e-04 CGCCACTCCC AAGAGAAA GTTCAAGGGA chrI:9616391-9616471 68 2.08e-04 TATTTAGTGG CAGAGAAA ACCTG chrII:4726259-4726339 1 2.08e-04 . CAGAGAAA CACTTTACTC chrI:14647563-14647643 52 2.30e-04 TGGTCTTGAC ACGAAAAA GCCGGAGAGA chrIII:7829079-7829159 33 2.30e-04 TGGAAAATGA ACGAAAAA AGGCTTTCGC chrIII:1279292-1279372 34 2.30e-04 GTTTTTTATG ACGAAAAA TGCATGGCAG chrIV:383483-383563 34 2.30e-04 TCGAAAAGAA ACGAAAAA TCATGGATGA chrII:13036889-13036969 73 2.97e-04 GTGTTCGATT AAAAAAAA chrIII:12839051-12839131 33 2.97e-04 GACTACATAA AAAAAAAA GATCGCGATA chrI:12571089-12571169 13 2.97e-04 TTTTTTTTGC AAAAAAAA TTTGGAGATG chrIII:3637422-3637502 29 2.97e-04 AAACACTGAC AAAAAAAA CACACCTGCC chrIV:3814722-3814802 59 3.47e-04 TGGCGAGACC CAAAAAAA CTCGAAACTT chrII:2831350-2831430 56 3.47e-04 ATGGGATGTA GAAAGAAA ATTGAAAGGA chrII:3129148-3129228 56 3.47e-04 GGCGCCAAAA CAAAAAAA CATCGCCGAT chrIII:4849917-4849997 50 3.47e-04 CGCAGAGATG GAAAGAAA ACTGGGTAGA chrI:7726606-7726686 5 3.47e-04 AACA CAAAAAAA TTCAAACATC chrII:15197661-15197741 45 3.69e-04 TCACATGTCC AGGAAAAA GGACAATTCC chrV:10022946-10023026 35 3.69e-04 GACTCCGTTA AGGAAAAA GCTTCTGATG chrI:2642375-2642455 25 4.44e-04 gttaaaatcg gcaaaaaa cggagagaat chrII:10450546-10450626 40 4.44e-04 GAATGTCCTC GCAAAAAA TATGTTCAAG chrV:6606352-6606432 48 4.44e-04 TAGATGCAGA AAGGAAAA CGCGATAGGA chrV:6657598-6657678 53 4.44e-04 GCAACAATGT CGGAAAAA CCAAGATAAA chrI:10478217-10478297 51 4.44e-04 TGGATAGAGA GGGAGAAA ACGGAAGCGA chrI:6949508-6949588 25 4.44e-04 GCGCACCGCA CGGAAAAA TGGGCGTGGT chrI:3684599-3684679 58 4.75e-04 ATCGGTGCAG CAGGAAAA CAAAACGCGC chrII:6609576-6609656 11 4.75e-04 AGCACGTGAA GAGGGAAA ATGACGACAA chrIII:7087368-7087448 62 5.07e-04 AATTTTCCAT GCGGAAAA TTCTCGAGGG chrI:11577519-11577599 1 5.43e-04 . CCGAGAAA CGGGGGGGGG chrI:8412939-8413019 31 5.92e-04 AAGTAAAAGA GAAGAAAA GGTGAGAGAC chrIV:10843080-10843160 3 6.14e-04 TT CAAAGAAA CCGCAAAGTT chrIII:3396158-3396238 44 6.14e-04 TCAATAATTT CAAAGAAA ACGCACTTTA chrX:924615-924695 63 6.74e-04 AAGGGTATAC ACAAAAAA TTGCGCGAGA chrIV:9825258-9825338 27 6.74e-04 CGGCGGAAAC GGGGAAAA GCCGACATGA chrIV:10820249-10820329 17 7.45e-04 TATAAAAATC CCAAAAAA TTATCGAATT chrIII:11947727-11947807 16 7.77e-04 GACTGTACGG ACGGAAAA CCTATGCCTC chrV:1599256-1599336 70 8.47e-04 tgcgataGTT AGAAAAAA CAA chrIII:5405801-5405881 1 8.47e-04 . GAGAAAGA CGAGACGGAG chrV:185833-185913 35 1.17e-03 TCTCATCGAC GAGAGAGA CACACTCGCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RAGAAAAA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:3388430-3388510 2.2e-05 67_[+2]_5 chrIII:1819277-1819357 2.2e-05 3_[+2]_69 chrV:123651-123731 2.2e-05 46_[+2]_26 chrIII:1243369-1243449 2.2e-05 23_[+2]_49 chrIII:620440-620520 2.2e-05 6_[+2]_66 chrIII:11496637-11496717 2.2e-05 64_[+2]_8 chrI:11964969-11965049 2.2e-05 29_[+2]_43 chrI:13391288-13391368 2.2e-05 47_[+2]_25 chrIII:3034626-3034706 2.2e-05 63_[+2]_9 chrIII:12305106-12305186 4.9e-05 44_[+2]_28 chrIII:4808084-4808164 4.9e-05 57_[+2]_15 chrI:5485349-5485429 4.9e-05 18_[+2]_54 chrII:12352255-12352335 4.9e-05 50_[+2]_22 chrII:3911422-3911502 4.9e-05 1_[+2]_71 chrI:8010443-8010523 8.9e-05 58_[+2]_14 chrII:5338443-5338523 8.9e-05 19_[+2]_53 chrI:395294-395374 8.9e-05 17_[+2]_55 chrII:8483352-8483432 8.9e-05 29_[+2]_43 chrIV:8830692-8830772 8.9e-05 43_[+2]_29 chrII:7025581-7025661 8.9e-05 18_[+2]_54 chrIII:7911814-7911894 8.9e-05 72_[+2] chrI:8291110-8291190 8.9e-05 20_[+2]_52 chrIII:2733888-2733968 8.9e-05 64_[+2]_8 chrII:10197248-10197328 0.00011 64_[+2]_8 chrI:10560490-10560570 0.00011 51_[+2]_21 chrIII:11834941-11835021 0.00013 66_[+2]_6 chrI:13287268-13287348 0.00015 55_[+2]_17 chrIII:1962670-1962750 0.00015 1_[+2]_71 chrIV:11364149-11364229 0.00019 1_[+2]_71 chrIV:7948514-7948594 0.00019 47_[+2]_25 chrI:5127546-5127626 0.00019 21_[+2]_51 chrI:4650993-4651073 0.00019 55_[+2]_17 chrIII:11139066-11139146 0.00019 46_[+2]_26 chrI:9616391-9616471 0.00021 67_[+2]_5 chrII:4726259-4726339 0.00021 [+2]_72 chrI:14647563-14647643 0.00023 51_[+2]_21 chrIII:7829079-7829159 0.00023 32_[+2]_40 chrIII:1279292-1279372 0.00023 33_[+2]_39 chrIV:383483-383563 0.00023 33_[+2]_39 chrII:13036889-13036969 0.0003 72_[+2] chrIII:12839051-12839131 0.0003 32_[+2]_40 chrI:12571089-12571169 0.0003 12_[+2]_60 chrIII:3637422-3637502 0.0003 28_[+2]_44 chrIV:3814722-3814802 0.00035 58_[+2]_14 chrII:2831350-2831430 0.00035 55_[+2]_17 chrII:3129148-3129228 0.00035 55_[+2]_17 chrIII:4849917-4849997 0.00035 49_[+2]_23 chrI:7726606-7726686 0.00035 4_[+2]_68 chrII:15197661-15197741 0.00037 44_[+2]_28 chrV:10022946-10023026 0.00037 34_[+2]_38 chrI:2642375-2642455 0.00044 24_[+2]_48 chrII:10450546-10450626 0.00044 39_[+2]_33 chrV:6606352-6606432 0.00044 47_[+2]_25 chrV:6657598-6657678 0.00044 52_[+2]_20 chrI:10478217-10478297 0.00044 50_[+2]_22 chrI:6949508-6949588 0.00044 24_[+2]_48 chrI:3684599-3684679 0.00048 57_[+2]_15 chrII:6609576-6609656 0.00048 10_[+2]_62 chrIII:7087368-7087448 0.00051 61_[+2]_11 chrI:11577519-11577599 0.00054 [+2]_72 chrI:8412939-8413019 0.00059 30_[+2]_42 chrIV:10843080-10843160 0.00061 2_[+2]_70 chrIII:3396158-3396238 0.00061 43_[+2]_29 chrX:924615-924695 0.00067 62_[+2]_10 chrIV:9825258-9825338 0.00067 26_[+2]_46 chrIV:10820249-10820329 0.00074 16_[+2]_56 chrIII:11947727-11947807 0.00078 15_[+2]_57 chrV:1599256-1599336 0.00085 69_[+2]_3 chrIII:5405801-5405881 0.00085 [+2]_72 chrV:185833-185913 0.0012 34_[+2]_38 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RAGAAAAA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF RAGAAAAA width=8 seqs=70 chrV:3388430-3388510 ( 68) GAGAAAAA 1 chrIII:1819277-1819357 ( 4) GAGAAAAA 1 chrV:123651-123731 ( 47) GAGAAAAA 1 chrIII:1243369-1243449 ( 24) GAGAAAAA 1 chrIII:620440-620520 ( 7) GAGAAAAA 1 chrIII:11496637-11496717 ( 65) GAGAAAAA 1 chrI:11964969-11965049 ( 30) GAGAAAAA 1 chrI:13391288-13391368 ( 48) GAGAAAAA 1 chrIII:3034626-3034706 ( 64) GAGAAAAA 1 chrIII:12305106-12305186 ( 45) AAGAAAAA 1 chrIII:4808084-4808164 ( 58) AAGAAAAA 1 chrI:5485349-5485429 ( 19) AAGAAAAA 1 chrII:12352255-12352335 ( 51) AAGAAAAA 1 chrII:3911422-3911502 ( 2) AAGAAAAA 1 chrI:8010443-8010523 ( 59) GAGAGAAA 1 chrII:5338443-5338523 ( 20) CAGAAAAA 1 chrI:395294-395374 ( 18) GAGAGAAA 1 chrII:8483352-8483432 ( 30) GAGAGAAA 1 chrIV:8830692-8830772 ( 44) GAGAGAAA 1 chrII:7025581-7025661 ( 19) GAGAGAAA 1 chrIII:7911814-7911894 ( 73) CAGAAAAA 1 chrI:8291110-8291190 ( 21) CAGAAAAA 1 chrIII:2733888-2733968 ( 65) GAGAGAAA 1 chrII:10197248-10197328 ( 65) GCGAAAAA 1 chrI:10560490-10560570 ( 52) GCGAAAAA 1 chrIII:11834941-11835021 ( 67) GAAAAAAA 1 chrI:13287268-13287348 ( 56) GGGAAAAA 1 chrIII:1962670-1962750 ( 2) GGGAAAAA 1 chrIV:11364149-11364229 ( 2) GAGGAAAA 1 chrIV:7948514-7948594 ( 48) GAGGAAAA 1 chrI:5127546-5127626 ( 22) AAGAGAAA 1 chrI:4650993-4651073 ( 56) GAGGAAAA 1 chrIII:11139066-11139146 ( 47) AAGAGAAA 1 chrI:9616391-9616471 ( 68) CAGAGAAA 1 chrII:4726259-4726339 ( 1) CAGAGAAA 1 chrI:14647563-14647643 ( 52) ACGAAAAA 1 chrIII:7829079-7829159 ( 33) ACGAAAAA 1 chrIII:1279292-1279372 ( 34) ACGAAAAA 1 chrIV:383483-383563 ( 34) ACGAAAAA 1 chrII:13036889-13036969 ( 73) AAAAAAAA 1 chrIII:12839051-12839131 ( 33) AAAAAAAA 1 chrI:12571089-12571169 ( 13) AAAAAAAA 1 chrIII:3637422-3637502 ( 29) AAAAAAAA 1 chrIV:3814722-3814802 ( 59) CAAAAAAA 1 chrII:2831350-2831430 ( 56) GAAAGAAA 1 chrII:3129148-3129228 ( 56) CAAAAAAA 1 chrIII:4849917-4849997 ( 50) GAAAGAAA 1 chrI:7726606-7726686 ( 5) CAAAAAAA 1 chrII:15197661-15197741 ( 45) AGGAAAAA 1 chrV:10022946-10023026 ( 35) AGGAAAAA 1 chrI:2642375-2642455 ( 25) GCAAAAAA 1 chrII:10450546-10450626 ( 40) GCAAAAAA 1 chrV:6606352-6606432 ( 48) AAGGAAAA 1 chrV:6657598-6657678 ( 53) CGGAAAAA 1 chrI:10478217-10478297 ( 51) GGGAGAAA 1 chrI:6949508-6949588 ( 25) CGGAAAAA 1 chrI:3684599-3684679 ( 58) CAGGAAAA 1 chrII:6609576-6609656 ( 11) GAGGGAAA 1 chrIII:7087368-7087448 ( 62) GCGGAAAA 1 chrI:11577519-11577599 ( 1) CCGAGAAA 1 chrI:8412939-8413019 ( 31) GAAGAAAA 1 chrIV:10843080-10843160 ( 3) CAAAGAAA 1 chrIII:3396158-3396238 ( 44) CAAAGAAA 1 chrX:924615-924695 ( 63) ACAAAAAA 1 chrIV:9825258-9825338 ( 27) GGGGAAAA 1 chrIV:10820249-10820329 ( 17) CCAAAAAA 1 chrIII:11947727-11947807 ( 16) ACGGAAAA 1 chrV:1599256-1599336 ( 70) AGAAAAAA 1 chrIII:5405801-5405881 ( 1) GAGAAAGA 1 chrV:185833-185913 ( 35) GAGAGAGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RAGAAAAA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.40933 E= 4.3e-006 11 -6 114 -1277 131 -26 -78 -1277 -11 -1277 175 -1277 163 -1277 -63 -1277 142 -1277 22 -1277 185 -1277 -1277 -1277 181 -1277 -295 -1277 185 -1277 -1277 -1277 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RAGAAAAA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 70 E= 4.3e-006 0.300000 0.214286 0.485714 0.000000 0.685714 0.185714 0.128571 0.000000 0.257143 0.000000 0.742857 0.000000 0.857143 0.000000 0.142857 0.000000 0.742857 0.000000 0.257143 0.000000 1.000000 0.000000 0.000000 0.000000 0.971429 0.000000 0.028571 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RAGAAAAA MEME-2 regular expression -------------------------------------------------------------------------------- [GAC]A[GA]A[AG]AAA -------------------------------------------------------------------------------- Time 10.31 secs. ******************************************************************************** ******************************************************************************** MOTIF TTKCGAAA MEME-3 width = 8 sites = 28 llr = 252 E-value = 7.4e-005 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTKCGAAA MEME-3 Description -------------------------------------------------------------------------------- Simplified A :::::7aa pos.-specific C :::8:3:: probability G ::6:a::: matrix T aa43:::: bits 2.2 * 2.0 * 1.7 ** * ** 1.5 ** * ** Relative 1.3 ** ** ** Entropy 1.1 ******** (13.0 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TTGCGAAA consensus TT C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCGAAA MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrI:1628709-1628789 54 1.79e-05 TGCCATTTCC TTGCGAAA TATTGCAGAA chrIII:12305106-12305186 53 1.79e-05 GGAAGAAAAA TTGCGAAA CCCAATTTTT chrV:5131551-5131631 30 1.79e-05 TGTCAGCAAA TTGCGAAA TCTTTTTTCC chrIII:7165891-7165971 1 1.79e-05 . TTGCGAAA CACTATTTCT chrV:3803532-3803612 35 1.79e-05 CGAAAATATG TTGCGAAA TTGGGAGAGG chrIII:8355247-8355327 18 1.79e-05 CGGCAAAACA TTGCGAAA TTTCGGAATA chrI:10728800-10728880 38 1.79e-05 CTGGCCGCGA TTGCGAAA TATTTTGCAT chrII:11578477-11578557 27 1.79e-05 GCAAAGGCGA TTGCGAAA TCAAGTCATA chrII:8457565-8457645 52 1.79e-05 TTTTGACGGG TTGCGAAA TCGGTCGAAA chrIII:9956836-9956916 17 1.79e-05 GCAACCCGAA TTGCGAAA TCGAGAGGGG chrII:2831350-2831430 13 4.05e-05 AGACCAAGAA TTTCGAAA TCGCGGCGGC chrIV:6601375-6601455 31 4.05e-05 CCTCCTTCTA TTTCGAAA TCAATGTTTC chrII:3662030-3662110 13 4.05e-05 TAGCTATCAT TTTCGAAA CCTCACGTTC chrI:1050956-1051036 56 4.05e-05 GCCACGTCGA TTTCGAAA TCCGGATTTT chrI:9616391-9616471 12 7.31e-05 CTAAACATGG TTTCGCAA GTGCGCCCCA chrV:6606352-6606432 3 7.31e-05 TG TTTCGCAA TGTGTTTGTG chrIII:1284741-1284821 45 7.31e-05 ATTGCATATT TTTCGCAA AAGGTTGCGT chrI:4650993-4651073 9 7.31e-05 AAAAGAAA TTTCGCAA TAAAGCGGTG chrV:5081096-5081176 46 7.31e-05 TTAGGAAATA TTTCGCAA CAGTCAAAGG chrIII:3703553-3703633 14 7.31e-05 TGCATGCGCA TTTCGCAA GACTTCCATT chrI:13391288-13391368 1 7.31e-05 . TTTCGCAA TAGTAGGCGG chrIV:8205374-8205454 10 9.54e-05 AACGGTGTG TTGTGAAA GAATTGATTG chrV:2250288-2250368 7 9.54e-05 TGTGTA TTGTGAAA TTGGTCAAAT chrI:10485139-10485219 40 9.54e-05 ATGAAGAAAT TTGTGAAA AGAGTTCAAT chrII:10607599-10607679 19 9.54e-05 TGAATTAATA TTGTGAAA TATAAGAAAT chrII:6609576-6609656 70 9.54e-05 CAAACCATTT TTGTGAAA TCG chrV:20162584-20162664 4 1.24e-04 CAT TTTTGAAA ATTTCATCAC chrIII:11139066-11139146 18 1.42e-04 TTATACAATG TTGTGCAA CGCTCCACAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCGAAA MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:1628709-1628789 1.8e-05 53_[+3]_19 chrIII:12305106-12305186 1.8e-05 52_[+3]_20 chrV:5131551-5131631 1.8e-05 29_[+3]_43 chrIII:7165891-7165971 1.8e-05 [+3]_72 chrV:3803532-3803612 1.8e-05 34_[+3]_38 chrIII:8355247-8355327 1.8e-05 17_[+3]_55 chrI:10728800-10728880 1.8e-05 37_[+3]_35 chrII:11578477-11578557 1.8e-05 26_[+3]_46 chrII:8457565-8457645 1.8e-05 51_[+3]_21 chrIII:9956836-9956916 1.8e-05 16_[+3]_56 chrII:2831350-2831430 4.1e-05 12_[+3]_60 chrIV:6601375-6601455 4.1e-05 30_[+3]_42 chrII:3662030-3662110 4.1e-05 12_[+3]_60 chrI:1050956-1051036 4.1e-05 55_[+3]_17 chrI:9616391-9616471 7.3e-05 11_[+3]_61 chrV:6606352-6606432 7.3e-05 2_[+3]_70 chrIII:1284741-1284821 7.3e-05 44_[+3]_28 chrI:4650993-4651073 7.3e-05 8_[+3]_64 chrV:5081096-5081176 7.3e-05 45_[+3]_27 chrIII:3703553-3703633 7.3e-05 13_[+3]_59 chrI:13391288-13391368 7.3e-05 [+3]_72 chrIV:8205374-8205454 9.5e-05 9_[+3]_63 chrV:2250288-2250368 9.5e-05 6_[+3]_66 chrI:10485139-10485219 9.5e-05 39_[+3]_33 chrII:10607599-10607679 9.5e-05 18_[+3]_54 chrII:6609576-6609656 9.5e-05 69_[+3]_3 chrV:20162584-20162664 0.00012 3_[+3]_69 chrIII:11139066-11139146 0.00014 17_[+3]_55 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCGAAA MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTKCGAAA width=8 seqs=28 chrI:1628709-1628789 ( 54) TTGCGAAA 1 chrIII:12305106-12305186 ( 53) TTGCGAAA 1 chrV:5131551-5131631 ( 30) TTGCGAAA 1 chrIII:7165891-7165971 ( 1) TTGCGAAA 1 chrV:3803532-3803612 ( 35) TTGCGAAA 1 chrIII:8355247-8355327 ( 18) TTGCGAAA 1 chrI:10728800-10728880 ( 38) TTGCGAAA 1 chrII:11578477-11578557 ( 27) TTGCGAAA 1 chrII:8457565-8457645 ( 52) TTGCGAAA 1 chrIII:9956836-9956916 ( 17) TTGCGAAA 1 chrII:2831350-2831430 ( 13) TTTCGAAA 1 chrIV:6601375-6601455 ( 31) TTTCGAAA 1 chrII:3662030-3662110 ( 13) TTTCGAAA 1 chrI:1050956-1051036 ( 56) TTTCGAAA 1 chrI:9616391-9616471 ( 12) TTTCGCAA 1 chrV:6606352-6606432 ( 3) TTTCGCAA 1 chrIII:1284741-1284821 ( 45) TTTCGCAA 1 chrI:4650993-4651073 ( 9) TTTCGCAA 1 chrV:5081096-5081176 ( 46) TTTCGCAA 1 chrIII:3703553-3703633 ( 14) TTTCGCAA 1 chrI:13391288-13391368 ( 1) TTTCGCAA 1 chrIV:8205374-8205454 ( 10) TTGTGAAA 1 chrV:2250288-2250368 ( 7) TTGTGAAA 1 chrI:10485139-10485219 ( 40) TTGTGAAA 1 chrII:10607599-10607679 ( 19) TTGTGAAA 1 chrII:6609576-6609656 ( 70) TTGTGAAA 1 chrV:20162584-20162664 ( 4) TTTTGAAA 1 chrIII:11139066-11139146 ( 18) TTGTGCAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCGAAA MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.95252 E= 7.4e-005 -1145 -1145 -1145 184 -1145 -1145 -1145 184 -1145 -1145 137 62 -1145 175 -1145 -16 -1145 -1145 218 -1145 137 36 -1145 -1145 185 -1145 -1145 -1145 185 -1145 -1145 -1145 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCGAAA MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 28 E= 7.4e-005 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.571429 0.428571 0.000000 0.750000 0.000000 0.250000 0.000000 0.000000 1.000000 0.000000 0.714286 0.285714 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCGAAA MEME-3 regular expression -------------------------------------------------------------------------------- TT[GT][CT]G[AC]AA -------------------------------------------------------------------------------- Time 13.86 secs. ******************************************************************************** ******************************************************************************** MOTIF GGGGGGGG MEME-4 width = 8 sites = 14 llr = 146 E-value = 4.2e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGGGGGGG MEME-4 Description -------------------------------------------------------------------------------- Simplified A ::1:::1: pos.-specific C :::2:::: probability G aa97aa9a matrix T :::1:::: bits 2.2 ** ** * 2.0 ** ** * 1.7 ** ** * 1.5 *** **** Relative 1.3 *** **** Entropy 1.1 ******** (15.1 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GGGGGGGG consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGGGG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrI:11280848-11280928 21 5.49e-06 CTCTCTCGCG GGGGGGGG GGGGTACCCC chrI:8010443-8010523 50 5.49e-06 gagagagaga gggggggg agagagaaat chrIII:3977143-3977223 34 5.49e-06 GGTTCGATGG GGGGGGGG GGGAGTTGAA chrII:2831350-2831430 32 5.49e-06 CGCGGCGGCG GGGGGGGG GGTCACATGG chrI:11577519-11577599 12 5.49e-06 CGAGAAACGG GGGGGGGG GTAAAAGTCT chrIII:11496637-11496717 37 5.49e-06 TACCGTGGGG GGGGGGGG GACACCGCCC chrIII:3034626-3034706 10 5.49e-06 ATGGCGGGG GGGGGGGG GCAATAGAGT chrIV:17118775-17118855 4 1.11e-05 TGT GGGCGGGG CGAGCGTCGG chrIII:120363-120443 13 1.11e-05 TCAGTCTGAC GGGCGGGG CTCAAATTGG chrII:13166069-13166149 41 2.49e-05 CCGCTAGTTC GGAGGGGG CATGTGATTG chrIII:6168984-6169064 17 2.49e-05 AAGCGACAAC GGGGGGAG AACGTGTCGA chrI:3684599-3684679 28 2.49e-05 TAAACTATTG GGAGGGGG CGAGGTGGTG chrI:10728800-10728880 16 3.18e-05 TGTACAAAAG GGGTGGGG CGTCCTGGCC chrIII:12839051-12839131 66 4.58e-05 GGGAAACCGA GGGCGGAG TCCAAGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGGGG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:11280848-11280928 5.5e-06 20_[+4]_52 chrI:8010443-8010523 5.5e-06 49_[+4]_23 chrIII:3977143-3977223 5.5e-06 33_[+4]_39 chrII:2831350-2831430 5.5e-06 31_[+4]_41 chrI:11577519-11577599 5.5e-06 11_[+4]_61 chrIII:11496637-11496717 5.5e-06 36_[+4]_36 chrIII:3034626-3034706 5.5e-06 9_[+4]_63 chrIV:17118775-17118855 1.1e-05 3_[+4]_69 chrIII:120363-120443 1.1e-05 12_[+4]_60 chrII:13166069-13166149 2.5e-05 40_[+4]_32 chrIII:6168984-6169064 2.5e-05 16_[+4]_56 chrI:3684599-3684679 2.5e-05 27_[+4]_45 chrI:10728800-10728880 3.2e-05 15_[+4]_57 chrIII:12839051-12839131 4.6e-05 65_[+4]_7 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGGGG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGGGGGGG width=8 seqs=14 chrI:11280848-11280928 ( 21) GGGGGGGG 1 chrI:8010443-8010523 ( 50) GGGGGGGG 1 chrIII:3977143-3977223 ( 34) GGGGGGGG 1 chrII:2831350-2831430 ( 32) GGGGGGGG 1 chrI:11577519-11577599 ( 12) GGGGGGGG 1 chrIII:11496637-11496717 ( 37) GGGGGGGG 1 chrIII:3034626-3034706 ( 10) GGGGGGGG 1 chrIV:17118775-17118855 ( 4) GGGCGGGG 1 chrIII:120363-120443 ( 13) GGGCGGGG 1 chrII:13166069-13166149 ( 41) GGAGGGGG 1 chrIII:6168984-6169064 ( 17) GGGGGGAG 1 chrI:3684599-3684679 ( 28) GGAGGGGG 1 chrI:10728800-10728880 ( 16) GGGTGGGG 1 chrIII:12839051-12839131 ( 66) GGGCGGAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGGGG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 12.0178 E= 4.2e-003 -1045 -1045 218 -1045 -1045 -1045 218 -1045 -96 -1045 196 -1045 -1045 -6 170 -197 -1045 -1045 218 -1045 -1045 -1045 218 -1045 -96 -1045 196 -1045 -1045 -1045 218 -1045 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGGGG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 14 E= 4.2e-003 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.142857 0.000000 0.857143 0.000000 0.000000 0.214286 0.714286 0.071429 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.142857 0.000000 0.857143 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGGGG MEME-4 regular expression -------------------------------------------------------------------------------- GGG[GC]GGGG -------------------------------------------------------------------------------- Time 17.37 secs. ******************************************************************************** ******************************************************************************** MOTIF CTSYBTCT MEME-5 width = 8 sites = 57 llr = 431 E-value = 4.1e-005 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTSYBTCT MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::1:::: pos.-specific C a:562:7: probability G ::5:5:1: matrix T :a:33a2a bits 2.2 * 2.0 * 1.7 ** * 1.5 ** * * Relative 1.3 ** * * Entropy 1.1 *** *** (10.9 bits) 0.9 *** *** 0.7 **** *** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CTCCGTCT consensus GTT T sequence C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTSYBTCT MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:2231021-2231101 47 1.18e-05 CTCTCACATG CTCCGTCT TTACATTTTT chrV:910765-910845 46 1.18e-05 GTGTTTTTCT CTCCGTCT CCCTAtctct chrIV:17333691-17333771 72 1.18e-05 CTGTCAGTTT CTCCGTCT T chrII:9113954-9114034 60 2.35e-05 TGGCAACTGT CTGCGTCT CTTCGTCTTA chrV:7587813-7587893 39 2.35e-05 CCTTTTTCGC CTGCGTCT CTCGAAATCT chrI:6945703-6945783 55 2.35e-05 GTTCAACTTC CTGCGTCT CTCGTGTTTT chrV:15497908-15497988 12 2.35e-05 GTCGTATGCT CTGCGTCT CTCCATGTAT chrIV:4394113-4394193 52 2.35e-05 AATCGATTTT CTGCGTCT CTTGGTCTTT chrV:5081096-5081176 17 2.35e-05 GTGTAGCCGT CTGCGTCT ATTCCTTAAC chrIII:3703553-3703633 34 2.35e-05 CTTCCATTCT CTGCGTCT CTCTCCTTCT chrI:6611377-6611457 71 2.35e-05 CGTTAACTGT CTGCGTCT TT chrV:16966799-16966879 31 2.35e-05 GCTGGTGCGC CTGCGTCT CTGCGCTGTC chrII:12691483-12691563 50 5.04e-05 TTGTCGTCGT CTCCTTCT CCTCCTGTGC chrIII:7165891-7165971 32 5.04e-05 TTCCGTGGGT CTCCCTCT TTCCATGCCT chrIV:6601375-6601455 22 5.04e-05 CGTAGCACAC CTCCTTCT ATTTCGAAAT chrX:13669797-13669877 51 5.04e-05 TACGCCCTCC CTCCTTCT TTCTACTATC chrV:185833-185913 9 7.70e-05 GTGAATGT CTGCTTCT CTACACTCTC chrIV:12079069-12079149 62 7.70e-05 CGCCTCGTGC CTGCCTCT CCCATCGCTC chrIV:11298687-11298767 39 7.70e-05 TAGTCACTCA CTGCTTCT TGGGCTACGT chrI:7857669-7857749 56 9.18e-05 TGCTGGCGTT CTCTGTCT CCAAAAATTG chrI:7494707-7494787 68 1.06e-04 CTCGTGTTGT CTGTGTCT GGCAC chrII:10445908-10445988 9 1.06e-04 CGTTTTGC CTGTGTCT CTTCATCTCA chrX:381151-381231 14 1.06e-04 CAAAAAGCAC CTGTGTCT CTTTTCTCGA chrI:10045979-10046059 10 1.55e-04 tctctctct ctctctct ctctctcGAA chrIII:12305106-12305186 71 1.55e-04 CCCAATTTTT CTCTTTCT CT chrII:8041809-8041889 30 1.55e-04 CGCTACGACA CTCCGTTT GAATTCTGCG chrI:6914119-6914199 69 1.55e-04 TTCGGCCGCT CTCTCTCT TTAC chrIII:11947727-11947807 33 1.55e-04 ACCTATGCCT CTCTTTCT CTCACCGCAC chrIII:5380051-5380131 26 1.55e-04 GCAAAGTTTT CTCCGTTT TCTCAAGAAA chrIII:10463840-10463920 61 1.55e-04 CActttctct ctctctct cattcctttc chrV:1467140-1467220 43 1.55e-04 ACCTCTGTGC CTCTTTCT CTCTCATCTA chrI:8839243-8839323 59 1.55e-04 ctctctctca ctctctct TTTCAATTGA chrI:12194329-12194409 26 1.55e-04 TGCATACAGT CTCTCTCT GTGCACAGTG chrV:6462760-6462840 56 2.03e-04 CTTCAACTGT CTGCGTTT CTTCCACACA chrV:2281679-2281759 45 2.03e-04 TCATTCTTTT CTGTCTCT CGGCAACATA chrII:8138170-8138250 34 2.03e-04 GAATGAGAGG CTGCGTTT TGTCATCATG chrII:8457565-8457645 20 2.03e-04 CCGTCCGCCT CTGTTTCT CTGTTTGCGC chrIII:120363-120443 2 2.17e-04 A CTCAGTCT GACGGGCGGG chrIV:274328-274408 23 2.66e-04 CTGAATGTCT CTGAGTCT CTCAGTTTGT chrIII:5405801-5405881 34 2.66e-04 GGCAGATACT CTCCTTTT GCGGTAGTTT chrI:6949508-6949588 66 2.66e-04 TTTGGTTGTT CTCCTTTT CGTAATT chrI:2800981-2801061 16 2.66e-04 TCACTGCTGT CTCCTTTT ACACAGAGAT chrI:9105110-9105190 45 3.11e-04 CTAATGATGC CTGCTTTT TGGTAGTAAA chrI:11497972-11498052 70 3.11e-04 CACACACACT CTCCGTGT CTA chrV:635766-635846 28 3.11e-04 AGACGAGTGT CTCCGTGT ACGCGGCCGA chrI:310884-310964 45 3.74e-04 CTACAGTTTG CTGCGTGT AAGCGCGCTC chrV:10022946-10023026 71 3.74e-04 TCGTTTAAGG CTCACTCT TC chrIII:2947405-2947485 60 4.25e-04 CTCTCGTCGT CTGATTCT CTGCATTTCC chrI:13812419-13812499 43 4.25e-04 AGACTCCCCT CTGATTCT CAATGGAGCG chrII:5907646-5907726 39 4.25e-04 CGTACATCCA CTGACTCT TTCGGCAGCA chrIII:11197355-11197435 48 5.04e-04 ACGCAACATT CTCTTTTT TTTTTGGTTG chrI:8010443-8010523 1 5.04e-04 . CTCTCTTT TCTAAATTTA chrV:1156050-1156130 71 5.04e-04 TCTCTCTTTT CTCTCTTT TT chrI:13031490-13031570 72 5.04e-04 TCGCCTCAAC CTCCGCCT A chrII:3119057-3119137 33 5.04e-04 GGCCTTTTCC CTCTTTTT CTCTCGTCTC chrIII:3637422-3637502 42 5.30e-04 AAAAACACAC CTGCCTGT GTTGTCTACC chrV:1599256-1599336 22 6.68e-04 agcaatctcc ctccccct tcgtttccac -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTSYBTCT MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:2231021-2231101 1.2e-05 46_[+5]_26 chrV:910765-910845 1.2e-05 45_[+5]_27 chrIV:17333691-17333771 1.2e-05 71_[+5]_1 chrII:9113954-9114034 2.3e-05 59_[+5]_13 chrV:7587813-7587893 2.3e-05 38_[+5]_34 chrI:6945703-6945783 2.3e-05 54_[+5]_18 chrV:15497908-15497988 2.3e-05 11_[+5]_61 chrIV:4394113-4394193 2.3e-05 51_[+5]_21 chrV:5081096-5081176 2.3e-05 16_[+5]_56 chrIII:3703553-3703633 2.3e-05 33_[+5]_39 chrI:6611377-6611457 2.3e-05 70_[+5]_2 chrV:16966799-16966879 2.3e-05 30_[+5]_42 chrII:12691483-12691563 5e-05 49_[+5]_23 chrIII:7165891-7165971 5e-05 31_[+5]_41 chrIV:6601375-6601455 5e-05 21_[+5]_51 chrX:13669797-13669877 5e-05 50_[+5]_22 chrV:185833-185913 7.7e-05 8_[+5]_64 chrIV:12079069-12079149 7.7e-05 61_[+5]_11 chrIV:11298687-11298767 7.7e-05 38_[+5]_34 chrI:7857669-7857749 9.2e-05 55_[+5]_17 chrI:7494707-7494787 0.00011 67_[+5]_5 chrII:10445908-10445988 0.00011 8_[+5]_64 chrX:381151-381231 0.00011 13_[+5]_59 chrI:10045979-10046059 0.00015 9_[+5]_63 chrIII:12305106-12305186 0.00015 70_[+5]_2 chrII:8041809-8041889 0.00015 29_[+5]_43 chrI:6914119-6914199 0.00015 68_[+5]_4 chrIII:11947727-11947807 0.00015 32_[+5]_40 chrIII:5380051-5380131 0.00015 25_[+5]_47 chrIII:10463840-10463920 0.00015 60_[+5]_12 chrV:1467140-1467220 0.00015 42_[+5]_30 chrI:8839243-8839323 0.00015 58_[+5]_14 chrI:12194329-12194409 0.00015 25_[+5]_47 chrV:6462760-6462840 0.0002 55_[+5]_17 chrV:2281679-2281759 0.0002 44_[+5]_28 chrII:8138170-8138250 0.0002 33_[+5]_39 chrII:8457565-8457645 0.0002 19_[+5]_53 chrIII:120363-120443 0.00022 1_[+5]_71 chrIV:274328-274408 0.00027 22_[+5]_50 chrIII:5405801-5405881 0.00027 33_[+5]_39 chrI:6949508-6949588 0.00027 65_[+5]_7 chrI:2800981-2801061 0.00027 15_[+5]_57 chrI:9105110-9105190 0.00031 44_[+5]_28 chrI:11497972-11498052 0.00031 69_[+5]_3 chrV:635766-635846 0.00031 27_[+5]_45 chrI:310884-310964 0.00037 44_[+5]_28 chrV:10022946-10023026 0.00037 70_[+5]_2 chrIII:2947405-2947485 0.00043 59_[+5]_13 chrI:13812419-13812499 0.00043 42_[+5]_30 chrII:5907646-5907726 0.00043 38_[+5]_34 chrIII:11197355-11197435 0.0005 47_[+5]_25 chrI:8010443-8010523 0.0005 [+5]_72 chrV:1156050-1156130 0.0005 70_[+5]_2 chrI:13031490-13031570 0.0005 71_[+5]_1 chrII:3119057-3119137 0.0005 32_[+5]_40 chrIII:3637422-3637502 0.00053 41_[+5]_31 chrV:1599256-1599336 0.00067 21_[+5]_51 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTSYBTCT MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTSYBTCT width=8 seqs=57 chrV:2231021-2231101 ( 47) CTCCGTCT 1 chrV:910765-910845 ( 46) CTCCGTCT 1 chrIV:17333691-17333771 ( 72) CTCCGTCT 1 chrII:9113954-9114034 ( 60) CTGCGTCT 1 chrV:7587813-7587893 ( 39) CTGCGTCT 1 chrI:6945703-6945783 ( 55) CTGCGTCT 1 chrV:15497908-15497988 ( 12) CTGCGTCT 1 chrIV:4394113-4394193 ( 52) CTGCGTCT 1 chrV:5081096-5081176 ( 17) CTGCGTCT 1 chrIII:3703553-3703633 ( 34) CTGCGTCT 1 chrI:6611377-6611457 ( 71) CTGCGTCT 1 chrV:16966799-16966879 ( 31) CTGCGTCT 1 chrII:12691483-12691563 ( 50) CTCCTTCT 1 chrIII:7165891-7165971 ( 32) CTCCCTCT 1 chrIV:6601375-6601455 ( 22) CTCCTTCT 1 chrX:13669797-13669877 ( 51) CTCCTTCT 1 chrV:185833-185913 ( 9) CTGCTTCT 1 chrIV:12079069-12079149 ( 62) CTGCCTCT 1 chrIV:11298687-11298767 ( 39) CTGCTTCT 1 chrI:7857669-7857749 ( 56) CTCTGTCT 1 chrI:7494707-7494787 ( 68) CTGTGTCT 1 chrII:10445908-10445988 ( 9) CTGTGTCT 1 chrX:381151-381231 ( 14) CTGTGTCT 1 chrI:10045979-10046059 ( 10) CTCTCTCT 1 chrIII:12305106-12305186 ( 71) CTCTTTCT 1 chrII:8041809-8041889 ( 30) CTCCGTTT 1 chrI:6914119-6914199 ( 69) CTCTCTCT 1 chrIII:11947727-11947807 ( 33) CTCTTTCT 1 chrIII:5380051-5380131 ( 26) CTCCGTTT 1 chrIII:10463840-10463920 ( 61) CTCTCTCT 1 chrV:1467140-1467220 ( 43) CTCTTTCT 1 chrI:8839243-8839323 ( 59) CTCTCTCT 1 chrI:12194329-12194409 ( 26) CTCTCTCT 1 chrV:6462760-6462840 ( 56) CTGCGTTT 1 chrV:2281679-2281759 ( 45) CTGTCTCT 1 chrII:8138170-8138250 ( 34) CTGCGTTT 1 chrII:8457565-8457645 ( 20) CTGTTTCT 1 chrIII:120363-120443 ( 2) CTCAGTCT 1 chrIV:274328-274408 ( 23) CTGAGTCT 1 chrIII:5405801-5405881 ( 34) CTCCTTTT 1 chrI:6949508-6949588 ( 66) CTCCTTTT 1 chrI:2800981-2801061 ( 16) CTCCTTTT 1 chrI:9105110-9105190 ( 45) CTGCTTTT 1 chrI:11497972-11498052 ( 70) CTCCGTGT 1 chrV:635766-635846 ( 28) CTCCGTGT 1 chrI:310884-310964 ( 45) CTGCGTGT 1 chrV:10022946-10023026 ( 71) CTCACTCT 1 chrIII:2947405-2947485 ( 60) CTGATTCT 1 chrI:13812419-13812499 ( 43) CTGATTCT 1 chrII:5907646-5907726 ( 39) CTGACTCT 1 chrIII:11197355-11197435 ( 48) CTCTTTTT 1 chrI:8010443-8010523 ( 1) CTCTCTTT 1 chrV:1156050-1156130 ( 71) CTCTCTTT 1 chrI:13031490-13031570 ( 72) CTCCGCCT 1 chrII:3119057-3119137 ( 33) CTCTTTTT 1 chrIII:3637422-3637502 ( 42) CTGCCTGT 1 chrV:1599256-1599336 ( 22) CTCCCCCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTSYBTCT MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.0004 E= 4.1e-005 -1248 217 -1248 -1248 -1248 -1248 -1248 184 -1248 129 105 -1248 -140 138 -1248 18 -1248 14 105 9 -1248 -267 -1248 179 -1248 169 -165 -41 -1248 -1248 -1248 184 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTSYBTCT MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 57 E= 4.1e-005 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.543860 0.456140 0.000000 0.105263 0.578947 0.000000 0.315789 0.000000 0.245614 0.456140 0.298246 0.000000 0.035088 0.000000 0.964912 0.000000 0.719298 0.070175 0.210526 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTSYBTCT MEME-5 regular expression -------------------------------------------------------------------------------- CT[CG][CT][GTC]T[CT]T -------------------------------------------------------------------------------- Time 20.85 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIII:9956836-9956916 4.55e-02 16_[+3(1.79e-05)]_56 chrIV:6618766-6618846 6.10e-01 80 chrI:3412436-3412516 1.95e-01 80 chrV:16966799-16966879 8.06e-02 30_[+5(2.35e-05)]_42 chrIV:13786884-13786964 3.88e-01 80 chrI:5358134-5358214 5.96e-01 80 chrII:6609576-6609656 1.27e-02 69_[+3(9.54e-05)]_3 chrII:3119057-3119137 5.36e-01 80 chrV:12599641-12599721 5.31e-01 80 chrI:3684599-3684679 1.89e-03 27_[+4(2.49e-05)]_45 chrI:3805783-3805863 1.19e-02 43_[+1(5.99e-05)]_29 chrIII:6551287-6551367 3.32e-01 80 chrI:12954704-12954784 7.40e-01 80 chrIII:11989976-11990056 4.03e-01 80 chrV:2218993-2219073 7.51e-01 80 chrIII:3637422-3637502 6.21e-02 80 chrIII:11139066-11139146 1.14e-02 80 chrX:13669797-13669877 1.41e-01 50_[+5(5.04e-05)]_22 chrII:10607599-10607679 1.41e-01 18_[+3(9.54e-05)]_54 chrIII:3034626-3034706 5.35e-04 5_[+4(5.49e-06)]_24_[+2(4.94e-05)]_\ 18_[+2(2.19e-05)]_9 chrI:10485139-10485219 7.89e-02 39_[+3(9.54e-05)]_33 chrII:8457565-8457645 5.32e-03 51_[+3(1.79e-05)]_21 chrIII:1962670-1962750 9.43e-02 80 chrII:7662512-7662592 8.00e-01 80 chrIII:2733888-2733968 2.34e-02 64_[+2(8.89e-05)]_8 chrI:13391288-13391368 2.34e-04 [+3(7.31e-05)]_39_[+2(2.19e-05)]_2_\ [+2(8.89e-05)]_15 chrIII:188488-188568 3.47e-01 80 chrIII:6168984-6169064 5.10e-03 16_[+4(2.49e-05)]_56 chrI:1050956-1051036 2.21e-01 55_[+3(4.05e-05)]_17 chrII:11578477-11578557 3.51e-02 26_[+3(1.79e-05)]_46 chrI:946063-946143 1.96e-01 80 chrX:5845442-5845522 6.98e-01 80 chrV:635766-635846 8.05e-02 80 chrI:6611377-6611457 6.04e-04 22_[+1(4.58e-05)]_40_[+5(2.35e-05)]_\ 2 chrI:7726606-7726686 2.61e-01 80 chrV:10441660-10441740 9.79e-01 80 chrIV:9321297-9321377 3.52e-01 80 chrII:8162398-8162478 7.38e-01 80 chrIII:3703553-3703633 3.84e-03 13_[+3(7.31e-05)]_12_[+5(2.35e-05)]_\ 2_[+5(5.04e-05)]_29 chrV:7983785-7983865 4.81e-01 80 chrI:12194329-12194409 5.36e-03 11_[+1(5.99e-05)]_61 chrI:8291110-8291190 1.75e-03 20_[+2(8.89e-05)]_52 chrII:3662030-3662110 3.63e-02 12_[+3(4.05e-05)]_60 chrI:2800981-2801061 5.01e-01 80 chrIV:17333691-17333771 4.92e-04 15_[+1(1.13e-05)]_48_[+5(1.18e-05)]_\ 1 chrI:11964969-11965049 4.31e-03 29_[+2(2.19e-05)]_43 chrI:13031490-13031570 5.60e-01 80 chrX:8605211-8605291 2.42e-01 80 chrIV:12527358-12527438 4.18e-01 80 chrIV:3739041-3739121 6.02e-02 39_[+1(4.58e-05)]_33 chrI:545577-545657 6.91e-01 80 chrII:4715809-4715889 5.92e-01 80 chrIII:7911814-7911894 9.41e-02 72_[+2(8.89e-05)] chrI:6949508-6949588 7.09e-04 80 chrV:910765-910845 1.35e-01 45_[+5(1.18e-05)]_27 chrIV:383483-383563 1.00e-01 80 chrIII:5163007-5163087 7.45e-01 80 chrIV:2846400-2846480 3.09e-02 62_[+1(1.13e-05)]_10 chrV:5081096-5081176 3.14e-03 16_[+5(2.35e-05)]_21_[+3(7.31e-05)]_\ 27 chrIV:9825258-9825338 1.70e-01 80 chrI:9963763-9963843 9.14e-01 80 chrI:8839243-8839323 2.95e-01 80 chrI:4650993-4651073 1.56e-02 8_[+3(7.31e-05)]_64 chrI:10728800-10728880 1.25e-03 15_[+4(3.18e-05)]_14_[+3(1.79e-05)]_\ 35 chrIV:10858769-10858849 7.86e-01 80 chrI:1687827-1687907 1.25e-01 80 chrX:14104717-14104797 9.60e-01 80 chrV:1467140-1467220 5.05e-03 3_[+1(1.13e-05)]_69 chrI:7676254-7676334 7.59e-01 80 chrIII:10463840-10463920 4.31e-02 80 chrV:494462-494542 8.47e-01 80 chrIII:5380051-5380131 2.99e-02 80 chrII:1663719-1663799 1.93e-02 6_[+1(1.13e-05)]_66 chrII:13166069-13166149 2.40e-02 40_[+4(2.49e-05)]_32 chrIII:5405801-5405881 7.18e-04 9_[+1(9.66e-05)]_63 chrIV:7561902-7561982 7.74e-02 43_[+1(3.16e-05)]_29 chrV:20162584-20162664 3.34e-01 80 chrI:8412939-8413019 9.36e-02 80 chrV:20832013-20832093 2.77e-01 80 chrV:7681544-7681624 7.39e-01 80 chrIII:11496637-11496717 1.16e-04 32_[+4(5.49e-06)]_24_[+2(2.19e-05)]_\ 8 chrIII:3396158-3396238 2.36e-01 80 chrII:8034102-8034182 8.98e-01 80 chrIV:10820249-10820329 3.36e-01 80 chrI:11497972-11498052 3.11e-01 80 chrIII:4404488-4404568 9.17e-02 47_[+1(9.66e-05)]_25 chrI:8852528-8852608 4.96e-01 80 chrIV:12361874-12361954 2.98e-01 21_[+1(9.66e-05)]_51 chrIII:620440-620520 1.06e-01 6_[+2(2.19e-05)]_66 chrIII:7087368-7087448 2.19e-01 80 chrII:3911422-3911502 1.20e-01 1_[+2(4.94e-05)]_71 chrIII:11981722-11981802 8.78e-01 80 chrI:9014094-9014174 3.61e-01 80 chrIII:1243369-1243449 2.32e-05 15_[+1(1.13e-05)]_[+2(2.19e-05)]_49 chrX:381151-381231 4.69e-02 80 chrI:13287268-13287348 7.14e-02 80 chrII:5907646-5907726 4.31e-01 80 chrII:7025581-7025661 1.92e-01 18_[+2(8.89e-05)]_54 chrI:10478217-10478297 1.60e-03 29_[+1(1.13e-05)]_43 chrIII:11947727-11947807 1.92e-02 80 chrIII:9528967-9529047 2.08e-01 80 chrIV:8830692-8830772 2.32e-02 43_[+2(8.89e-05)]_29 chrX:16144055-16144135 1.71e-01 80 chrI:13812419-13812499 1.14e-01 80 chrI:5420457-5420537 2.82e-01 80 chrII:8567076-8567156 4.69e-01 80 chrIII:11834941-11835021 2.98e-02 80 chrV:11140537-11140617 7.53e-01 80 chrV:123651-123731 3.38e-02 46_[+2(2.19e-05)]_26 chrV:6657598-6657678 3.09e-02 80 chrIV:9333196-9333276 8.76e-01 80 chrIII:1284741-1284821 5.87e-02 44_[+3(7.31e-05)]_28 chrII:12352255-12352335 7.98e-04 34_[+1(2.02e-05)]_8_[+2(4.94e-05)]_\ 22 chrIII:64125-64205 2.75e-01 80 chrI:9105110-9105190 1.27e-01 80 chrII:4726259-4726339 2.04e-01 80 chrV:3586193-3586273 3.81e-02 80 chrIV:5369024-5369104 7.48e-01 80 chrI:7857669-7857749 6.90e-02 55_[+5(9.18e-05)]_17 chrIV:2709840-2709920 6.05e-01 80 chrV:12697634-12697714 4.13e-01 80 chrV:10022946-10023026 8.33e-02 80 chrI:2020128-2020208 6.08e-01 80 chrI:6914119-6914199 3.39e-01 80 chrI:663611-663691 7.86e-01 80 chrIV:4471613-4471693 9.42e-03 9_[+1(5.99e-05)]_63 chrIV:2896164-2896244 4.06e-01 80 chrII:11965027-11965107 6.81e-01 80 chrIII:1819277-1819357 3.79e-02 3_[+2(2.19e-05)]_69 chrV:1156050-1156130 7.42e-01 80 chrIII:8268431-8268511 9.33e-01 80 chrIII:1279292-1279372 1.08e-01 80 chrII:11169008-11169088 6.09e-02 80 chrII:8138170-8138250 3.86e-02 80 chrIV:6601375-6601455 6.14e-03 21_[+5(5.04e-05)]_1_[+3(4.05e-05)]_\ 42 chrIII:4849917-4849997 1.30e-02 80 chrIII:120363-120443 1.03e-03 12_[+4(1.11e-05)]_60 chrV:6606352-6606432 8.95e-03 2_[+3(7.31e-05)]_70 chrI:12571089-12571169 2.11e-02 80 chrI:10560490-10560570 4.17e-03 80 chrV:7804227-7804307 2.63e-01 80 chrII:9738992-9739072 7.84e-01 80 chrIV:4394113-4394193 2.20e-01 51_[+5(2.35e-05)]_21 chrII:8965006-8965086 4.61e-01 80 chrIV:9932205-9932285 7.48e-02 80 chrV:19982287-19982367 1.00e-01 80 chrV:15497908-15497988 1.59e-01 11_[+5(2.35e-05)]_18_[+5(2.35e-05)]_\ 35 chrI:2857743-2857823 5.07e-01 80 chrI:13411554-13411634 3.99e-03 11_[+1(1.13e-05)]_61 chrII:5689130-5689210 4.35e-01 80 chrV:10661806-10661886 5.10e-01 80 chrII:11814104-11814184 9.12e-02 80 chrV:20147896-20147976 6.43e-01 80 chrI:11577519-11577599 1.79e-03 9_[+4(5.49e-06)]_63 chrV:2231021-2231101 4.96e-02 46_[+5(1.18e-05)]_26 chrII:15197661-15197741 2.32e-01 80 chrI:11870263-11870343 1.18e-01 80 chrIII:8355247-8355327 1.48e-02 17_[+3(1.79e-05)]_55 chrIII:3307491-3307571 8.64e-01 80 chrI:8608876-8608956 6.52e-02 80 chrIII:11251774-11251854 4.75e-01 80 chrIV:6522476-6522556 2.99e-02 80 chrII:8483352-8483432 2.22e-04 15_[+1(4.58e-05)]_6_[+2(8.89e-05)]_\ 43 chrX:14349885-14349965 6.92e-01 80 chrV:3803532-3803612 3.07e-05 34_[+3(1.79e-05)]_13_[+1(1.13e-05)]_\ 17 chrII:6683865-6683945 8.57e-01 80 chrIV:11298687-11298767 1.47e-01 38_[+5(7.70e-05)]_34 chrII:8041809-8041889 9.04e-02 80 chrV:3088534-3088614 7.19e-01 80 chrIII:7829079-7829159 1.22e-01 80 chrII:50929-51009 7.50e-01 80 chrI:13381578-13381658 3.67e-01 80 chrI:2077024-2077104 5.77e-01 80 chrV:1599256-1599336 4.80e-02 80 chrI:4804635-4804715 9.94e-01 80 chrI:4672265-4672345 7.30e-01 80 chrV:2250288-2250368 3.30e-01 6_[+3(9.54e-05)]_66 chrI:6945703-6945783 2.88e-02 54_[+5(2.35e-05)]_18 chrV:2281679-2281759 5.69e-01 80 chrI:13289845-13289925 6.06e-01 80 chrIV:10197468-10197548 1.96e-01 80 chrIV:3368839-3368919 5.77e-01 80 chrII:10445908-10445988 1.91e-01 80 chrIV:16845492-16845572 7.99e-01 80 chrV:1262458-1262538 6.35e-01 80 chrX:11933701-11933781 3.17e-01 80 chrI:2312367-2312447 8.95e-01 80 chrV:7587813-7587893 1.02e-03 38_[+5(2.35e-05)]_34 chrV:6615376-6615456 5.42e-01 80 chrI:395294-395374 1.63e-03 2_[+2(8.89e-05)]_7_[+2(8.89e-05)]_\ 34_[+1(1.13e-05)]_13 chrII:3129148-3129228 1.13e-02 37_[+1(1.13e-05)]_35 chrIV:8205374-8205454 3.82e-04 9_[+3(9.54e-05)]_53_[+1(2.02e-05)]_\ 2 chrIII:5810119-5810199 8.32e-01 80 chrIII:7165891-7165971 1.85e-03 [+3(1.79e-05)]_23_[+5(5.04e-05)]_41 chrIV:12079069-12079149 2.24e-01 61_[+5(7.70e-05)]_11 chrII:2831350-2831430 6.75e-05 12_[+3(4.05e-05)]_10_[+4(5.49e-06)]_\ 42 chrIV:5549023-5549103 4.74e-01 80 chrIII:12424192-12424272 9.87e-02 39_[+1(9.66e-05)]_33 chrI:5485349-5485429 8.50e-03 18_[+2(4.94e-05)]_54 chrX:15340851-15340931 3.28e-01 80 chrII:10450546-10450626 4.36e-01 80 chrI:2642375-2642455 6.33e-02 80 chrV:3388430-3388510 2.44e-02 67_[+2(2.19e-05)]_5 chrII:9113954-9114034 4.26e-02 59_[+5(2.35e-05)]_13 chrIII:4785877-4785957 4.15e-01 80 chrI:5127546-5127626 5.70e-02 80 chrI:7494707-7494787 3.30e-01 80 chrI:14647563-14647643 6.46e-03 65_[+1(1.13e-05)]_7 chrV:185833-185913 6.13e-04 8_[+5(7.70e-05)]_53_[+1(1.13e-05)]_\ 3 chrI:13290996-13291076 8.69e-02 38_[+1(9.66e-05)]_34 chrIII:12839051-12839131 5.63e-03 65_[+4(4.58e-05)]_7 chrIII:4808084-4808164 2.20e-01 57_[+2(4.94e-05)]_15 chrIV:8922168-8922248 1.44e-03 6_[+1(3.16e-05)]_66 chrI:12904054-12904134 7.42e-01 80 chrV:5131551-5131631 1.18e-04 29_[+3(1.79e-05)]_30_[+1(1.13e-05)]_\ 5 chrI:9616391-9616471 7.35e-03 11_[+3(7.31e-05)]_61 chrII:12691483-12691563 1.27e-01 49_[+5(5.04e-05)]_23 chrII:5338443-5338523 6.26e-02 19_[+2(8.89e-05)]_53 chrV:14597967-14598047 3.46e-01 80 chrIV:274328-274408 1.93e-01 80 chrV:15156675-15156755 7.90e-02 80 chrIV:17118775-17118855 5.54e-02 3_[+4(1.11e-05)]_69 chrIII:3977143-3977223 1.65e-03 31_[+4(5.49e-06)]_41 chrIII:12305106-12305186 4.45e-05 44_[+2(4.94e-05)]_[+3(1.79e-05)]_20 chrV:12041260-12041340 1.56e-01 80 chrX:15376757-15376837 3.56e-01 80 chrI:8010443-8010523 2.99e-05 49_[+4(5.49e-06)]_1_[+2(8.89e-05)]_\ 14 chrII:11297382-11297462 1.32e-01 80 chrX:15007047-15007127 5.40e-01 80 chrIV:4720715-4720795 2.47e-01 80 chrIV:11149082-11149162 8.65e-02 80 chrIII:11197355-11197435 1.61e-01 80 chrIV:10843080-10843160 3.51e-01 80 chrIII:7357507-7357587 5.90e-01 80 chrI:310884-310964 8.31e-02 80 chrII:13036889-13036969 3.15e-03 80 chrIII:2947405-2947485 1.93e-01 80 chrV:19190113-19190193 2.01e-01 80 chrIII:3855010-3855090 1.09e-01 80 chrI:10045979-10046059 3.31e-01 80 chrV:6462760-6462840 2.68e-01 80 chrI:1628709-1628789 4.59e-02 53_[+3(1.79e-05)]_19 chrIV:3814722-3814802 6.58e-02 80 chrII:10197248-10197328 2.43e-02 80 chrIII:9474718-9474798 7.06e-02 80 chrX:924615-924695 2.64e-03 80 chrIV:7948514-7948594 4.40e-03 31_[+1(9.66e-05)]_41 chrIV:11364149-11364229 1.70e-01 80 chrI:2065511-2065591 8.22e-01 80 chrI:11280848-11280928 1.39e-02 19_[+4(5.49e-06)]_22_[+4(5.45e-05)]_\ 23 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n09.farnam.hpc.yale.internal ********************************************************************************