******************************************************************************** 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/sup-37.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrV:11888118-11888198 1.0000 80 chrV:730445-730525 1.0000 80 chrI:7081902-7081982 1.0000 80 chrV:11082586-11082666 1.0000 80 chrIV:4407169-4407249 1.0000 80 chrX:4957473-4957553 1.0000 80 chrIII:10819886-10819966 1.0000 80 chrII:2454953-2455033 1.0000 80 chrI:4433144-4433224 1.0000 80 chrX:6741154-6741234 1.0000 80 chrV:7804472-7804552 1.0000 80 chrII:12349990-12350070 1.0000 80 chrIV:3654369-3654449 1.0000 80 chrV:6768664-6768744 1.0000 80 chrI:9089038-9089118 1.0000 80 chrV:4694751-4694831 1.0000 80 chrV:8811443-8811523 1.0000 80 chrV:728008-728088 1.0000 80 chrII:6892007-6892087 1.0000 80 chrII:8012615-8012695 1.0000 80 chrV:11824130-11824210 1.0000 80 chrX:17459037-17459117 1.0000 80 chrIV:4454427-4454507 1.0000 80 chrI:3248636-3248716 1.0000 80 chrIII:7217181-7217261 1.0000 80 chrIII:4284854-4284934 1.0000 80 chrIII:3066137-3066217 1.0000 80 chrIV:5600409-5600489 1.0000 80 chrX:12175804-12175884 1.0000 80 chrIV:7506033-7506113 1.0000 80 chrI:4804372-4804452 1.0000 80 chrII:5593461-5593541 1.0000 80 chrIII:235276-235356 1.0000 80 chrIV:16415742-16415822 1.0000 80 chrI:7283797-7283877 1.0000 80 chrIII:12556397-12556477 1.0000 80 chrII:506167-506247 1.0000 80 chrX:9330917-9330997 1.0000 80 chrIV:658090-658170 1.0000 80 chrIV:12010639-12010719 1.0000 80 chrI:14945688-14945768 1.0000 80 chrII:98150-98230 1.0000 80 chrV:4131593-4131673 1.0000 80 chrX:1504878-1504958 1.0000 80 chrII:2565062-2565142 1.0000 80 chrIII:12273755-12273835 1.0000 80 chrI:9374797-9374877 1.0000 80 chrI:2864116-2864196 1.0000 80 chrII:5336393-5336473 1.0000 80 chrI:4436786-4436866 1.0000 80 chrV:12491198-12491278 1.0000 80 chrII:11167298-11167378 1.0000 80 chrV:20716908-20716988 1.0000 80 chrX:10684753-10684833 1.0000 80 chrV:4502157-4502237 1.0000 80 chrV:4143279-4143359 1.0000 80 chrII:3553574-3553654 1.0000 80 chrX:15376751-15376831 1.0000 80 chrX:4960659-4960739 1.0000 80 chrV:729331-729411 1.0000 80 chrIII:9868287-9868367 1.0000 80 chrI:6175207-6175287 1.0000 80 chrIII:11935768-11935848 1.0000 80 chrI:7126465-7126545 1.0000 80 chrIV:7103444-7103524 1.0000 80 chrII:7945310-7945390 1.0000 80 chrI:7660338-7660418 1.0000 80 chrII:7323539-7323619 1.0000 80 chrV:8570022-8570102 1.0000 80 chrV:1471340-1471420 1.0000 80 chrIII:4113807-4113887 1.0000 80 chrII:7836710-7836790 1.0000 80 chrX:15335129-15335209 1.0000 80 chrIII:4720994-4721074 1.0000 80 chrII:5701598-5701678 1.0000 80 chrIII:1558601-1558681 1.0000 80 chrII:9099145-9099225 1.0000 80 chrIV:10222125-10222205 1.0000 80 chrII:10558990-10559070 1.0000 80 chrI:10262218-10262298 1.0000 80 chrI:2582635-2582715 1.0000 80 chrV:19428932-19429012 1.0000 80 chrIII:6402569-6402649 1.0000 80 chrV:979877-979957 1.0000 80 chrV:10672721-10672801 1.0000 80 chrI:3032858-3032938 1.0000 80 chrX:13353563-13353643 1.0000 80 chrI:10752140-10752220 1.0000 80 chrII:14598536-14598616 1.0000 80 chrIII:13719534-13719614 1.0000 80 chrX:12877011-12877091 1.0000 80 chrI:7866350-7866430 1.0000 80 chrX:13358710-13358790 1.0000 80 chrV:11886206-11886286 1.0000 80 chrIII:8136714-8136794 1.0000 80 chrI:3648200-3648280 1.0000 80 chrI:4769630-4769710 1.0000 80 chrIII:3279396-3279476 1.0000 80 chrX:4142264-4142344 1.0000 80 chrV:731499-731579 1.0000 80 chrV:2127130-2127210 1.0000 80 chrV:9094380-9094460 1.0000 80 chrII:5599663-5599743 1.0000 80 chrIII:778011-778091 1.0000 80 chrI:11664944-11665024 1.0000 80 chrIII:10717711-10717791 1.0000 80 chrX:3825994-3826074 1.0000 80 chrV:7435192-7435272 1.0000 80 chrIV:15570890-15570970 1.0000 80 chrII:5321943-5322023 1.0000 80 chrIV:7049985-7050065 1.0000 80 chrIV:6555881-6555961 1.0000 80 chrX:12876066-12876146 1.0000 80 chrV:11083849-11083929 1.0000 80 chrIII:3036914-3036994 1.0000 80 chrV:11532070-11532150 1.0000 80 chrII:6838992-6839072 1.0000 80 chrIV:8947219-8947299 1.0000 80 chrV:10719020-10719100 1.0000 80 chrIII:10064312-10064392 1.0000 80 chrIV:4468344-4468424 1.0000 80 chrX:6742973-6743053 1.0000 80 chrIII:11090530-11090610 1.0000 80 chrX:12519112-12519192 1.0000 80 chrX:13350009-13350089 1.0000 80 chrIII:3271812-3271892 1.0000 80 chrII:4094333-4094413 1.0000 80 chrX:5215589-5215669 1.0000 80 chrI:1273899-1273979 1.0000 80 chrII:10543339-10543419 1.0000 80 chrII:285757-285837 1.0000 80 chrX:16931629-16931709 1.0000 80 chrX:14813536-14813616 1.0000 80 chrX:16131197-16131277 1.0000 80 chrI:2996074-2996154 1.0000 80 chrV:6225975-6226055 1.0000 80 chrIV:3385389-3385469 1.0000 80 chrX:382930-383010 1.0000 80 chrIII:8785539-8785619 1.0000 80 chrX:12179141-12179221 1.0000 80 chrII:4999326-4999406 1.0000 80 chrII:9601363-9601443 1.0000 80 chrV:15566630-15566710 1.0000 80 chrIII:6988223-6988303 1.0000 80 chrX:5210607-5210687 1.0000 80 chrII:12095232-12095312 1.0000 80 chrX:13396712-13396792 1.0000 80 chrV:725158-725238 1.0000 80 chrIV:4024275-4024355 1.0000 80 chrV:18990417-18990497 1.0000 80 chrV:16401683-16401763 1.0000 80 chrIV:2773660-2773740 1.0000 80 chrIV:2177697-2177777 1.0000 80 chrI:9097718-9097798 1.0000 80 chrII:12459600-12459680 1.0000 80 chrIII:9717297-9717377 1.0000 80 chrI:1481602-1481682 1.0000 80 chrV:8658733-8658813 1.0000 80 chrI:5660593-5660673 1.0000 80 chrIII:11063408-11063488 1.0000 80 chrIII:10507005-10507085 1.0000 80 chrIV:4446387-4446467 1.0000 80 chrIII:10844990-10845070 1.0000 80 chrI:7147749-7147829 1.0000 80 chrI:882752-882832 1.0000 80 chrX:2071566-2071646 1.0000 80 chrI:7085067-7085147 1.0000 80 chrI:6314864-6314944 1.0000 80 chrX:12975817-12975897 1.0000 80 chrIV:2676439-2676519 1.0000 80 chrII:13835073-13835153 1.0000 80 chrV:10858571-10858651 1.0000 80 chrIV:3311375-3311455 1.0000 80 chrII:4791446-4791526 1.0000 80 chrI:7656734-7656814 1.0000 80 chrIV:5817683-5817763 1.0000 80 chrI:9150319-9150399 1.0000 80 chrIII:5068958-5069038 1.0000 80 chrIV:867120-867200 1.0000 80 chrI:14058898-14058978 1.0000 80 chrIV:6879063-6879143 1.0000 80 chrV:773386-773466 1.0000 80 chrIV:1953320-1953400 1.0000 80 chrIII:3786821-3786901 1.0000 80 chrI:12654740-12654820 1.0000 80 chrX:6410533-6410613 1.0000 80 chrI:7701012-7701092 1.0000 80 chrIII:4280953-4281033 1.0000 80 chrII:6776791-6776871 1.0000 80 chrI:9168854-9168934 1.0000 80 chrI:4941137-4941217 1.0000 80 chrII:12787974-12788054 1.0000 80 chrIV:14327138-14327218 1.0000 80 chrII:4603167-4603247 1.0000 80 chrIV:11284168-11284248 1.0000 80 chrII:13157136-13157216 1.0000 80 chrX:11415086-11415166 1.0000 80 chrX:5782329-5782409 1.0000 80 chrII:10390569-10390649 1.0000 80 chrV:13086085-13086165 1.0000 80 chrX:3824645-3824725 1.0000 80 chrIV:2774697-2774777 1.0000 80 chrIII:3984093-3984173 1.0000 80 chrV:9545448-9545528 1.0000 80 chrII:2748435-2748515 1.0000 80 chrX:15365384-15365464 1.0000 80 chrII:10538097-10538177 1.0000 80 chrII:6822429-6822509 1.0000 80 chrV:14850731-14850811 1.0000 80 chrIV:3232920-3233000 1.0000 80 chrV:2600706-2600786 1.0000 80 chrIV:5754122-5754202 1.0000 80 chrV:5917864-5917944 1.0000 80 chrIII:11036270-11036350 1.0000 80 chrV:723984-724064 1.0000 80 chrI:1067136-1067216 1.0000 80 chrII:14822542-14822622 1.0000 80 chrI:3266125-3266205 1.0000 80 chrII:14600151-14600231 1.0000 80 chrV:16538038-16538118 1.0000 80 chrIII:2101072-2101152 1.0000 80 chrI:2586260-2586340 1.0000 80 chrX:11792029-11792109 1.0000 80 chrI:1070005-1070085 1.0000 80 chrI:12664984-12665064 1.0000 80 chrII:11376863-11376943 1.0000 80 chrX:11207130-11207210 1.0000 80 chrX:6378437-6378517 1.0000 80 chrIII:3953333-3953413 1.0000 80 chrV:5838800-5838880 1.0000 80 chrV:11764530-11764610 1.0000 80 chrIV:5604536-5604616 1.0000 80 chrIV:5591353-5591433 1.0000 80 chrV:2638671-2638751 1.0000 80 chrX:2972609-2972689 1.0000 80 chrII:24603-24683 1.0000 80 chrV:10871522-10871602 1.0000 80 chrIV:2220313-2220393 1.0000 80 chrIV:11956500-11956580 1.0000 80 chrX:15849607-15849687 1.0000 80 chrIII:10153276-10153356 1.0000 80 chrV:11822530-11822610 1.0000 80 chrX:8017546-8017626 1.0000 80 chrX:6255783-6255863 1.0000 80 chrIII:11066944-11067024 1.0000 80 chrX:6254019-6254099 1.0000 80 chrX:10772227-10772307 1.0000 80 chrV:8247975-8248055 1.0000 80 chrI:9790945-9791025 1.0000 80 chrII:10549487-10549567 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_sup-37/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/sup-37.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 0.266 C 0.232 G 0.237 T 0.265 Background letter frequencies (from file dataset with add-one prior applied): A 0.266 C 0.232 G 0.237 T 0.265 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GAGASRMR MEME-1 width = 8 sites = 67 llr = 480 E-value = 3.5e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif GAGASRMR MEME-1 Description -------------------------------------------------------------------------------- Simplified A :a3a2366 pos.-specific C ::::5:3: probability G a:7:3714 matrix T :::::::: bits 2.1 * 1.9 ** * 1.7 ** * 1.5 ** * Relative 1.3 ** * Entropy 1.1 **** * * (10.3 bits) 0.8 **** * * 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GAGACGAA consensus A GACG sequence A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGASRMR MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrI:9790945-9791025 54 1.55e-05 TATTCTCCGT GAGACGAA ATAGTGTAAC chrIII:10153276-10153356 64 1.55e-05 CGGGGACTCG GAGACGAA AAGCTCTTT chrI:3032858-3032938 44 1.55e-05 GCGTGCCAAC GAGACGAA GAATGCGCCA chrX:12175804-12175884 52 1.55e-05 GCGCATCTAT GAGACGAA AAGACAACAG chrIII:2101072-2101152 52 4.27e-05 TAAAAGTGTG GAGACGCA GACGGTTTAT chrIII:11036270-11036350 56 4.27e-05 TGCGCCTCGA GAGACGCA GACATTCGTA chrIV:2774697-2774777 32 4.27e-05 AGAGAGAGAA GAGACGCA GGTAGGAAAA chrI:7147749-7147829 30 4.27e-05 CTCGAATTGA GAGACGCA GATGAATCAG chrIII:8785539-8785619 67 4.27e-05 GAGAGTTTAC GAGACGCA GACAGA chrV:7435192-7435272 45 4.27e-05 GGTGAAATGC GAGACGCA GCCAGTTAGA chrIV:10222125-10222205 73 4.27e-05 AAAAGCAGAA GAGACGCA chrV:4143279-4143359 44 4.27e-05 GCGTTTCGCA GAGACGCA GAGATTCGAG chrIV:5600409-5600489 50 4.27e-05 TCGAGATGAA GAGACGCA GAAACAACGC chrIII:3066137-3066217 12 4.27e-05 agagagatga gagaCGCA GTAAAGTTCA chrV:728008-728088 40 4.27e-05 TCTGCCCGAC GAGACGCA GAGCGATAAG chrX:6378437-6378517 67 5.85e-05 AAAGAAGAGT GAGAGGAA ATGAAT chrIV:4454427-4454507 73 5.85e-05 TCTCTCATGC GAGAGGAA chrI:2586260-2586340 16 1.06e-04 GCCGGTCATT GAGAAGAA CAGAGGCCGA chrX:382930-383010 42 1.06e-04 ACTATAAACA GAGAAGAA ATAGTGTTGG chrI:3648200-3648280 40 1.06e-04 gagagaagga gagaagaa gagaggtaga chrII:14598536-14598616 27 1.06e-04 GTCGGCGCCA GAGACAAA AAGTCATGCT chrIV:5591353-5591433 53 1.23e-04 GATTAAAACC GAAACGAA AATGATGAGA chrV:11764530-11764610 38 1.23e-04 ACAATAAATC GAAACGAA AAGTTATGTG chrII:10538097-10538177 24 1.51e-04 CTCATTATCC GAGAGGAG TACATGGCCG chrIII:10844990-10845070 11 1.51e-04 TTGCTTGTCC GAGAGGAG TACGCAGGAA chrII:4999326-4999406 52 1.51e-04 TTGCGGAAGA GAGAGGCA AGATGAAAAT chrIII:1558601-1558681 16 1.51e-04 AAACTTGTCC GAGAGGAG TACACGTCAG chrII:2565062-2565142 13 1.51e-04 CCACTTGTCC GAGAGGAG TACACGACAA chrIV:16415742-16415822 29 1.51e-04 TCGTTTGTCC GAGAGGAG TACACGGCCG chrI:7656734-7656814 27 2.13e-04 TTGTCGCGGT GAGACAAG GGCTGTTGTC chrII:7836710-7836790 72 2.13e-04 GGGGTGAAAA GAGACAAG G chrV:12491198-12491278 3 2.13e-04 AC GAGACAAG CGGTGGAGAG chrV:4694751-4694831 14 2.13e-04 GGGAGGTTGT GAGACAAG ATATGTCATA chrV:10871522-10871602 41 2.87e-04 CTGATTGCTG GAGACGGA GACGGCGAGT chrV:731499-731579 12 2.87e-04 CGGGCAGCAC GAGAGAAA GAGCGTGATA chrIII:3279396-3279476 13 2.87e-04 CTGAGAAAGA GAGAGGCG CAGACAGTAA chrII:9099145-9099225 29 2.87e-04 GACAGGTCAG GAGAGGCG CACGAGAAAT chrX:9330917-9330997 38 2.87e-04 GGCATGATGC GAGAGAAA AAGAGCACGA chrIV:11284168-11284248 49 3.05e-04 CGGTGTGAAA GAAAGGAA GTTAGAGAGT chrIII:10717711-10717791 25 3.52e-04 ACAAAGTAGC GAGAAAAA CGAGAGATAG chrX:10684753-10684833 18 3.52e-04 GAGAATGATG GAGAAAAA GTAAGGAAAA chrIII:12273755-12273835 29 3.52e-04 GGAGAGCGCA GAGAAAAA CAGGGTTGTG chrX:6255783-6255863 57 4.05e-04 GAGCACCACA GAAACAAA AAGACAGGTC chrII:13157136-13157216 1 4.05e-04 . GAAACGCG CAAAGAAAGT chrI:7701012-7701092 44 4.05e-04 GAAAAAACTT GAAACGCG TCAGCAGATC chrIV:2676439-2676519 37 4.05e-04 GCGCGTGCGA GAAACGCG CCAGCACCGT chrV:8570022-8570102 29 4.05e-04 TCATGCACGA GAAACGCG CCAACAAATC chrIII:12556397-12556477 54 4.05e-04 CCGAGCCGCC GAAACAAA AAAACGATGA chrIV:7506033-7506113 24 4.80e-04 AGACTGAACT GAAAGGAG AAATTGAACT chrX:16131197-16131277 30 5.29e-04 ACGTTTCCCA GAGAAACA CGAGGAGTTG chrI:1273899-1273979 47 5.29e-04 AGAGAGTGCA GAGAAAAG TGAAAGTTTT chrIV:6555881-6555961 52 5.29e-04 GGTTTTAAAA GAGAGGGA ATTTCAAAAA chrIV:11956500-11956580 48 5.98e-04 ATGGCGCGAC GAAAAGAG AATCGTCTCG chrI:12654740-12654820 49 5.98e-04 CTCCTGTTTC GAAACAAG AGTGACACGC chrII:12095232-12095312 8 5.98e-04 TGGTTGC GAAACAAG ATTTTTGATT chrIV:14327138-14327218 21 6.43e-04 GGCCGTCGAG GAGAAGGA ACGCGGCGGC chrV:725158-725238 68 6.43e-04 ATCGGTCTGG GAGAAGGA ACTTG chrI:3248636-3248716 69 6.43e-04 TACACACATA GAGACAGA GGCA chrX:15849607-15849687 25 7.73e-04 AAATCTAGCA GAAAAAAA AATCCGAAAC chrI:9150319-9150399 52 7.73e-04 CGTACCCCAC GAAAAGCG GCGGCAAGTT chrIV:8947219-8947299 48 7.73e-04 AAAAATGACC GAAACACG TGCTCCATGG chrIII:9868287-9868367 55 7.73e-04 GCGGCCACCG GAAAAGCG CGGTTTTTCA chrI:7126465-7126545 6 8.50e-04 TACTT GAAAGAAG AGCGGAAAAT chrII:9601363-9601443 27 8.66e-04 TGCGATGGCC GAGAGAGA GGTAAGCAAA chrV:8247975-8248055 64 9.21e-04 GCTGTCGTTT GAAAGGGA AAGAGGAGG chrIII:4284854-4284934 72 9.21e-04 CGTATGGTTA GAAAAAAG A chrI:2582635-2582715 69 9.39e-04 TTGGTGGATA GAGAAAGA TTCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGASRMR MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:9790945-9791025 1.5e-05 53_[+1]_19 chrIII:10153276-10153356 1.5e-05 63_[+1]_9 chrI:3032858-3032938 1.5e-05 43_[+1]_29 chrX:12175804-12175884 1.5e-05 51_[+1]_21 chrIII:2101072-2101152 4.3e-05 51_[+1]_21 chrIII:11036270-11036350 4.3e-05 55_[+1]_17 chrIV:2774697-2774777 4.3e-05 31_[+1]_41 chrI:7147749-7147829 4.3e-05 29_[+1]_43 chrIII:8785539-8785619 4.3e-05 66_[+1]_6 chrV:7435192-7435272 4.3e-05 44_[+1]_28 chrIV:10222125-10222205 4.3e-05 72_[+1] chrV:4143279-4143359 4.3e-05 43_[+1]_29 chrIV:5600409-5600489 4.3e-05 49_[+1]_23 chrIII:3066137-3066217 4.3e-05 11_[+1]_61 chrV:728008-728088 4.3e-05 39_[+1]_33 chrX:6378437-6378517 5.9e-05 66_[+1]_6 chrIV:4454427-4454507 5.9e-05 72_[+1] chrI:2586260-2586340 0.00011 15_[+1]_57 chrX:382930-383010 0.00011 41_[+1]_31 chrI:3648200-3648280 0.00011 39_[+1]_33 chrII:14598536-14598616 0.00011 26_[+1]_46 chrIV:5591353-5591433 0.00012 52_[+1]_20 chrV:11764530-11764610 0.00012 37_[+1]_35 chrII:10538097-10538177 0.00015 23_[+1]_49 chrIII:10844990-10845070 0.00015 10_[+1]_62 chrII:4999326-4999406 0.00015 51_[+1]_21 chrIII:1558601-1558681 0.00015 15_[+1]_57 chrII:2565062-2565142 0.00015 12_[+1]_60 chrIV:16415742-16415822 0.00015 28_[+1]_44 chrI:7656734-7656814 0.00021 26_[+1]_46 chrII:7836710-7836790 0.00021 71_[+1]_1 chrV:12491198-12491278 0.00021 2_[+1]_70 chrV:4694751-4694831 0.00021 13_[+1]_59 chrV:10871522-10871602 0.00029 40_[+1]_32 chrV:731499-731579 0.00029 11_[+1]_61 chrIII:3279396-3279476 0.00029 12_[+1]_60 chrII:9099145-9099225 0.00029 28_[+1]_44 chrX:9330917-9330997 0.00029 37_[+1]_35 chrIV:11284168-11284248 0.0003 48_[+1]_24 chrIII:10717711-10717791 0.00035 24_[+1]_48 chrX:10684753-10684833 0.00035 17_[+1]_55 chrIII:12273755-12273835 0.00035 28_[+1]_44 chrX:6255783-6255863 0.0004 56_[+1]_16 chrII:13157136-13157216 0.0004 [+1]_72 chrI:7701012-7701092 0.0004 43_[+1]_29 chrIV:2676439-2676519 0.0004 36_[+1]_36 chrV:8570022-8570102 0.0004 28_[+1]_44 chrIII:12556397-12556477 0.0004 53_[+1]_19 chrIV:7506033-7506113 0.00048 23_[+1]_49 chrX:16131197-16131277 0.00053 29_[+1]_43 chrI:1273899-1273979 0.00053 46_[+1]_26 chrIV:6555881-6555961 0.00053 51_[+1]_21 chrIV:11956500-11956580 0.0006 47_[+1]_25 chrI:12654740-12654820 0.0006 48_[+1]_24 chrII:12095232-12095312 0.0006 7_[+1]_65 chrIV:14327138-14327218 0.00064 20_[+1]_52 chrV:725158-725238 0.00064 67_[+1]_5 chrI:3248636-3248716 0.00064 68_[+1]_4 chrX:15849607-15849687 0.00077 24_[+1]_48 chrI:9150319-9150399 0.00077 51_[+1]_21 chrIV:8947219-8947299 0.00077 47_[+1]_25 chrIII:9868287-9868367 0.00077 54_[+1]_18 chrI:7126465-7126545 0.00085 5_[+1]_67 chrII:9601363-9601443 0.00087 26_[+1]_46 chrV:8247975-8248055 0.00092 63_[+1]_9 chrIII:4284854-4284934 0.00092 71_[+1]_1 chrI:2582635-2582715 0.00094 68_[+1]_4 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGASRMR MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GAGASRMR width=8 seqs=67 chrI:9790945-9791025 ( 54) GAGACGAA 1 chrIII:10153276-10153356 ( 64) GAGACGAA 1 chrI:3032858-3032938 ( 44) GAGACGAA 1 chrX:12175804-12175884 ( 52) GAGACGAA 1 chrIII:2101072-2101152 ( 52) GAGACGCA 1 chrIII:11036270-11036350 ( 56) GAGACGCA 1 chrIV:2774697-2774777 ( 32) GAGACGCA 1 chrI:7147749-7147829 ( 30) GAGACGCA 1 chrIII:8785539-8785619 ( 67) GAGACGCA 1 chrV:7435192-7435272 ( 45) GAGACGCA 1 chrIV:10222125-10222205 ( 73) GAGACGCA 1 chrV:4143279-4143359 ( 44) GAGACGCA 1 chrIV:5600409-5600489 ( 50) GAGACGCA 1 chrIII:3066137-3066217 ( 12) GAGACGCA 1 chrV:728008-728088 ( 40) GAGACGCA 1 chrX:6378437-6378517 ( 67) GAGAGGAA 1 chrIV:4454427-4454507 ( 73) GAGAGGAA 1 chrI:2586260-2586340 ( 16) GAGAAGAA 1 chrX:382930-383010 ( 42) GAGAAGAA 1 chrI:3648200-3648280 ( 40) GAGAAGAA 1 chrII:14598536-14598616 ( 27) GAGACAAA 1 chrIV:5591353-5591433 ( 53) GAAACGAA 1 chrV:11764530-11764610 ( 38) GAAACGAA 1 chrII:10538097-10538177 ( 24) GAGAGGAG 1 chrIII:10844990-10845070 ( 11) GAGAGGAG 1 chrII:4999326-4999406 ( 52) GAGAGGCA 1 chrIII:1558601-1558681 ( 16) GAGAGGAG 1 chrII:2565062-2565142 ( 13) GAGAGGAG 1 chrIV:16415742-16415822 ( 29) GAGAGGAG 1 chrI:7656734-7656814 ( 27) GAGACAAG 1 chrII:7836710-7836790 ( 72) GAGACAAG 1 chrV:12491198-12491278 ( 3) GAGACAAG 1 chrV:4694751-4694831 ( 14) GAGACAAG 1 chrV:10871522-10871602 ( 41) GAGACGGA 1 chrV:731499-731579 ( 12) GAGAGAAA 1 chrIII:3279396-3279476 ( 13) GAGAGGCG 1 chrII:9099145-9099225 ( 29) GAGAGGCG 1 chrX:9330917-9330997 ( 38) GAGAGAAA 1 chrIV:11284168-11284248 ( 49) GAAAGGAA 1 chrIII:10717711-10717791 ( 25) GAGAAAAA 1 chrX:10684753-10684833 ( 18) GAGAAAAA 1 chrIII:12273755-12273835 ( 29) GAGAAAAA 1 chrX:6255783-6255863 ( 57) GAAACAAA 1 chrII:13157136-13157216 ( 1) GAAACGCG 1 chrI:7701012-7701092 ( 44) GAAACGCG 1 chrIV:2676439-2676519 ( 37) GAAACGCG 1 chrV:8570022-8570102 ( 29) GAAACGCG 1 chrIII:12556397-12556477 ( 54) GAAACAAA 1 chrIV:7506033-7506113 ( 24) GAAAGGAG 1 chrX:16131197-16131277 ( 30) GAGAAACA 1 chrI:1273899-1273979 ( 47) GAGAAAAG 1 chrIV:6555881-6555961 ( 52) GAGAGGGA 1 chrIV:11956500-11956580 ( 48) GAAAAGAG 1 chrI:12654740-12654820 ( 49) GAAACAAG 1 chrII:12095232-12095312 ( 8) GAAACAAG 1 chrIV:14327138-14327218 ( 21) GAGAAGGA 1 chrV:725158-725238 ( 68) GAGAAGGA 1 chrI:3248636-3248716 ( 69) GAGACAGA 1 chrX:15849607-15849687 ( 25) GAAAAAAA 1 chrI:9150319-9150399 ( 52) GAAAAGCG 1 chrIV:8947219-8947299 ( 48) GAAACACG 1 chrIII:9868287-9868367 ( 55) GAAAAGCG 1 chrI:7126465-7126545 ( 6) GAAAGAAG 1 chrII:9601363-9601443 ( 27) GAGAGAGA 1 chrV:8247975-8248055 ( 64) GAAAGGGA 1 chrIII:4284854-4284934 ( 72) GAAAAAAG 1 chrI:2582635-2582715 ( 69) GAGAAAGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGASRMR MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.44204 E= 3.5e-002 -1271 -1271 208 -1271 191 -1271 -1271 -1271 17 -1271 156 -1271 191 -1271 -1271 -1271 -15 109 18 -1271 37 -1271 147 -1271 106 50 -99 -1271 124 -1271 65 -1271 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGASRMR MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 67 E= 3.5e-002 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.298507 0.000000 0.701493 0.000000 1.000000 0.000000 0.000000 0.000000 0.238806 0.492537 0.268657 0.000000 0.343284 0.000000 0.656716 0.000000 0.552239 0.328358 0.119403 0.000000 0.626866 0.000000 0.373134 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGASRMR MEME-1 regular expression -------------------------------------------------------------------------------- GA[GA]A[CGA][GA][AC][AG] -------------------------------------------------------------------------------- Time 7.22 secs. ******************************************************************************** ******************************************************************************** MOTIF YSTYTCTC MEME-2 width = 8 sites = 82 llr = 562 E-value = 1.2e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif YSTYTCTC MEME-2 Description -------------------------------------------------------------------------------- Simplified A :1::1:2: pos.-specific C 43:6:91a probability G :4::::1: matrix T 61a4917: bits 2.1 * 1.9 * 1.7 * * * 1.5 * ** * Relative 1.3 * ** * Entropy 1.1 * **** * (9.9 bits) 0.8 * **** * 0.6 * ****** 0.4 * ****** 0.2 ******** 0.0 -------- Multilevel TGTCTCTC consensus CC T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YSTYTCTC MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:5604536-5604616 31 2.89e-05 AGACACCCCA TGTCTCTC CGCGTGGTTT chrIV:3232920-3233000 15 2.89e-05 CAACACGCAc tctctctc tgtttcgctc chrIII:3786821-3786901 33 2.89e-05 tctctctttc tctctctc tctctctctc chrV:773386-773466 37 2.89e-05 TTTCTCTGCG TCTCTCTC CTTCGCACAC chrI:1481602-1481682 44 2.89e-05 tctctctctc tctctctc tcCATCTTTC chrI:1273899-1273979 71 2.89e-05 TTTTTGtctc tctctctc tc chrIII:3271812-3271892 31 2.89e-05 ctcccctctc tctctctc tctctttctc chrIII:13719534-13719614 61 2.89e-05 TGTCCCGCCG TGTCTCTC CCGGCCCCTG chrI:10752140-10752220 55 2.89e-05 tctctctgtc tctctctc tctgttctgt chrV:979877-979957 52 2.89e-05 tctctctctc tctctctc tctctctctc chrIV:4454427-4454507 61 2.89e-05 TTTTCTCTGA TGTCTCTC ATGCGAGAGG chrII:2454953-2455033 52 2.89e-05 TGACTCACTG TCTCTCTC TTCAGCCCGC chrIV:4407169-4407249 47 2.89e-05 tctctctctc tctctctc tctctctctc chrV:16538038-16538118 2 5.42e-05 G CGTCTCTC ACGCCCAATG chrIV:5817683-5817763 50 5.42e-05 CCAATTTCTG CGTCTCTC CAATTTCAGA chrIV:3311375-3311455 46 5.42e-05 CCTATCTCTG CGTCTCTC ACGCCGGCAC chrIII:4113807-4113887 45 5.42e-05 ACAACGTCTG CGTCTCTC GCTTTAGATG chrV:11082586-11082666 73 5.42e-05 AGATACTGCT CGTCTCTC chrI:9790945-9791025 25 8.72e-05 TCTTTTCGTC TCTTTCTC GTCAAAATCA chrV:13086085-13086165 27 8.72e-05 GTGCTCCCTT TCTTTCTC TATATCTCTT chrI:14058898-14058978 20 8.72e-05 GCGCCGCCAT TGTTTCTC GGGGAGAGGT chrX:14813536-14813616 20 8.72e-05 TGTAGTTACT TGTTTCTC GTGGCTAACG chrII:6838992-6839072 56 8.72e-05 ACTACACTCG TGTTTCTC AACACACTGG chrIII:7217181-7217261 72 1.16e-04 TCAGTGGGTA CCTTTCTC T chrI:3248636-3248716 41 1.16e-04 CCGTTTGCTT CGTTTCTC CACATATATA chrIV:3654369-3654449 5 1.16e-04 CCCC CGTTTCTC CCGCCGGGTG chrV:7804472-7804552 57 1.16e-04 ATGGTCCTTC CGTTTCTC AATTTCTTCT chrI:4941137-4941217 66 1.49e-04 TCTCTCGATC TATCTCTC CAACTTT chrX:6742973-6743053 63 1.49e-04 CTTTCTCTCA TTTCTCTC ACTATTTACC chrX:15376751-15376831 2 1.49e-04 c tatctctc tGCGCGCGCC chrX:6741154-6741234 7 1.49e-04 ATGTAT TTTCTCTC GTACTCATCG chrV:10858571-10858651 56 1.77e-04 TTTCCCTCAA CATCTCTC CACACTCTCC chrI:9374797-9374877 6 1.77e-04 CCTTC CATCTCTC TTCTCCTTCA chrIV:4024275-4024355 3 2.06e-04 GC TCTCTCAC TTTCGCGCAC chrX:12179141-12179221 26 2.06e-04 GGGGGGGGGA TCTCTCAC CATAAAGACT chrV:12491198-12491278 64 2.06e-04 CTACCATCAG TGTCTCAC TAAAATCAT chrII:14822542-14822622 11 2.32e-04 TTTCTATAAT CCTCTCAC ACTCGCACAC chrX:15365384-15365464 43 2.32e-04 GCTGTCTCGC CGTCTCAC TCTCGCAACA chrIV:6879063-6879143 44 2.32e-04 TCGACTGCTC CCTCTCAC AGGCAATTCA chrII:12459600-12459680 36 2.32e-04 CGCCTCTCTG CGTCTCAC GCTCTCTCCC chrI:9097718-9097798 3 2.32e-04 ca cctctcac acaatctctc chrIV:11956500-11956580 67 2.69e-04 ATCGTCTCGT TTTTTCTC GCTTTT chrII:10538097-10538177 47 2.69e-04 GGCCGATAAT TATTTCTC GGCCGTGTAC chrV:16401683-16401763 16 2.69e-04 TTTTCGCGCG TTTTTCTC TGGTGGCCGC chrI:2996074-2996154 49 2.69e-04 CCAAACGCTA TTTTTCTC GAAGAGAACG chrIV:16415742-16415822 13 2.69e-04 AAAAAAATTA TTTTTCTC GTTTGTCCGA chrIV:8947219-8947299 6 3.02e-04 tttat cttttctc atttttcCAC chrX:12877011-12877091 53 3.02e-04 CCCGCTTCTT CATTTCTC TGCTCCTCTT chrX:13353563-13353643 56 3.02e-04 GTACAGTTGA CATTTCTC CGCATGATCA chrII:7945310-7945390 54 3.02e-04 TGTCTTTGCG CATTTCTC GTGTAAACTG chrII:6822429-6822509 26 3.60e-04 TCATCAATCG TCTTTCAC TGTCTCTGTC chrX:15335129-15335209 25 3.60e-04 GTTCCCTCGC TGTCTCCC GTTTTTTCCC chrV:8658733-8658813 44 4.11e-04 TTCCGACAAA CGTTTCAC GTTTCAAACT chrIII:11063408-11063488 36 4.37e-04 CTCCCCACAC TCTCTCGC Cgtctgcatt chrI:882752-882832 48 4.60e-04 CGTCGAGCGC CCTCTCGC GTCTGCAATG chrIV:4468344-4468424 69 4.60e-04 CTGCCGATCT CCTCTCGC CACA chrI:2864116-2864196 40 4.60e-04 GTCTCCACCT CGTCTCGC ACTATCTCCA chrX:6255783-6255863 73 5.50e-04 AAAAGACAGG TCTCACTC chrII:4603167-4603247 26 5.50e-04 TCATTGTTTT TGTTTCCC TGGCGCTACT chrV:4131593-4131673 43 5.50e-04 GAGGCGTAAC TCTCACTC AAAAGATCAG chrII:506167-506247 65 5.50e-04 GCGCACTTAT TTTCTCAC ACTATTTC chrI:1067136-1067216 18 6.30e-04 GTTGCTGACG CGTTTCCC GACGCTGACG chrIV:867120-867200 12 6.30e-04 TCATCACAGC CGTCACTC ACTGCGCTGC chrX:16131197-16131277 21 6.30e-04 GCCATTGGCA CGTTTCCC AGAGAAACAC chrIII:3953333-3953413 31 6.92e-04 AATGTCCATC TGTCTTTC TTTTTTCAAA chrI:9089038-9089118 47 6.92e-04 CTAAAGATGA TCTCTTTC GTCTTGAGAC chrV:4143279-4143359 35 7.47e-04 AGACAGCGCG CGTTTCGC AGAGACGCAG chrIV:1953320-1953400 44 8.46e-04 TAAATTTAGG TATTTCAC CAGGAAATAT chrI:7866350-7866430 71 8.46e-04 ATCCAAACCT TCTTACTC CT chrIV:2676439-2676519 64 9.33e-04 TACCTTGACG CGTTACTC GTCCAATTT chrX:5210607-5210687 43 9.33e-04 CGCTGCCCGC CTTCTCCC ACTCAAGGAA chrV:15566630-15566710 32 9.33e-04 CATGTGACTT CATCTCCC CAGTGACCAA chrI:7085067-7085147 72 1.00e-03 GTGAGCTTCG TCTTTTTC C chrII:8012615-8012695 48 1.00e-03 AATCTTGACT TGTTTTTC AAAATAAAAA chrIII:11090530-11090610 40 1.06e-03 TGTGTgccga catctcgc gggttccgcg chrV:14850731-14850811 2 1.15e-03 T TATCACTC ATAGGTCAGC chrV:1471340-1471420 45 1.23e-03 ATATTTTACA CTTTTCCC TGCGCTGCGG chrII:7323539-7323619 50 1.39e-03 TAGTTGTTTT CTTCTTTC AATACACGTA chrIV:7103444-7103524 24 1.39e-03 TGTGCGCCTT TGTCACAC TGCTGGCGCA chrV:6225975-6226055 26 1.52e-03 GTTGTAGCAA TCCTTCTC GGTGCCCCAA chrI:4804372-4804452 22 1.52e-03 ATTTTCCAGT TGTCTTAC AAAAAATCAA chrIII:10507005-10507085 60 1.60e-03 CCGTTTGACA CGCTTCTC GTCTTCTATT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YSTYTCTC MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:5604536-5604616 2.9e-05 30_[+2]_42 chrIV:3232920-3233000 2.9e-05 14_[+2]_58 chrIII:3786821-3786901 2.9e-05 32_[+2]_40 chrV:773386-773466 2.9e-05 36_[+2]_36 chrI:1481602-1481682 2.9e-05 43_[+2]_29 chrI:1273899-1273979 2.9e-05 70_[+2]_2 chrIII:3271812-3271892 2.9e-05 30_[+2]_42 chrIII:13719534-13719614 2.9e-05 60_[+2]_12 chrI:10752140-10752220 2.9e-05 54_[+2]_18 chrV:979877-979957 2.9e-05 51_[+2]_21 chrIV:4454427-4454507 2.9e-05 60_[+2]_12 chrII:2454953-2455033 2.9e-05 51_[+2]_21 chrIV:4407169-4407249 2.9e-05 46_[+2]_26 chrV:16538038-16538118 5.4e-05 1_[+2]_71 chrIV:5817683-5817763 5.4e-05 49_[+2]_23 chrIV:3311375-3311455 5.4e-05 45_[+2]_27 chrIII:4113807-4113887 5.4e-05 44_[+2]_28 chrV:11082586-11082666 5.4e-05 72_[+2] chrI:9790945-9791025 8.7e-05 24_[+2]_48 chrV:13086085-13086165 8.7e-05 26_[+2]_46 chrI:14058898-14058978 8.7e-05 19_[+2]_53 chrX:14813536-14813616 8.7e-05 19_[+2]_53 chrII:6838992-6839072 8.7e-05 55_[+2]_17 chrIII:7217181-7217261 0.00012 71_[+2]_1 chrI:3248636-3248716 0.00012 40_[+2]_32 chrIV:3654369-3654449 0.00012 4_[+2]_68 chrV:7804472-7804552 0.00012 56_[+2]_16 chrI:4941137-4941217 0.00015 65_[+2]_7 chrX:6742973-6743053 0.00015 62_[+2]_10 chrX:15376751-15376831 0.00015 1_[+2]_71 chrX:6741154-6741234 0.00015 6_[+2]_66 chrV:10858571-10858651 0.00018 55_[+2]_17 chrI:9374797-9374877 0.00018 5_[+2]_67 chrIV:4024275-4024355 0.00021 2_[+2]_70 chrX:12179141-12179221 0.00021 25_[+2]_47 chrV:12491198-12491278 0.00021 63_[+2]_9 chrII:14822542-14822622 0.00023 10_[+2]_62 chrX:15365384-15365464 0.00023 42_[+2]_30 chrIV:6879063-6879143 0.00023 43_[+2]_29 chrII:12459600-12459680 0.00023 35_[+2]_37 chrI:9097718-9097798 0.00023 2_[+2]_70 chrIV:11956500-11956580 0.00027 66_[+2]_6 chrII:10538097-10538177 0.00027 46_[+2]_26 chrV:16401683-16401763 0.00027 15_[+2]_57 chrI:2996074-2996154 0.00027 48_[+2]_24 chrIV:16415742-16415822 0.00027 12_[+2]_60 chrIV:8947219-8947299 0.0003 5_[+2]_67 chrX:12877011-12877091 0.0003 52_[+2]_20 chrX:13353563-13353643 0.0003 55_[+2]_17 chrII:7945310-7945390 0.0003 53_[+2]_19 chrII:6822429-6822509 0.00036 25_[+2]_47 chrX:15335129-15335209 0.00036 24_[+2]_48 chrV:8658733-8658813 0.00041 43_[+2]_29 chrIII:11063408-11063488 0.00044 35_[+2]_37 chrI:882752-882832 0.00046 47_[+2]_25 chrIV:4468344-4468424 0.00046 68_[+2]_4 chrI:2864116-2864196 0.00046 39_[+2]_33 chrX:6255783-6255863 0.00055 72_[+2] chrII:4603167-4603247 0.00055 25_[+2]_47 chrV:4131593-4131673 0.00055 42_[+2]_30 chrII:506167-506247 0.00055 64_[+2]_8 chrI:1067136-1067216 0.00063 17_[+2]_55 chrIV:867120-867200 0.00063 11_[+2]_61 chrX:16131197-16131277 0.00063 20_[+2]_52 chrIII:3953333-3953413 0.00069 30_[+2]_42 chrI:9089038-9089118 0.00069 46_[+2]_26 chrV:4143279-4143359 0.00075 34_[+2]_38 chrIV:1953320-1953400 0.00085 43_[+2]_29 chrI:7866350-7866430 0.00085 70_[+2]_2 chrIV:2676439-2676519 0.00093 63_[+2]_9 chrX:5210607-5210687 0.00093 42_[+2]_30 chrV:15566630-15566710 0.00093 31_[+2]_41 chrI:7085067-7085147 0.001 71_[+2]_1 chrII:8012615-8012695 0.001 47_[+2]_25 chrIII:11090530-11090610 0.0011 39_[+2]_33 chrV:14850731-14850811 0.0011 1_[+2]_71 chrV:1471340-1471420 0.0012 44_[+2]_28 chrII:7323539-7323619 0.0014 49_[+2]_23 chrIV:7103444-7103524 0.0014 23_[+2]_49 chrV:6225975-6226055 0.0015 25_[+2]_47 chrI:4804372-4804452 0.0015 21_[+2]_51 chrIII:10507005-10507085 0.0016 59_[+2]_13 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YSTYTCTC MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF YSTYTCTC width=8 seqs=82 chrIV:5604536-5604616 ( 31) TGTCTCTC 1 chrIV:3232920-3233000 ( 15) TCTCTCTC 1 chrIII:3786821-3786901 ( 33) TCTCTCTC 1 chrV:773386-773466 ( 37) TCTCTCTC 1 chrI:1481602-1481682 ( 44) TCTCTCTC 1 chrI:1273899-1273979 ( 71) TCTCTCTC 1 chrIII:3271812-3271892 ( 31) TCTCTCTC 1 chrIII:13719534-13719614 ( 61) TGTCTCTC 1 chrI:10752140-10752220 ( 55) TCTCTCTC 1 chrV:979877-979957 ( 52) TCTCTCTC 1 chrIV:4454427-4454507 ( 61) TGTCTCTC 1 chrII:2454953-2455033 ( 52) TCTCTCTC 1 chrIV:4407169-4407249 ( 47) TCTCTCTC 1 chrV:16538038-16538118 ( 2) CGTCTCTC 1 chrIV:5817683-5817763 ( 50) CGTCTCTC 1 chrIV:3311375-3311455 ( 46) CGTCTCTC 1 chrIII:4113807-4113887 ( 45) CGTCTCTC 1 chrV:11082586-11082666 ( 73) CGTCTCTC 1 chrI:9790945-9791025 ( 25) TCTTTCTC 1 chrV:13086085-13086165 ( 27) TCTTTCTC 1 chrI:14058898-14058978 ( 20) TGTTTCTC 1 chrX:14813536-14813616 ( 20) TGTTTCTC 1 chrII:6838992-6839072 ( 56) TGTTTCTC 1 chrIII:7217181-7217261 ( 72) CCTTTCTC 1 chrI:3248636-3248716 ( 41) CGTTTCTC 1 chrIV:3654369-3654449 ( 5) CGTTTCTC 1 chrV:7804472-7804552 ( 57) CGTTTCTC 1 chrI:4941137-4941217 ( 66) TATCTCTC 1 chrX:6742973-6743053 ( 63) TTTCTCTC 1 chrX:15376751-15376831 ( 2) TATCTCTC 1 chrX:6741154-6741234 ( 7) TTTCTCTC 1 chrV:10858571-10858651 ( 56) CATCTCTC 1 chrI:9374797-9374877 ( 6) CATCTCTC 1 chrIV:4024275-4024355 ( 3) TCTCTCAC 1 chrX:12179141-12179221 ( 26) TCTCTCAC 1 chrV:12491198-12491278 ( 64) TGTCTCAC 1 chrII:14822542-14822622 ( 11) CCTCTCAC 1 chrX:15365384-15365464 ( 43) CGTCTCAC 1 chrIV:6879063-6879143 ( 44) CCTCTCAC 1 chrII:12459600-12459680 ( 36) CGTCTCAC 1 chrI:9097718-9097798 ( 3) CCTCTCAC 1 chrIV:11956500-11956580 ( 67) TTTTTCTC 1 chrII:10538097-10538177 ( 47) TATTTCTC 1 chrV:16401683-16401763 ( 16) TTTTTCTC 1 chrI:2996074-2996154 ( 49) TTTTTCTC 1 chrIV:16415742-16415822 ( 13) TTTTTCTC 1 chrIV:8947219-8947299 ( 6) CTTTTCTC 1 chrX:12877011-12877091 ( 53) CATTTCTC 1 chrX:13353563-13353643 ( 56) CATTTCTC 1 chrII:7945310-7945390 ( 54) CATTTCTC 1 chrII:6822429-6822509 ( 26) TCTTTCAC 1 chrX:15335129-15335209 ( 25) TGTCTCCC 1 chrV:8658733-8658813 ( 44) CGTTTCAC 1 chrIII:11063408-11063488 ( 36) TCTCTCGC 1 chrI:882752-882832 ( 48) CCTCTCGC 1 chrIV:4468344-4468424 ( 69) CCTCTCGC 1 chrI:2864116-2864196 ( 40) CGTCTCGC 1 chrX:6255783-6255863 ( 73) TCTCACTC 1 chrII:4603167-4603247 ( 26) TGTTTCCC 1 chrV:4131593-4131673 ( 43) TCTCACTC 1 chrII:506167-506247 ( 65) TTTCTCAC 1 chrI:1067136-1067216 ( 18) CGTTTCCC 1 chrIV:867120-867200 ( 12) CGTCACTC 1 chrX:16131197-16131277 ( 21) CGTTTCCC 1 chrIII:3953333-3953413 ( 31) TGTCTTTC 1 chrI:9089038-9089118 ( 47) TCTCTTTC 1 chrV:4143279-4143359 ( 35) CGTTTCGC 1 chrIV:1953320-1953400 ( 44) TATTTCAC 1 chrI:7866350-7866430 ( 71) TCTTACTC 1 chrIV:2676439-2676519 ( 64) CGTTACTC 1 chrX:5210607-5210687 ( 43) CTTCTCCC 1 chrV:15566630-15566710 ( 32) CATCTCCC 1 chrI:7085067-7085147 ( 72) TCTTTTTC 1 chrII:8012615-8012695 ( 48) TGTTTTTC 1 chrIII:11090530-11090610 ( 40) CATCTCGC 1 chrV:14850731-14850811 ( 2) TATCACTC 1 chrV:1471340-1471420 ( 45) CTTTTCCC 1 chrII:7323539-7323619 ( 50) CTTCTTTC 1 chrIV:7103444-7103524 ( 24) TGTCACAC 1 chrV:6225975-6226055 ( 26) TCCTTCTC 1 chrI:4804372-4804452 ( 22) TGTCTTAC 1 chrIII:10507005-10507085 ( 60) CGCTTCTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YSTYTCTC MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.2854 E= 1.2e-003 -1300 88 -1300 111 -86 56 67 -98 -1300 -325 -1300 188 -1300 139 -1300 56 -164 -1300 -1300 179 -1300 200 -1300 -186 -64 -144 -170 134 -1300 211 -1300 -1300 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YSTYTCTC MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 82 E= 1.2e-003 0.000000 0.426829 0.000000 0.573171 0.146341 0.341463 0.378049 0.134146 0.000000 0.024390 0.000000 0.975610 0.000000 0.609756 0.000000 0.390244 0.085366 0.000000 0.000000 0.914634 0.000000 0.926829 0.000000 0.073171 0.170732 0.085366 0.073171 0.670732 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YSTYTCTC MEME-2 regular expression -------------------------------------------------------------------------------- [TC][GC]T[CT]TCTC -------------------------------------------------------------------------------- Time 10.88 secs. ******************************************************************************** ******************************************************************************** MOTIF TGCGCCAR MEME-3 width = 8 sites = 18 llr = 173 E-value = 8.2e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGCGCCAR MEME-3 Description -------------------------------------------------------------------------------- Simplified A ::::::a6 pos.-specific C ::8:aa:: probability G 2a:a:::4 matrix T 8:2::::: bits 2.1 * *** 1.9 * **** 1.7 * **** 1.5 * **** Relative 1.3 ******* Entropy 1.1 ******** (13.9 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TGCGCCAA consensus T G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCGCCAR MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrI:7701012-7701092 68 1.32e-05 GATCGGGAAA TGCGCCAA GAGTG chrIV:2177697-2177777 31 1.32e-05 GCACCGGGAA TGCGCCAA GGCCTCTTGC chrIII:4284854-4284934 53 1.32e-05 GTGTTGGCGC TGCGCCAA GCGTATGGTT chrIII:10844990-10845070 41 2.49e-05 GCACGGAGTA TGCGCCAG CAGACGTTAC chrIII:10507005-10507085 36 2.49e-05 GCACGCAAAA TGCGCCAG TGTACACCGT chrV:18990417-18990497 4 2.49e-05 AAA TGCGCCAG CGCACTGGAG chrII:285757-285837 58 2.49e-05 GCACGAGATA TGCGCCAG CGAATGGCAT chrV:9094380-9094460 12 2.49e-05 GTCACCGCTC TGCGCCAG CTGACTGGGT chrI:3032858-3032938 55 2.49e-05 AGACGAAGAA TGCGCCAG CAGGCGTCCT chrII:9099145-9099225 46 2.49e-05 GCACGAGAAA TGCGCCAG GTGCCTTTGC chrV:8570022-8570102 53 2.49e-05 AATCGCGAAG TGCGCCAG CAACTGACAC chrII:24603-24683 19 3.99e-05 AAACTGAATG TGTGCCAA CACAGCGTCA chrIII:3984093-3984173 36 3.99e-05 GTCCTAGGAG TGTGCCAA GCCGTGTACG chrV:8658733-8658813 67 3.99e-05 AAACTGGCAA TGTGCCAA CATGTG chrI:2996074-2996154 35 3.99e-05 GATCTGGCAC TGTGCCAA ACGCTATTTT chrI:12664984-12665064 29 6.50e-05 GATTCAAATC GGCGCCAA TTTAAAGTCC chrV:16538038-16538118 33 6.50e-05 AGAGAGAGTT GGCGCCAA CGTGAATTCT chrI:6314864-6314944 22 6.50e-05 AAATCAGTTT GGCGCCAA CGCTCTTTAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCGCCAR MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:7701012-7701092 1.3e-05 67_[+3]_5 chrIV:2177697-2177777 1.3e-05 30_[+3]_42 chrIII:4284854-4284934 1.3e-05 52_[+3]_20 chrIII:10844990-10845070 2.5e-05 40_[+3]_32 chrIII:10507005-10507085 2.5e-05 35_[+3]_37 chrV:18990417-18990497 2.5e-05 3_[+3]_69 chrII:285757-285837 2.5e-05 57_[+3]_15 chrV:9094380-9094460 2.5e-05 11_[+3]_61 chrI:3032858-3032938 2.5e-05 54_[+3]_18 chrII:9099145-9099225 2.5e-05 45_[+3]_27 chrV:8570022-8570102 2.5e-05 52_[+3]_20 chrII:24603-24683 4e-05 18_[+3]_54 chrIII:3984093-3984173 4e-05 35_[+3]_37 chrV:8658733-8658813 4e-05 66_[+3]_6 chrI:2996074-2996154 4e-05 34_[+3]_38 chrI:12664984-12665064 6.5e-05 28_[+3]_44 chrV:16538038-16538118 6.5e-05 32_[+3]_40 chrI:6314864-6314944 6.5e-05 21_[+3]_51 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCGCCAR MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGCGCCAR width=8 seqs=18 chrI:7701012-7701092 ( 68) TGCGCCAA 1 chrIV:2177697-2177777 ( 31) TGCGCCAA 1 chrIII:4284854-4284934 ( 53) TGCGCCAA 1 chrIII:10844990-10845070 ( 41) TGCGCCAG 1 chrIII:10507005-10507085 ( 36) TGCGCCAG 1 chrV:18990417-18990497 ( 4) TGCGCCAG 1 chrII:285757-285837 ( 58) TGCGCCAG 1 chrV:9094380-9094460 ( 12) TGCGCCAG 1 chrI:3032858-3032938 ( 55) TGCGCCAG 1 chrII:9099145-9099225 ( 46) TGCGCCAG 1 chrV:8570022-8570102 ( 53) TGCGCCAG 1 chrII:24603-24683 ( 19) TGTGCCAA 1 chrIII:3984093-3984173 ( 36) TGTGCCAA 1 chrV:8658733-8658813 ( 67) TGTGCCAA 1 chrI:2996074-2996154 ( 35) TGTGCCAA 1 chrI:12664984-12665064 ( 29) GGCGCCAA 1 chrV:16538038-16538118 ( 33) GGCGCCAA 1 chrI:6314864-6314944 ( 22) GGCGCCAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCGCCAR MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.8329 E= 8.2e-001 -1081 -1081 -51 165 -1081 -1081 208 -1081 -1081 174 -1081 -25 -1081 -1081 208 -1081 -1081 211 -1081 -1081 -1081 211 -1081 -1081 191 -1081 -1081 -1081 106 -1081 91 -1081 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCGCCAR MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 18 E= 8.2e-001 0.000000 0.000000 0.166667 0.833333 0.000000 0.000000 1.000000 0.000000 0.000000 0.777778 0.000000 0.222222 0.000000 0.000000 1.000000 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 0.555556 0.000000 0.444444 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCGCCAR MEME-3 regular expression -------------------------------------------------------------------------------- TG[CT]GCCA[AG] -------------------------------------------------------------------------------- Time 14.35 secs. ******************************************************************************** ******************************************************************************** MOTIF GAGAGAGW MEME-4 width = 8 sites = 30 llr = 259 E-value = 2.5e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif GAGAGAGW MEME-4 Description -------------------------------------------------------------------------------- Simplified A :a:a:8:3 pos.-specific C :::::::2 probability G a:a:9:7: matrix T ::::1235 bits 2.1 * * 1.9 **** 1.7 ***** 1.5 ***** Relative 1.3 ******* Entropy 1.1 ******* (12.5 bits) 0.8 ******* 0.6 ******* 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GAGAGAGT consensus TTA sequence C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAGAGW MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:16538038-16538118 24 1.57e-05 CCAATGGATA GAGAGAGT TGGCGCCAAC chrI:1273899-1273979 36 1.57e-05 ACATAGAAAT GAGAGAGT GCAGAGAAAA chrIII:3271812-3271892 68 1.57e-05 GAGGGACACA GAGAGAGT TTCTC chrIV:15570890-15570970 28 1.57e-05 gagatgtgac gagagaGT GTGTAGAATT chrV:7435192-7435272 27 1.57e-05 GATAATAGCT GAGAGAGT GGTGAAATGC chrIII:4720994-4721074 30 1.57e-05 GATGCTAGGC GAGAGAGT GTGGGATTGC chrIV:5600409-5600489 30 1.57e-05 ATTTGAGAGT GAGAGAGT GTTCGAGATG chrX:6741154-6741234 57 1.57e-05 CCGTGTGTAT GAGAGAGT GTGACACAGA chrIV:2774697-2774777 23 3.15e-05 GGGATGAGGA GAGAGAGA AGAGACGCAG chrIII:3279396-3279476 70 3.15e-05 GGTTGTCATG GAGAGAGA TAT chrI:3648200-3648280 28 3.15e-05 ATGTATACTa gagagaga aggagagaag chrIII:3066137-3066217 1 3.15e-05 . gagagaga tgagagaCGC chrIII:2101072-2101152 20 4.53e-05 TGGGCGGTGC GAGAGAGC ACGACTTAGC chrIII:4280953-4281033 70 4.53e-05 TCGCGTAAGG GAGAGAGC GGT chrV:10719020-10719100 35 4.53e-05 AAAACGAAAT GAGAGAGC AGAAAAATGA chrIII:235276-235356 40 4.53e-05 GAAGCCCAGC GAGAGAGC GTGCAAAACG chrI:9097718-9097798 67 6.29e-05 ACATAGAATC GAGAGATT TCAGAT chrII:10558990-10559070 50 6.29e-05 GGCATGCACA GAGAGATT GCAAATTGCG chrX:11792029-11792109 6 7.86e-05 TCACG GAGAGTGT GTTGGTGGGT chrIV:11284168-11284248 61 7.86e-05 AAGGAAGTTA GAGAGTGT GGAGATCAGA chrIII:12273755-12273835 2 7.86e-05 A GAGAGTGT GGAGAACGAG chrX:6255783-6255863 36 9.62e-05 TACTCAGCGG GAGAGATA AACGAGCACC chrIII:10717711-10717791 34 9.62e-05 CGAGAAAAAC GAGAGATA GAAGAAGTGG chrV:11082586-11082666 11 9.62e-05 GTTGCGACAT GAGAGATA TTTGAGTGGG chrIV:4024275-4024355 55 1.59e-04 AATACGCGGC GAGATAGT GTGGGTCTGT chrIII:8785539-8785619 57 1.76e-04 GAGCAAAATG GAGAGTTT ACGAGACGCA chrV:11888118-11888198 53 1.76e-04 GCACGCACCG GAGAGTTT GCGGGAAGCC chrI:10262218-10262298 13 1.94e-04 TAGAGAGCTA GAGATAGA GATAGGCCGA chrI:2586260-2586340 39 2.27e-04 GCCGAGCGGC GAGATAGC ATGCAAAACT chrV:4143279-4143359 59 2.42e-04 GCAGAGATTC GAGAGTTC AATGGAGCGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAGAGW MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:16538038-16538118 1.6e-05 23_[+4]_49 chrI:1273899-1273979 1.6e-05 35_[+4]_37 chrIII:3271812-3271892 1.6e-05 67_[+4]_5 chrIV:15570890-15570970 1.6e-05 27_[+4]_45 chrV:7435192-7435272 1.6e-05 26_[+4]_46 chrIII:4720994-4721074 1.6e-05 29_[+4]_43 chrIV:5600409-5600489 1.6e-05 29_[+4]_43 chrX:6741154-6741234 1.6e-05 56_[+4]_16 chrIV:2774697-2774777 3.2e-05 22_[+4]_50 chrIII:3279396-3279476 3.2e-05 69_[+4]_3 chrI:3648200-3648280 3.2e-05 27_[+4]_45 chrIII:3066137-3066217 3.2e-05 [+4]_72 chrIII:2101072-2101152 4.5e-05 19_[+4]_53 chrIII:4280953-4281033 4.5e-05 69_[+4]_3 chrV:10719020-10719100 4.5e-05 34_[+4]_38 chrIII:235276-235356 4.5e-05 39_[+4]_33 chrI:9097718-9097798 6.3e-05 66_[+4]_6 chrII:10558990-10559070 6.3e-05 49_[+4]_23 chrX:11792029-11792109 7.9e-05 5_[+4]_67 chrIV:11284168-11284248 7.9e-05 60_[+4]_12 chrIII:12273755-12273835 7.9e-05 1_[+4]_71 chrX:6255783-6255863 9.6e-05 35_[+4]_37 chrIII:10717711-10717791 9.6e-05 33_[+4]_39 chrV:11082586-11082666 9.6e-05 10_[+4]_62 chrIV:4024275-4024355 0.00016 54_[+4]_18 chrIII:8785539-8785619 0.00018 56_[+4]_16 chrV:11888118-11888198 0.00018 52_[+4]_20 chrI:10262218-10262298 0.00019 12_[+4]_60 chrI:2586260-2586340 0.00023 38_[+4]_34 chrV:4143279-4143359 0.00024 58_[+4]_14 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAGAGW MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GAGAGAGW width=8 seqs=30 chrV:16538038-16538118 ( 24) GAGAGAGT 1 chrI:1273899-1273979 ( 36) GAGAGAGT 1 chrIII:3271812-3271892 ( 68) GAGAGAGT 1 chrIV:15570890-15570970 ( 28) GAGAGAGT 1 chrV:7435192-7435272 ( 27) GAGAGAGT 1 chrIII:4720994-4721074 ( 30) GAGAGAGT 1 chrIV:5600409-5600489 ( 30) GAGAGAGT 1 chrX:6741154-6741234 ( 57) GAGAGAGT 1 chrIV:2774697-2774777 ( 23) GAGAGAGA 1 chrIII:3279396-3279476 ( 70) GAGAGAGA 1 chrI:3648200-3648280 ( 28) GAGAGAGA 1 chrIII:3066137-3066217 ( 1) GAGAGAGA 1 chrIII:2101072-2101152 ( 20) GAGAGAGC 1 chrIII:4280953-4281033 ( 70) GAGAGAGC 1 chrV:10719020-10719100 ( 35) GAGAGAGC 1 chrIII:235276-235356 ( 40) GAGAGAGC 1 chrI:9097718-9097798 ( 67) GAGAGATT 1 chrII:10558990-10559070 ( 50) GAGAGATT 1 chrX:11792029-11792109 ( 6) GAGAGTGT 1 chrIV:11284168-11284248 ( 61) GAGAGTGT 1 chrIII:12273755-12273835 ( 2) GAGAGTGT 1 chrX:6255783-6255863 ( 36) GAGAGATA 1 chrIII:10717711-10717791 ( 34) GAGAGATA 1 chrV:11082586-11082666 ( 11) GAGAGATA 1 chrIV:4024275-4024355 ( 55) GAGATAGT 1 chrIII:8785539-8785619 ( 57) GAGAGTTT 1 chrV:11888118-11888198 ( 53) GAGAGTTT 1 chrI:10262218-10262298 ( 13) GAGATAGA 1 chrI:2586260-2586340 ( 39) GAGATAGC 1 chrV:4143279-4143359 ( 59) GAGAGTTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAGAGW MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.5224 E= 2.5e-002 -1155 -1155 208 -1155 191 -1155 -1155 -1155 -1155 -1155 208 -1155 191 -1155 -1155 -1155 -1155 -1155 192 -141 159 -1155 -1155 -41 -1155 -1155 163 1 1 -21 -1155 101 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAGAGW MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 30 E= 2.5e-002 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.900000 0.100000 0.800000 0.000000 0.000000 0.200000 0.000000 0.000000 0.733333 0.266667 0.266667 0.200000 0.000000 0.533333 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAGAGW MEME-4 regular expression -------------------------------------------------------------------------------- GAGAG[AT][GT][TAC] -------------------------------------------------------------------------------- Time 17.80 secs. ******************************************************************************** ******************************************************************************** MOTIF CCGCGSSC MEME-5 width = 8 sites = 16 llr = 155 E-value = 5.1e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif CCGCGSSC MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C a8:a:46a probability G :3a:a64: matrix T :::::::: bits 2.1 * *** * 1.9 * *** * 1.7 * *** * 1.5 * *** * Relative 1.3 ***** * Entropy 1.1 ******** (14.0 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CCGCGGCC consensus G CG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCGSSC MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:8247975-8248055 22 8.95e-06 TGTTAAACAC CCGCGGCC GACATGCTGC chrV:2638671-2638751 36 8.95e-06 TTTGCGGTGG CCGCGGCC GTGAAAATGC chrV:16401683-16401763 30 8.95e-06 TCTCTGGTGG CCGCGGCC GAGGTTTCTC chrIII:9868287-9868367 43 8.95e-06 AACCTCTAGT CCGCGGCC ACCGGAAAAG chrII:11167298-11167378 40 8.95e-06 TGATTGAGCG CCGCGGCC GACACTACGC chrI:1070005-1070085 19 1.77e-05 TTGGCCGGGG CCGCGCCC CGCGCAAGAG chrX:6410533-6410613 14 2.68e-05 CTGGGGCTTC CCGCGGGC AGTCTGCGTT chrIV:3232920-3233000 54 3.58e-05 cgctctcact cCGCGCGC TCACCTTCCC chrI:14058898-14058978 70 3.58e-05 TTTGCGGGTT CCGCGCGC CAC chrIV:3311375-3311455 4 3.58e-05 ACC CCGCGCGC TATCTCACCG chrIV:2177697-2177777 67 3.58e-05 TCGAGGATCA CCGCGCGC ACGAGA chrIII:11090530-11090610 53 3.58e-05 ctcgcgggtt ccgcgcgc cgctgtgttt chrIV:14327138-14327218 32 4.49e-05 AGAAGGAACG CGGCGGCC GACACACTAC chrII:6776791-6776871 62 4.49e-05 ACATTCCATG CGGCGGCC TAGAAAATTA chrIV:867120-867200 49 4.49e-05 TGTGTCGGCG CGGCGGCC GACACCTCCC chrI:12664984-12665064 57 7.24e-05 GCAAACACGG CGGCGCGC ACTTGCGTAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCGSSC MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:8247975-8248055 8.9e-06 21_[+5]_51 chrV:2638671-2638751 8.9e-06 35_[+5]_37 chrV:16401683-16401763 8.9e-06 29_[+5]_43 chrIII:9868287-9868367 8.9e-06 42_[+5]_30 chrII:11167298-11167378 8.9e-06 39_[+5]_33 chrI:1070005-1070085 1.8e-05 18_[+5]_54 chrX:6410533-6410613 2.7e-05 13_[+5]_59 chrIV:3232920-3233000 3.6e-05 53_[+5]_19 chrI:14058898-14058978 3.6e-05 69_[+5]_3 chrIV:3311375-3311455 3.6e-05 3_[+5]_69 chrIV:2177697-2177777 3.6e-05 66_[+5]_6 chrIII:11090530-11090610 3.6e-05 52_[+5]_20 chrIV:14327138-14327218 4.5e-05 31_[+5]_41 chrII:6776791-6776871 4.5e-05 61_[+5]_11 chrIV:867120-867200 4.5e-05 48_[+5]_24 chrI:12664984-12665064 7.2e-05 56_[+5]_16 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCGSSC MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CCGCGSSC width=8 seqs=16 chrV:8247975-8248055 ( 22) CCGCGGCC 1 chrV:2638671-2638751 ( 36) CCGCGGCC 1 chrV:16401683-16401763 ( 30) CCGCGGCC 1 chrIII:9868287-9868367 ( 43) CCGCGGCC 1 chrII:11167298-11167378 ( 40) CCGCGGCC 1 chrI:1070005-1070085 ( 19) CCGCGCCC 1 chrX:6410533-6410613 ( 14) CCGCGGGC 1 chrIV:3232920-3233000 ( 54) CCGCGCGC 1 chrI:14058898-14058978 ( 70) CCGCGCGC 1 chrIV:3311375-3311455 ( 4) CCGCGCGC 1 chrIV:2177697-2177777 ( 67) CCGCGCGC 1 chrIII:11090530-11090610 ( 53) CCGCGCGC 1 chrIV:14327138-14327218 ( 32) CGGCGGCC 1 chrII:6776791-6776871 ( 62) CGGCGGCC 1 chrIV:867120-867200 ( 49) CGGCGGCC 1 chrI:12664984-12665064 ( 57) CGGCGCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCGSSC MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.477 E= 5.1e+000 -1064 211 -1064 -1064 -1064 169 8 -1064 -1064 -1064 208 -1064 -1064 211 -1064 -1064 -1064 -1064 208 -1064 -1064 91 125 -1064 -1064 128 88 -1064 -1064 211 -1064 -1064 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCGSSC MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 16 E= 5.1e+000 0.000000 1.000000 0.000000 0.000000 0.000000 0.750000 0.250000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.437500 0.562500 0.000000 0.000000 0.562500 0.437500 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCGSSC MEME-5 regular expression -------------------------------------------------------------------------------- C[CG]GCG[GC][CG]C -------------------------------------------------------------------------------- Time 21.19 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:11888118-11888198 8.96e-02 80 chrV:730445-730525 3.57e-01 80 chrI:7081902-7081982 8.40e-01 80 chrV:11082586-11082666 1.88e-03 10_[+4(9.62e-05)]_54_[+2(5.42e-05)] chrIV:4407169-4407249 1.70e-01 26_[+2(2.89e-05)]_[+2(2.89e-05)]_\ [+2(2.89e-05)]_[+2(2.89e-05)]_[+2(2.89e-05)]_[+2(2.89e-05)]_6 chrX:4957473-4957553 1.05e-01 80 chrIII:10819886-10819966 6.71e-01 80 chrII:2454953-2455033 6.77e-02 49_[+2(2.89e-05)]_23 chrI:4433144-4433224 2.42e-01 80 chrX:6741154-6741234 2.51e-03 56_[+4(1.57e-05)]_16 chrV:7804472-7804552 3.74e-02 80 chrII:12349990-12350070 2.13e-01 80 chrIV:3654369-3654449 5.15e-02 80 chrV:6768664-6768744 9.73e-01 80 chrI:9089038-9089118 1.05e-01 80 chrV:4694751-4694831 1.89e-01 80 chrV:8811443-8811523 1.74e-01 80 chrV:728008-728088 1.04e-02 39_[+1(4.27e-05)]_33 chrII:6892007-6892087 9.46e-02 80 chrII:8012615-8012695 7.10e-01 80 chrV:11824130-11824210 3.83e-01 80 chrX:17459037-17459117 5.03e-01 80 chrIV:4454427-4454507 2.49e-03 60_[+2(2.89e-05)]_4_[+1(5.85e-05)] chrI:3248636-3248716 4.78e-03 80 chrIII:7217181-7217261 1.51e-01 80 chrIII:4284854-4284934 4.08e-03 52_[+3(1.32e-05)]_20 chrIII:3066137-3066217 3.24e-03 [+4(3.15e-05)]_3_[+1(4.27e-05)]_61 chrIV:5600409-5600489 4.70e-04 29_[+4(1.57e-05)]_12_[+1(4.27e-05)]_\ 23 chrX:12175804-12175884 2.54e-02 51_[+1(1.55e-05)]_21 chrIV:7506033-7506113 5.36e-02 80 chrI:4804372-4804452 6.75e-01 80 chrII:5593461-5593541 7.64e-01 80 chrIII:235276-235356 1.30e-03 39_[+4(4.53e-05)]_33 chrIV:16415742-16415822 2.71e-02 80 chrI:7283797-7283877 2.55e-02 80 chrIII:12556397-12556477 7.69e-02 80 chrII:506167-506247 1.23e-01 80 chrX:9330917-9330997 2.04e-02 80 chrIV:658090-658170 9.02e-01 80 chrIV:12010639-12010719 1.94e-01 80 chrI:14945688-14945768 2.35e-01 80 chrII:98150-98230 7.39e-01 80 chrV:4131593-4131673 4.97e-01 80 chrX:1504878-1504958 8.05e-01 80 chrII:2565062-2565142 2.74e-01 80 chrIII:12273755-12273835 2.34e-02 1_[+4(7.86e-05)]_71 chrI:9374797-9374877 2.99e-01 80 chrI:2864116-2864196 3.72e-02 80 chrII:5336393-5336473 7.89e-01 80 chrI:4436786-4436866 3.64e-01 80 chrV:12491198-12491278 7.54e-04 80 chrII:11167298-11167378 1.88e-02 39_[+5(8.95e-06)]_33 chrV:20716908-20716988 2.85e-01 80 chrX:10684753-10684833 1.13e-02 80 chrV:4502157-4502237 2.84e-02 80 chrV:4143279-4143359 6.43e-05 43_[+1(4.27e-05)]_29 chrII:3553574-3553654 9.14e-01 80 chrX:15376751-15376831 2.69e-02 80 chrX:4960659-4960739 5.97e-01 80 chrV:729331-729411 6.27e-01 80 chrIII:9868287-9868367 1.29e-03 42_[+5(8.95e-06)]_30 chrI:6175207-6175287 2.00e-01 80 chrIII:11935768-11935848 4.85e-01 80 chrI:7126465-7126545 6.95e-01 80 chrIV:7103444-7103524 3.31e-01 80 chrII:7945310-7945390 1.81e-01 80 chrI:7660338-7660418 6.76e-01 80 chrII:7323539-7323619 7.26e-01 80 chrV:8570022-8570102 6.66e-03 52_[+3(2.49e-05)]_20 chrV:1471340-1471420 5.30e-01 80 chrIII:4113807-4113887 1.74e-02 44_[+2(5.42e-05)]_28 chrII:7836710-7836790 1.38e-01 80 chrX:15335129-15335209 3.22e-01 80 chrIII:4720994-4721074 5.42e-04 29_[+4(1.57e-05)]_43 chrII:5701598-5701678 7.02e-01 80 chrIII:1558601-1558681 2.28e-01 80 chrII:9099145-9099225 2.76e-03 45_[+3(2.49e-05)]_27 chrIV:10222125-10222205 5.23e-02 72_[+1(4.27e-05)] chrII:10558990-10559070 7.48e-02 49_[+4(6.29e-05)]_23 chrI:10262218-10262298 1.46e-01 80 chrI:2582635-2582715 2.27e-01 80 chrV:19428932-19429012 8.28e-01 80 chrIII:6402569-6402649 8.70e-01 80 chrV:979877-979957 2.11e-01 29_[+2(2.89e-05)]_[+2(2.89e-05)]_\ [+2(2.89e-05)]_[+2(2.89e-05)]_[+2(2.89e-05)]_[+2(2.89e-05)]_3 chrV:10672721-10672801 1.85e-01 80 chrI:3032858-3032938 1.15e-03 43_[+1(1.55e-05)]_3_[+3(2.49e-05)]_\ 18 chrX:13353563-13353643 1.51e-01 80 chrI:10752140-10752220 1.93e-02 50_[+2(2.89e-05)]_22 chrII:14598536-14598616 2.02e-03 19_[+3(7.55e-05)]_53 chrIII:13719534-13719614 7.07e-02 60_[+2(2.89e-05)]_12 chrX:12877011-12877091 2.44e-02 80 chrI:7866350-7866430 8.19e-02 80 chrX:13358710-13358790 6.74e-01 80 chrV:11886206-11886286 7.28e-01 80 chrIII:8136714-8136794 8.61e-01 80 chrI:3648200-3648280 3.70e-03 27_[+4(3.15e-05)]_30_[+4(3.15e-05)]_\ 7 chrI:4769630-4769710 4.55e-01 80 chrIII:3279396-3279476 1.72e-02 69_[+4(3.15e-05)]_3 chrX:4142264-4142344 7.41e-01 80 chrV:731499-731579 1.15e-01 80 chrV:2127130-2127210 9.23e-01 80 chrV:9094380-9094460 4.90e-02 11_[+3(2.49e-05)]_61 chrII:5599663-5599743 2.66e-01 80 chrIII:778011-778091 8.33e-01 80 chrI:11664944-11665024 2.82e-02 80 chrIII:10717711-10717791 4.12e-02 33_[+4(9.62e-05)]_39 chrX:3825994-3826074 3.26e-01 80 chrV:7435192-7435272 8.37e-04 26_[+4(1.57e-05)]_10_[+1(4.27e-05)]_\ 28 chrIV:15570890-15570970 3.82e-02 27_[+4(1.57e-05)]_10_[+4(4.53e-05)]_\ 27 chrII:5321943-5322023 4.60e-01 80 chrIV:7049985-7050065 2.63e-01 80 chrIV:6555881-6555961 1.02e-01 80 chrX:12876066-12876146 6.61e-01 80 chrV:11083849-11083929 3.22e-01 80 chrIII:3036914-3036994 7.17e-01 80 chrV:11532070-11532150 8.96e-01 80 chrII:6838992-6839072 4.02e-01 55_[+2(8.72e-05)]_17 chrIV:8947219-8947299 4.68e-02 80 chrV:10719020-10719100 3.01e-02 34_[+4(4.53e-05)]_38 chrIII:10064312-10064392 2.07e-01 80 chrIV:4468344-4468424 3.57e-01 80 chrX:6742973-6743053 4.08e-02 80 chrIII:11090530-11090610 1.01e-03 52_[+5(3.58e-05)]_20 chrX:12519112-12519192 4.11e-01 80 chrX:13350009-13350089 9.39e-01 80 chrIII:3271812-3271892 1.19e-03 26_[+2(2.89e-05)]_[+2(2.89e-05)]_25_\ [+4(1.57e-05)]_5 chrII:4094333-4094413 7.31e-01 80 chrX:5215589-5215669 9.49e-01 80 chrI:1273899-1273979 3.22e-04 35_[+4(1.57e-05)]_21_[+2(2.89e-05)]_\ [+2(2.89e-05)] chrII:10543339-10543419 6.60e-01 80 chrII:285757-285837 3.35e-02 57_[+3(2.49e-05)]_15 chrX:16931629-16931709 9.87e-01 80 chrX:14813536-14813616 1.53e-01 19_[+2(8.72e-05)]_53 chrX:16131197-16131277 1.30e-01 80 chrI:2996074-2996154 3.32e-03 34_[+3(3.99e-05)]_38 chrV:6225975-6226055 9.24e-02 80 chrIV:3385389-3385469 7.42e-01 80 chrX:382930-383010 1.92e-01 80 chrIII:8785539-8785619 8.30e-03 66_[+1(4.27e-05)]_6 chrX:12179141-12179221 4.54e-01 80 chrII:4999326-4999406 3.30e-02 80 chrII:9601363-9601443 3.66e-02 26_[+4(3.15e-05)]_46 chrV:15566630-15566710 7.05e-01 80 chrIII:6988223-6988303 1.61e-01 80 chrX:5210607-5210687 1.91e-01 80 chrII:12095232-12095312 3.64e-01 80 chrX:13396712-13396792 1.67e-01 80 chrV:725158-725238 4.15e-01 80 chrIV:4024275-4024355 1.97e-03 80 chrV:18990417-18990497 8.59e-03 3_[+3(2.49e-05)]_69 chrV:16401683-16401763 4.01e-03 29_[+5(8.95e-06)]_43 chrIV:2773660-2773740 8.16e-01 80 chrIV:2177697-2177777 7.82e-04 30_[+3(1.32e-05)]_28_[+5(3.58e-05)]_\ 6 chrI:9097718-9097798 3.35e-03 66_[+4(6.29e-05)]_6 chrII:12459600-12459680 1.22e-01 80 chrIII:9717297-9717377 4.29e-01 80 chrI:1481602-1481682 2.14e-01 13_[+2(2.89e-05)]_[+2(2.89e-05)]_\ [+2(2.89e-05)]_[+2(2.89e-05)]_[+2(2.89e-05)]_2_[+2(8.72e-05)]_17 chrV:8658733-8658813 2.73e-02 66_[+3(3.99e-05)]_6 chrI:5660593-5660673 4.86e-01 80 chrIII:11063408-11063488 3.95e-01 80 chrIII:10507005-10507085 4.04e-02 35_[+3(2.49e-05)]_37 chrIV:4446387-4446467 7.78e-01 80 chrIII:10844990-10845070 9.59e-03 40_[+3(2.49e-05)]_32 chrI:7147749-7147829 9.57e-02 29_[+1(4.27e-05)]_43 chrI:882752-882832 1.90e-01 80 chrX:2071566-2071646 3.97e-01 80 chrI:7085067-7085147 3.38e-01 80 chrI:6314864-6314944 4.65e-02 21_[+3(6.50e-05)]_51 chrX:12975817-12975897 1.61e-01 80 chrIV:2676439-2676519 4.14e-03 80 chrII:13835073-13835153 4.24e-01 80 chrV:10858571-10858651 2.88e-01 80 chrIV:3311375-3311455 3.46e-03 3_[+5(3.58e-05)]_34_[+2(5.42e-05)]_\ 27 chrII:4791446-4791526 3.37e-01 80 chrI:7656734-7656814 1.89e-01 80 chrIV:5817683-5817763 2.30e-01 29_[+2(8.72e-05)]_12_[+2(5.42e-05)]_\ 23 chrI:9150319-9150399 5.50e-02 80 chrIII:5068958-5069038 5.79e-02 80 chrIV:867120-867200 9.90e-03 48_[+5(4.49e-05)]_24 chrI:14058898-14058978 5.95e-04 19_[+2(8.72e-05)]_19_[+5(4.49e-05)]_\ 15_[+5(3.58e-05)]_3 chrIV:6879063-6879143 1.72e-01 80 chrV:773386-773466 3.07e-02 36_[+2(2.89e-05)]_36 chrIV:1953320-1953400 3.34e-01 80 chrIII:3786821-3786901 1.14e-01 16_[+2(2.89e-05)]_6_[+2(2.89e-05)]_\ [+2(2.89e-05)]_34 chrI:12654740-12654820 1.49e-01 80 chrX:6410533-6410613 8.55e-02 13_[+5(2.68e-05)]_59 chrI:7701012-7701092 8.40e-03 67_[+3(1.32e-05)]_5 chrIII:4280953-4281033 3.40e-02 69_[+4(4.53e-05)]_3 chrII:6776791-6776871 5.56e-02 61_[+5(4.49e-05)]_11 chrI:9168854-9168934 3.24e-01 25_[+3(8.90e-05)]_47 chrI:4941137-4941217 1.52e-02 80 chrII:12787974-12788054 9.74e-01 80 chrIV:14327138-14327218 2.23e-02 31_[+5(4.49e-05)]_41 chrII:4603167-4603247 1.96e-01 80 chrIV:11284168-11284248 6.69e-03 60_[+4(7.86e-05)]_12 chrII:13157136-13157216 8.02e-02 80 chrX:11415086-11415166 7.68e-01 80 chrX:5782329-5782409 2.09e-01 80 chrII:10390569-10390649 7.89e-01 80 chrV:13086085-13086165 1.62e-01 26_[+2(8.72e-05)]_46 chrX:3824645-3824725 6.00e-01 80 chrIV:2774697-2774777 8.21e-03 20_[+4(3.15e-05)]_3_[+1(4.27e-05)]_\ 41 chrIII:3984093-3984173 1.68e-02 35_[+3(3.99e-05)]_37 chrV:9545448-9545528 4.31e-02 80 chrII:2748435-2748515 5.75e-01 80 chrX:15365384-15365464 4.60e-01 80 chrII:10538097-10538177 3.27e-02 80 chrII:6822429-6822509 6.62e-01 80 chrV:14850731-14850811 1.08e-01 80 chrIV:3232920-3233000 5.24e-03 14_[+2(2.89e-05)]_31_[+5(3.58e-05)]_\ 19 chrV:2600706-2600786 3.67e-01 80 chrIV:5754122-5754202 3.35e-01 80 chrV:5917864-5917944 1.19e-01 80 chrIII:11036270-11036350 1.51e-02 55_[+1(4.27e-05)]_17 chrV:723984-724064 9.44e-01 80 chrI:1067136-1067216 1.85e-01 80 chrII:14822542-14822622 3.93e-01 80 chrI:3266125-3266205 7.89e-01 80 chrII:14600151-14600231 7.29e-01 80 chrV:16538038-16538118 1.40e-05 1_[+2(5.42e-05)]_14_[+4(1.57e-05)]_\ 1_[+3(6.50e-05)]_40 chrIII:2101072-2101152 1.67e-03 19_[+4(4.53e-05)]_24_[+1(4.27e-05)]_\ 21 chrI:2586260-2586340 1.63e-02 80 chrX:11792029-11792109 1.60e-01 5_[+4(7.86e-05)]_67 chrI:1070005-1070085 2.66e-02 18_[+5(1.77e-05)]_54 chrI:12664984-12665064 6.43e-03 28_[+3(6.50e-05)]_20_[+5(7.24e-05)]_\ 16 chrII:11376863-11376943 5.44e-01 80 chrX:11207130-11207210 8.34e-01 80 chrX:6378437-6378517 4.60e-02 66_[+1(5.85e-05)]_6 chrIII:3953333-3953413 6.54e-01 80 chrV:5838800-5838880 7.36e-01 80 chrV:11764530-11764610 3.00e-01 80 chrIV:5604536-5604616 1.52e-02 30_[+2(2.89e-05)]_42 chrIV:5591353-5591433 6.10e-02 80 chrV:2638671-2638751 2.82e-02 35_[+5(8.95e-06)]_37 chrX:2972609-2972689 5.34e-01 80 chrII:24603-24683 7.40e-02 18_[+3(3.99e-05)]_54 chrV:10871522-10871602 8.77e-02 80 chrIV:2220313-2220393 5.97e-01 80 chrIV:11956500-11956580 5.11e-03 80 chrX:15849607-15849687 5.50e-01 80 chrIII:10153276-10153356 9.36e-02 63_[+1(1.55e-05)]_9 chrV:11822530-11822610 5.48e-01 80 chrX:8017546-8017626 5.62e-01 80 chrX:6255783-6255863 3.22e-03 35_[+4(9.62e-05)]_37 chrIII:11066944-11067024 7.77e-01 80 chrX:6254019-6254099 9.71e-01 80 chrX:10772227-10772307 2.63e-01 80 chrV:8247975-8248055 4.40e-03 21_[+5(8.95e-06)]_51 chrI:9790945-9791025 1.42e-03 24_[+2(8.72e-05)]_21_[+1(1.55e-05)]_\ 19 chrII:10549487-10549567 5.44e-01 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n09.farnam.hpc.yale.internal ********************************************************************************