******************************************************************************** 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/spr-1.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrII:5633579-5633659 1.0000 80 chrI:10117619-10117699 1.0000 80 chrII:11719706-11719786 1.0000 80 chrII:11720970-11721050 1.0000 80 chrII:15119711-15119791 1.0000 80 chrII:4790833-4790913 1.0000 80 chrII:4755792-4755872 1.0000 80 chrII:5537240-5537320 1.0000 80 chrIV:1067540-1067620 1.0000 80 chrII:11731390-11731470 1.0000 80 chrM:8827-8907 1.0000 80 chrI:6499750-6499830 1.0000 80 chrIV:6378535-6378615 1.0000 80 chrII:11336103-11336183 1.0000 80 chrM:1826-1906 1.0000 80 chrII:12787861-12787941 1.0000 80 chrV:5780872-5780952 1.0000 80 chrII:11015787-11015867 1.0000 80 chrII:15119930-15120010 1.0000 80 chrIV:17185224-17185304 1.0000 80 chrV:13376762-13376842 1.0000 80 chrII:11733319-11733399 1.0000 80 chrI:8244083-8244163 1.0000 80 chrV:8039321-8039401 1.0000 80 chrV:4651563-4651643 1.0000 80 chrIV:14822337-14822417 1.0000 80 chrV:11799399-11799479 1.0000 80 chrV:14506013-14506093 1.0000 80 chrII:9113951-9114031 1.0000 80 chrII:10419385-10419465 1.0000 80 chrIV:6378737-6378817 1.0000 80 chrM:3267-3347 1.0000 80 chrM:4982-5062 1.0000 80 chrI:1271063-1271143 1.0000 80 chrIV:4519457-4519537 1.0000 80 chrII:10302467-10302547 1.0000 80 chrV:14463219-14463299 1.0000 80 chrM:8506-8586 1.0000 80 chrIV:3311390-3311470 1.0000 80 chrIV:11491538-11491618 1.0000 80 chrV:9340418-9340498 1.0000 80 chrX:12655455-12655535 1.0000 80 chrV:5330007-5330087 1.0000 80 chrIV:16775152-16775232 1.0000 80 chrII:5901796-5901876 1.0000 80 chrX:14744622-14744702 1.0000 80 chrIII:4174295-4174375 1.0000 80 chrII:11337637-11337717 1.0000 80 chrX:9237831-9237911 1.0000 80 chrV:13411528-13411608 1.0000 80 chrIII:8974890-8974970 1.0000 80 chrIV:4930892-4930972 1.0000 80 chrIV:9913243-9913323 1.0000 80 chrI:4654036-4654116 1.0000 80 chrX:8623986-8624066 1.0000 80 chrIII:12906767-12906847 1.0000 80 chrII:3499900-3499980 1.0000 80 chrIII:11554854-11554934 1.0000 80 chrV:19521337-19521417 1.0000 80 chrX:17545698-17545778 1.0000 80 chrI:1296639-1296719 1.0000 80 chrX:13308032-13308112 1.0000 80 chrIII:11463899-11463979 1.0000 80 chrII:14407979-14408059 1.0000 80 chrIII:2032717-2032797 1.0000 80 chrII:7002965-7003045 1.0000 80 chrI:14945930-14946010 1.0000 80 chrIII:10537685-10537765 1.0000 80 chrX:10218893-10218973 1.0000 80 chrV:12354585-12354665 1.0000 80 chrI:13324173-13324253 1.0000 80 chrII:5712260-5712340 1.0000 80 chrIV:292041-292121 1.0000 80 chrIII:5710937-5711017 1.0000 80 chrII:12176445-12176525 1.0000 80 chrII:8441638-8441718 1.0000 80 chrV:10681323-10681403 1.0000 80 chrIII:698931-699011 1.0000 80 chrII:10547470-10547550 1.0000 80 chrI:7490316-7490396 1.0000 80 chrM:10107-10187 1.0000 80 chrV:5667482-5667562 1.0000 80 chrX:5252975-5253055 1.0000 80 chrIII:344416-344496 1.0000 80 chrV:6335332-6335412 1.0000 80 chrX:14437943-14438023 1.0000 80 chrIV:11601985-11602065 1.0000 80 chrIII:9060426-9060506 1.0000 80 chrX:14815729-14815809 1.0000 80 chrII:13829218-13829298 1.0000 80 chrV:729323-729403 1.0000 80 chrX:16803949-16804029 1.0000 80 chrX:5661351-5661431 1.0000 80 chrX:4193261-4193341 1.0000 80 chrX:9024384-9024464 1.0000 80 chrIII:6415623-6415703 1.0000 80 chrIV:1817262-1817342 1.0000 80 chrIII:7142358-7142438 1.0000 80 chrM:3584-3664 1.0000 80 chrI:1214704-1214784 1.0000 80 chrII:13522292-13522372 1.0000 80 chrII:10529607-10529687 1.0000 80 chrX:15568448-15568528 1.0000 80 chrIII:9782168-9782248 1.0000 80 chrI:15040215-15040295 1.0000 80 chrV:5768357-5768437 1.0000 80 chrII:4710353-4710433 1.0000 80 chrII:11742437-11742517 1.0000 80 chrX:9234019-9234099 1.0000 80 chrV:15480012-15480092 1.0000 80 chrII:152919-152999 1.0000 80 chrIV:9196164-9196244 1.0000 80 chrII:13167743-13167823 1.0000 80 chrI:5375628-5375708 1.0000 80 chrI:571864-571944 1.0000 80 chrV:14366729-14366809 1.0000 80 chrII:4728833-4728913 1.0000 80 chrII:7877915-7877995 1.0000 80 chrX:12656815-12656895 1.0000 80 chrX:8477596-8477676 1.0000 80 chrIV:6117861-6117941 1.0000 80 chrII:14097046-14097126 1.0000 80 chrIV:16657669-16657749 1.0000 80 chrII:1402318-1402398 1.0000 80 chrI:9101032-9101112 1.0000 80 chrX:4007779-4007859 1.0000 80 chrV:6559720-6559800 1.0000 80 chrV:19519623-19519703 1.0000 80 chrX:10237252-10237332 1.0000 80 chrII:11731597-11731677 1.0000 80 chrII:13198726-13198806 1.0000 80 chrII:8358599-8358679 1.0000 80 chrII:11724540-11724620 1.0000 80 chrI:10777430-10777510 1.0000 80 chrIV:12417145-12417225 1.0000 80 chrX:15842608-15842688 1.0000 80 chrX:8154691-8154771 1.0000 80 chrI:5372420-5372500 1.0000 80 chrII:11015993-11016073 1.0000 80 chrM:11416-11496 1.0000 80 chrIII:12977757-12977837 1.0000 80 chrV:15013228-15013308 1.0000 80 chrV:19050692-19050772 1.0000 80 chrX:15362296-15362376 1.0000 80 chrI:12728074-12728154 1.0000 80 chrM:2991-3071 1.0000 80 chrV:12552243-12552323 1.0000 80 chrIII:3471557-3471637 1.0000 80 chrM:8215-8295 1.0000 80 chrX:15773421-15773501 1.0000 80 chrX:2116594-2116674 1.0000 80 chrIV:7785822-7785902 1.0000 80 chrIII:4566196-4566276 1.0000 80 chrX:9234229-9234309 1.0000 80 chrII:10389197-10389277 1.0000 80 chrIV:3611976-3612056 1.0000 80 chrV:4647739-4647819 1.0000 80 chrII:11376759-11376839 1.0000 80 chrIII:11091187-11091267 1.0000 80 chrX:4494624-4494704 1.0000 80 chrIII:13709208-13709288 1.0000 80 chrII:11917739-11917819 1.0000 80 chrIII:345679-345759 1.0000 80 chrV:16040621-16040701 1.0000 80 chrIII:10463782-10463862 1.0000 80 chrV:12551988-12552068 1.0000 80 chrX:8925629-8925709 1.0000 80 chrIV:5817678-5817758 1.0000 80 chrIV:15932082-15932162 1.0000 80 chrIII:5557415-5557495 1.0000 80 chrI:6838241-6838321 1.0000 80 chrII:4048032-4048112 1.0000 80 chrIV:3336800-3336880 1.0000 80 chrII:5619454-5619534 1.0000 80 chrII:7406649-7406729 1.0000 80 chrIV:6377427-6377507 1.0000 80 chrIV:2388108-2388188 1.0000 80 chrII:2800914-2800994 1.0000 80 chrV:6515041-6515121 1.0000 80 chrII:12519120-12519200 1.0000 80 chrX:6321150-6321230 1.0000 80 chrV:14354512-14354592 1.0000 80 chrI:11584811-11584891 1.0000 80 chrIV:7983995-7984075 1.0000 80 chrIV:10387520-10387600 1.0000 80 chrI:7059286-7059366 1.0000 80 chrV:5844493-5844573 1.0000 80 chrII:13829467-13829547 1.0000 80 chrV:10203188-10203268 1.0000 80 chrM:11085-11165 1.0000 80 chrIV:3313397-3313477 1.0000 80 chrII:11247762-11247842 1.0000 80 chrIV:991527-991607 1.0000 80 chrV:724008-724088 1.0000 80 chrX:15274048-15274128 1.0000 80 chrII:11464588-11464668 1.0000 80 chrV:4818293-4818373 1.0000 80 chrX:12655665-12655745 1.0000 80 chrI:2929630-2929710 1.0000 80 chrII:11880543-11880623 1.0000 80 chrI:3138873-3138953 1.0000 80 chrI:9883698-9883778 1.0000 80 chrIV:15693419-15693499 1.0000 80 chrX:16024674-16024754 1.0000 80 chrIV:4450033-4450113 1.0000 80 chrX:7230246-7230326 1.0000 80 chrII:3500728-3500808 1.0000 80 chrII:5689125-5689205 1.0000 80 chrI:4769650-4769730 1.0000 80 chrX:10051766-10051846 1.0000 80 chrIV:14225030-14225110 1.0000 80 chrV:14468508-14468588 1.0000 80 chrIV:13826488-13826568 1.0000 80 chrIV:4817032-4817112 1.0000 80 chrV:4651772-4651852 1.0000 80 chrX:15075818-15075898 1.0000 80 chrIII:9523713-9523793 1.0000 80 chrV:11177079-11177159 1.0000 80 chrI:9110853-9110933 1.0000 80 chrIII:4498107-4498187 1.0000 80 chrIII:11918421-11918501 1.0000 80 chrIII:11372698-11372778 1.0000 80 chrX:8640803-8640883 1.0000 80 chrIV:6653858-6653938 1.0000 80 chrIII:11054964-11055044 1.0000 80 chrV:7432814-7432894 1.0000 80 chrIV:4655409-4655489 1.0000 80 chrIII:3249140-3249220 1.0000 80 chrIV:3652447-3652527 1.0000 80 chrV:14240684-14240764 1.0000 80 chrX:10142164-10142244 1.0000 80 chrIII:5953444-5953524 1.0000 80 chrII:7301830-7301910 1.0000 80 chrI:2419782-2419862 1.0000 80 chrIV:16503779-16503859 1.0000 80 chrV:9732492-9732572 1.0000 80 chrX:8386672-8386752 1.0000 80 chrIV:9464270-9464350 1.0000 80 chrV:7858277-7858357 1.0000 80 chrX:6521565-6521645 1.0000 80 chrIV:14872437-14872517 1.0000 80 chrI:3832099-3832179 1.0000 80 chrI:33812-33892 1.0000 80 chrI:12565542-12565622 1.0000 80 chrIII:13016126-13016206 1.0000 80 chrII:9128279-9128359 1.0000 80 chrIII:6462579-6462659 1.0000 80 chrII:3810686-3810766 1.0000 80 chrV:11572964-11573044 1.0000 80 chrV:9856607-9856687 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_spr-1/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/spr-1.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 0.27 C 0.223 G 0.22 T 0.288 Background letter frequencies (from file dataset with add-one prior applied): A 0.27 C 0.223 G 0.22 T 0.288 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GGCGBSGS MEME-1 width = 8 sites = 25 llr = 220 E-value = 1.8e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGCGBSGS MEME-1 Description -------------------------------------------------------------------------------- Simplified A ::::1::: pos.-specific C ::a:3426 probability G aa:a3684 matrix T ::::2::: bits 2.2 **** 2.0 **** 1.7 **** 1.5 **** Relative 1.3 **** ** Entropy 1.1 **** *** (12.7 bits) 0.9 **** *** 0.7 **** *** 0.4 **** *** 0.2 ******** 0.0 -------- Multilevel GGCGCGGC consensus GCCG sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCGBSGS MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:15362296-15362376 11 1.14e-05 aatgccgcgc ggcgcggc gtgtatgcga chrV:729323-729403 50 1.14e-05 TCTGTGAAGT GGCGGGGC TGAAGCTTCT chrV:5780872-5780952 70 1.14e-05 AGAGAGCACA GGCGCGGC AAG chrII:11720970-11721050 9 1.14e-05 ACCAAGTG GGCGGGGC CAAACGAGAC chrIII:345679-345759 57 2.26e-05 CGTCCTTTTT GGCGGGGG TGCCGGTGCC chrIV:11491538-11491618 32 4.14e-05 GCTCGGCGCT GGCGCCGC GGTCTCTCTT chrI:1271063-1271143 71 4.14e-05 CTCAGCTGCT GGCGGCGC GG chrII:11733319-11733399 25 4.14e-05 TTTATTAGTG GGCGTGGC CAAACGAGAC chrII:5537240-5537320 29 4.14e-05 GAACCGAGTG GGCGTGGC CAAACGAGAC chrII:4755792-4755872 20 4.14e-05 GAACCAAGTG GGCGTGGC CAAACGAGAC chrII:5633579-5633659 36 4.14e-05 GAACAGAGTG GGCGTGGC CAAACGAGAC chrIII:9523713-9523793 72 6.01e-05 CCCCTTGCAA GGCGGCGG C chrIV:15693419-15693499 49 6.01e-05 AGTGGGTTAA GGCGCCGG GCTTCGCGCA chrIV:6117861-6117941 53 6.01e-05 AGCACACGGT GGCGGCGG ACAAAACGCG chrV:11799399-11799479 57 6.01e-05 GGCGCCAACA GGCGTGGG AGTTGGGGAC chrII:10529607-10529687 56 7.91e-05 TTTGCGTCCG GGCGCGCC GCCGAGTTTT chrIII:11054964-11055044 56 8.60e-05 CGCTTCGCGA GGCGAGGC ATTTGGTTTT chrII:14097046-14097126 20 8.60e-05 TTTCCACGAA GGCGAGGC GCAAAGAGGG chrI:2419782-2419862 32 1.05e-04 TGCCAGCTTC GGCGTCGG TCACCTGAAC chrV:14366729-14366809 55 1.05e-04 GCGGCTGAGG GGCGCGCG CGCCTTCTCT chrV:10681323-10681403 50 1.05e-04 CCGGTGGATC GGCGCGCG TTCGTCTCTC chrII:15119930-15120010 28 1.05e-04 actctttaaa ggcgcgcg cGTAAGAGGA chrI:9110853-9110933 68 1.31e-04 CCTTCGGCCC GGCGGCCC GCTTC chrIII:11463899-11463979 58 1.57e-04 TCTTGGCCCA GGCGGCCG ACGTCTCACG chrI:10777430-10777510 46 1.64e-04 CGTTTTGGGT GGCGACGG GGCGCCAGAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCGBSGS MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:15362296-15362376 1.1e-05 10_[+1]_62 chrV:729323-729403 1.1e-05 49_[+1]_23 chrV:5780872-5780952 1.1e-05 69_[+1]_3 chrII:11720970-11721050 1.1e-05 8_[+1]_64 chrIII:345679-345759 2.3e-05 56_[+1]_16 chrIV:11491538-11491618 4.1e-05 31_[+1]_41 chrI:1271063-1271143 4.1e-05 70_[+1]_2 chrII:11733319-11733399 4.1e-05 24_[+1]_48 chrII:5537240-5537320 4.1e-05 28_[+1]_44 chrII:4755792-4755872 4.1e-05 19_[+1]_53 chrII:5633579-5633659 4.1e-05 35_[+1]_37 chrIII:9523713-9523793 6e-05 71_[+1]_1 chrIV:15693419-15693499 6e-05 48_[+1]_24 chrIV:6117861-6117941 6e-05 52_[+1]_20 chrV:11799399-11799479 6e-05 56_[+1]_16 chrII:10529607-10529687 7.9e-05 55_[+1]_17 chrIII:11054964-11055044 8.6e-05 55_[+1]_17 chrII:14097046-14097126 8.6e-05 19_[+1]_53 chrI:2419782-2419862 0.0001 31_[+1]_41 chrV:14366729-14366809 0.0001 54_[+1]_18 chrV:10681323-10681403 0.0001 49_[+1]_23 chrII:15119930-15120010 0.0001 27_[+1]_45 chrI:9110853-9110933 0.00013 67_[+1]_5 chrIII:11463899-11463979 0.00016 57_[+1]_15 chrI:10777430-10777510 0.00016 45_[+1]_27 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCGBSGS MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGCGBSGS width=8 seqs=25 chrX:15362296-15362376 ( 11) GGCGCGGC 1 chrV:729323-729403 ( 50) GGCGGGGC 1 chrV:5780872-5780952 ( 70) GGCGCGGC 1 chrII:11720970-11721050 ( 9) GGCGGGGC 1 chrIII:345679-345759 ( 57) GGCGGGGG 1 chrIV:11491538-11491618 ( 32) GGCGCCGC 1 chrI:1271063-1271143 ( 71) GGCGGCGC 1 chrII:11733319-11733399 ( 25) GGCGTGGC 1 chrII:5537240-5537320 ( 29) GGCGTGGC 1 chrII:4755792-4755872 ( 20) GGCGTGGC 1 chrII:5633579-5633659 ( 36) GGCGTGGC 1 chrIII:9523713-9523793 ( 72) GGCGGCGG 1 chrIV:15693419-15693499 ( 49) GGCGCCGG 1 chrIV:6117861-6117941 ( 53) GGCGGCGG 1 chrV:11799399-11799479 ( 57) GGCGTGGG 1 chrII:10529607-10529687 ( 56) GGCGCGCC 1 chrIII:11054964-11055044 ( 56) GGCGAGGC 1 chrII:14097046-14097126 ( 20) GGCGAGGC 1 chrI:2419782-2419862 ( 32) GGCGTCGG 1 chrV:14366729-14366809 ( 55) GGCGCGCG 1 chrV:10681323-10681403 ( 50) GGCGCGCG 1 chrII:15119930-15120010 ( 28) GGCGCGCG 1 chrI:9110853-9110933 ( 68) GGCGGCCC 1 chrIII:11463899-11463979 ( 58) GGCGGCCG 1 chrI:10777430-10777510 ( 46) GGCGACGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCGBSGS MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.4326 E= 1.8e+000 -1129 -1129 219 -1129 -1129 -1129 219 -1129 -1129 217 -1129 -1129 -1129 -1129 219 -1129 -117 52 54 -26 -1129 69 154 -1129 -1129 11 179 -1129 -1129 133 100 -1129 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCGBSGS MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 25 E= 1.8e+000 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 0.000000 1.000000 0.000000 0.120000 0.320000 0.320000 0.240000 0.000000 0.360000 0.640000 0.000000 0.000000 0.240000 0.760000 0.000000 0.000000 0.560000 0.440000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCGBSGS MEME-1 regular expression -------------------------------------------------------------------------------- GGCG[CGT][GC][GC][CG] -------------------------------------------------------------------------------- Time 8.84 secs. ******************************************************************************** ******************************************************************************** MOTIF CTGCGTCT MEME-2 width = 8 sites = 8 llr = 87 E-value = 6.9e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTGCGTCT MEME-2 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C a::9::a: probability G ::a1a::: matrix T :a:::a:a bits 2.2 * * * * 2.0 * * * * 1.7 *** **** 1.5 ******** Relative 1.3 ******** Entropy 1.1 ******** (15.7 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CTGCGTCT consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGCGTCT MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:14872437-14872517 24 1.28e-05 GGATAAGTCT CTGCGTCT CCACACGGAT chrII:11464588-11464668 72 1.28e-05 gtgtgtgtgt ctgcgtCT T chrII:11731597-11731677 57 1.28e-05 agcgcatttt ctgcgtct tcataaTAAT chrI:4654036-4654116 29 1.28e-05 CACAATGTCT CTGCGTCT TGGTGCCCTT chrIV:3311390-3311470 28 1.28e-05 CGACCTATCT CTGCGTCT CTCACGCCGG chrII:9113951-9114031 63 1.28e-05 TGGCAACTGT CTGCGTCT CTTCGTCTTA chrIV:1067540-1067620 31 1.28e-05 GGAAAAATGC CTGCGTCT CTTCGTCTCG chrIII:12977757-12977837 7 2.55e-05 TTTGGG CTGGGTCT CGCTCCGCAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGCGTCT MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:14872437-14872517 1.3e-05 23_[+2]_49 chrII:11464588-11464668 1.3e-05 71_[+2]_1 chrII:11731597-11731677 1.3e-05 56_[+2]_16 chrI:4654036-4654116 1.3e-05 28_[+2]_44 chrIV:3311390-3311470 1.3e-05 27_[+2]_45 chrII:9113951-9114031 1.3e-05 62_[+2]_10 chrIV:1067540-1067620 1.3e-05 30_[+2]_42 chrIII:12977757-12977837 2.5e-05 6_[+2]_66 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGCGTCT MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTGCGTCT width=8 seqs=8 chrIV:14872437-14872517 ( 24) CTGCGTCT 1 chrII:11464588-11464668 ( 72) CTGCGTCT 1 chrII:11731597-11731677 ( 57) CTGCGTCT 1 chrI:4654036-4654116 ( 29) CTGCGTCT 1 chrIV:3311390-3311470 ( 28) CTGCGTCT 1 chrII:9113951-9114031 ( 63) CTGCGTCT 1 chrIV:1067540-1067620 ( 31) CTGCGTCT 1 chrIII:12977757-12977837 ( 7) CTGGGTCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGCGTCT MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.155 E= 6.9e+002 -965 216 -965 -965 -965 -965 -965 180 -965 -965 218 -965 -965 197 -81 -965 -965 -965 218 -965 -965 -965 -965 180 -965 216 -965 -965 -965 -965 -965 180 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGCGTCT MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 8 E= 6.9e+002 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.875000 0.125000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGCGTCT MEME-2 regular expression -------------------------------------------------------------------------------- CTGCGTCT -------------------------------------------------------------------------------- Time 12.61 secs. ******************************************************************************** ******************************************************************************** MOTIF CGAGACTC MEME-3 width = 8 sites = 9 llr = 93 E-value = 5.3e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif CGAGACTC MEME-3 Description -------------------------------------------------------------------------------- Simplified A ::a:a:1: pos.-specific C a::::a2a probability G :a:a::1: matrix T ::::::6: bits 2.2 ** * * * 2.0 ****** * 1.7 ****** * 1.5 ****** * Relative 1.3 ****** * Entropy 1.1 ****** * (14.9 bits) 0.9 ****** * 0.7 ****** * 0.4 ****** * 0.2 ******** 0.0 -------- Multilevel CGAGACTC consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGAGACTC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrII:11733319-11733399 37 1.13e-05 CGTGGCCAAA CGAGACTC CAAATGCCGT chrII:5537240-5537320 41 1.13e-05 CGTGGCCAAA CGAGACTC CAAATTCCGC chrII:4755792-4755872 32 1.13e-05 CGTGGCCAAA CGAGACTC CGAATTCCGC chrII:11720970-11721050 21 1.13e-05 CGGGGCCAAA CGAGACTC CGAATTCCGC chrII:5633579-5633659 48 1.13e-05 CGTGGCCAAA CGAGACTC CGAATTCCGC chrX:8154691-8154771 72 2.00e-05 CTGTCACATG CGAGACCC G chrII:11731597-11731677 3 2.00e-05 aa cgagaccc aactatttga chrIII:344416-344496 19 2.86e-05 ATAAGAATTT CGAGACGC AGGGTGAATA chrII:11742437-11742517 32 3.92e-05 attgtcgtgt cgagacac cgggtaccgt -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGAGACTC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrII:11733319-11733399 1.1e-05 36_[+3]_36 chrII:5537240-5537320 1.1e-05 40_[+3]_32 chrII:4755792-4755872 1.1e-05 31_[+3]_41 chrII:11720970-11721050 1.1e-05 20_[+3]_52 chrII:5633579-5633659 1.1e-05 47_[+3]_25 chrX:8154691-8154771 2e-05 71_[+3]_1 chrII:11731597-11731677 2e-05 2_[+3]_70 chrIII:344416-344496 2.9e-05 18_[+3]_54 chrII:11742437-11742517 3.9e-05 31_[+3]_41 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGAGACTC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CGAGACTC width=8 seqs=9 chrII:11733319-11733399 ( 37) CGAGACTC 1 chrII:5537240-5537320 ( 41) CGAGACTC 1 chrII:4755792-4755872 ( 32) CGAGACTC 1 chrII:11720970-11721050 ( 21) CGAGACTC 1 chrII:5633579-5633659 ( 48) CGAGACTC 1 chrX:8154691-8154771 ( 72) CGAGACCC 1 chrII:11731597-11731677 ( 3) CGAGACCC 1 chrIII:344416-344496 ( 19) CGAGACGC 1 chrII:11742437-11742517 ( 32) CGAGACAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGAGACTC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.2866 E= 5.3e+003 -982 216 -982 -982 -982 -982 218 -982 189 -982 -982 -982 -982 -982 218 -982 189 -982 -982 -982 -982 216 -982 -982 -128 0 -98 95 -982 216 -982 -982 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGAGACTC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 9 E= 5.3e+003 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.111111 0.222222 0.111111 0.555556 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGAGACTC MEME-3 regular expression -------------------------------------------------------------------------------- CGAGAC[TC]C -------------------------------------------------------------------------------- Time 16.31 secs. ******************************************************************************** ******************************************************************************** MOTIF AAAAANKR MEME-4 width = 8 sites = 45 llr = 348 E-value = 1.2e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif AAAAANKR MEME-4 Description -------------------------------------------------------------------------------- Simplified A aaaaa216 pos.-specific C :::::2:: probability G :::::334 matrix T :::::36: bits 2.2 2.0 ***** 1.7 ***** 1.5 ***** Relative 1.3 ***** Entropy 1.1 ***** * (11.2 bits) 0.9 ***** * 0.7 ***** ** 0.4 ***** ** 0.2 ***** ** 0.0 -------- Multilevel AAAAAGTA consensus TGG sequence C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAANKR MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:4655409-4655489 30 2.45e-05 AAGACATAAG AAAAAGTA AATTCCTCAA chrII:11247762-11247842 33 2.45e-05 AACGCGGAAA AAAAAGTA GCTGAGGAGG chrV:12551988-12552068 33 2.45e-05 TGTTCGGAGA AAAAAGTA TCTGAGAGTA chrIV:12417145-12417225 44 2.45e-05 TTTTCAAACA AAAAAGTA CATTTCGAGC chrX:16803949-16804029 50 2.45e-05 TTTTTTATTT AAAAAGTA TATAACAATT chrX:8623986-8624066 1 2.45e-05 . AAAAAGTA TTTAGGGGGC chrIV:6378535-6378615 18 2.45e-05 TTCTAACTTG AAAAAGTA AAAATTACAG chrI:9110853-9110933 26 4.33e-05 GATCATAGTG AAAAAGGA GACGACGGGT chrV:15013228-15013308 20 4.33e-05 GTACCCTATA AAAAAGGA CGATGAAGCA chrX:10237252-10237332 34 4.33e-05 TCCAAAAAAT AAAAAGGA TACCATTGTT chrIII:344416-344496 64 4.33e-05 AATGGGGGAA AAAAAGGA TAATGTAAA chrV:14506013-14506093 41 4.33e-05 TGAAAAGGGG AAAAAGGA AGGAAGAAGT chrX:15274048-15274128 40 6.82e-05 TAATGCGTTG AAAAACTA GATTTTCGTG chrI:15040215-15040295 43 6.82e-05 AATATAAGCT AAAAACTA AATTTTCAGA chrII:10419385-10419465 29 6.82e-05 AGAAGTTTTT AAAAACTA ACCGATATAA chrV:4818293-4818373 15 1.20e-04 TGCTAAATTC AAAAATTA ATACATTTTT chrV:14463219-14463299 1 1.20e-04 . AAAAATTA AGCTGTTGGC chrII:4790833-4790913 23 1.20e-04 cgcaaaagtc aaaaattA GGGGTTTCTA chrI:33812-33892 43 1.39e-04 GCCTGAAGAA AAAAACGA ACACTTTGGT chrII:13198726-13198806 37 1.39e-04 TCTCTCGATG AAAAACGA AACAACGATG chrIII:11463899-11463979 1 1.39e-04 . AAAAACGA CCAGCGCATG chrV:14354512-14354592 31 1.79e-04 GATGCTGGTG AAAAAGGG AAATCGGTTC chrII:2800914-2800994 63 1.79e-04 CGACGATTGG AAAAATGA TAAGAATCAA chrX:17545698-17545778 47 1.79e-04 CCTTCGCAAT AAAAATGA AAAAGGGTGG chrM:11416-11496 32 2.30e-04 AGGATATAGG AAAAAATA AAATTAGAGC chrIV:9196164-9196244 5 2.30e-04 tgcg aaaaactg tttaaagtat chrIV:1817262-1817342 33 2.30e-04 TTTAATCTGA AAAAAATA TTCCAAACAA chrIV:17185224-17185304 21 2.30e-04 TTCAATTAAA AAAAACTG TTTCAGCTGT chrX:15075818-15075898 71 2.56e-04 TCGCTACCGC AAAAATTG AA chrX:7230246-7230326 27 2.56e-04 CAAACCTTTC AAAAATTG AAGACTGTTA chrII:11742437-11742517 18 2.56e-04 ttgcattcat aaaaattg tcgtgtcgag chrIII:9523713-9523793 6 2.94e-04 ACTTT AAAAACGG AAAACGCAGT chrII:12176445-12176525 1 3.14e-04 . AAAAATGG TATTATATAA chrM:8827-8907 28 3.14e-04 TATTTGGTAT AAAAATGG TATTTAATCC chrV:9732492-9732572 23 3.39e-04 TATTTTTCAG AAAAAATG TCAACGTTGG chrII:152919-152999 25 3.39e-04 GACGCAATTC AAAAAATG TGGTCTGAGA chrI:1214704-1214784 43 3.39e-04 tttgatctac aaaaaatg cgggattttt chrII:3499900-3499980 20 3.39e-04 AAAACCGAGT AAAAAATG CGAAAAAACC chrII:11731390-11731470 61 3.39e-04 tgggacgtag aaaaaatg cccaatcaac chrV:10203188-10203268 67 3.81e-04 TTTTTATGAT AAAAAGAA ATACGC chrII:11917739-11917819 3 3.81e-04 TA AAAAAAGG TTCTCCGGTG chrI:10777430-10777510 64 4.04e-04 GGCGCCAGAC AAAAACAA GTCTCTGCG chrIII:5953444-5953524 68 4.53e-04 TGTATAGATG AAAAATAA AAAGC chrIII:7142358-7142438 37 4.53e-04 CCGTGGGAGC AAAAATAA GAGAGAAGCA chrX:5252975-5253055 5 4.53e-04 GGAG AAAAAGAG GTGGGGAAGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAANKR MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:4655409-4655489 2.5e-05 29_[+4]_43 chrII:11247762-11247842 2.5e-05 32_[+4]_40 chrV:12551988-12552068 2.5e-05 32_[+4]_40 chrIV:12417145-12417225 2.5e-05 43_[+4]_29 chrX:16803949-16804029 2.5e-05 49_[+4]_23 chrX:8623986-8624066 2.5e-05 [+4]_72 chrIV:6378535-6378615 2.5e-05 17_[+4]_55 chrI:9110853-9110933 4.3e-05 25_[+4]_47 chrV:15013228-15013308 4.3e-05 19_[+4]_53 chrX:10237252-10237332 4.3e-05 33_[+4]_39 chrIII:344416-344496 4.3e-05 63_[+4]_9 chrV:14506013-14506093 4.3e-05 40_[+4]_32 chrX:15274048-15274128 6.8e-05 39_[+4]_33 chrI:15040215-15040295 6.8e-05 42_[+4]_30 chrII:10419385-10419465 6.8e-05 28_[+4]_44 chrV:4818293-4818373 0.00012 14_[+4]_58 chrV:14463219-14463299 0.00012 [+4]_72 chrII:4790833-4790913 0.00012 22_[+4]_50 chrI:33812-33892 0.00014 42_[+4]_30 chrII:13198726-13198806 0.00014 36_[+4]_36 chrIII:11463899-11463979 0.00014 [+4]_72 chrV:14354512-14354592 0.00018 30_[+4]_42 chrII:2800914-2800994 0.00018 62_[+4]_10 chrX:17545698-17545778 0.00018 46_[+4]_26 chrM:11416-11496 0.00023 31_[+4]_41 chrIV:9196164-9196244 0.00023 4_[+4]_68 chrIV:1817262-1817342 0.00023 32_[+4]_40 chrIV:17185224-17185304 0.00023 20_[+4]_52 chrX:15075818-15075898 0.00026 70_[+4]_2 chrX:7230246-7230326 0.00026 26_[+4]_46 chrII:11742437-11742517 0.00026 17_[+4]_55 chrIII:9523713-9523793 0.00029 5_[+4]_67 chrII:12176445-12176525 0.00031 [+4]_72 chrM:8827-8907 0.00031 27_[+4]_45 chrV:9732492-9732572 0.00034 22_[+4]_50 chrII:152919-152999 0.00034 24_[+4]_48 chrI:1214704-1214784 0.00034 42_[+4]_30 chrII:3499900-3499980 0.00034 19_[+4]_53 chrII:11731390-11731470 0.00034 60_[+4]_12 chrV:10203188-10203268 0.00038 66_[+4]_6 chrII:11917739-11917819 0.00038 2_[+4]_70 chrI:10777430-10777510 0.0004 63_[+4]_9 chrIII:5953444-5953524 0.00045 67_[+4]_5 chrIII:7142358-7142438 0.00045 36_[+4]_36 chrX:5252975-5253055 0.00045 4_[+4]_68 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAANKR MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AAAAANKR width=8 seqs=45 chrIV:4655409-4655489 ( 30) AAAAAGTA 1 chrII:11247762-11247842 ( 33) AAAAAGTA 1 chrV:12551988-12552068 ( 33) AAAAAGTA 1 chrIV:12417145-12417225 ( 44) AAAAAGTA 1 chrX:16803949-16804029 ( 50) AAAAAGTA 1 chrX:8623986-8624066 ( 1) AAAAAGTA 1 chrIV:6378535-6378615 ( 18) AAAAAGTA 1 chrI:9110853-9110933 ( 26) AAAAAGGA 1 chrV:15013228-15013308 ( 20) AAAAAGGA 1 chrX:10237252-10237332 ( 34) AAAAAGGA 1 chrIII:344416-344496 ( 64) AAAAAGGA 1 chrV:14506013-14506093 ( 41) AAAAAGGA 1 chrX:15274048-15274128 ( 40) AAAAACTA 1 chrI:15040215-15040295 ( 43) AAAAACTA 1 chrII:10419385-10419465 ( 29) AAAAACTA 1 chrV:4818293-4818373 ( 15) AAAAATTA 1 chrV:14463219-14463299 ( 1) AAAAATTA 1 chrII:4790833-4790913 ( 23) AAAAATTA 1 chrI:33812-33892 ( 43) AAAAACGA 1 chrII:13198726-13198806 ( 37) AAAAACGA 1 chrIII:11463899-11463979 ( 1) AAAAACGA 1 chrV:14354512-14354592 ( 31) AAAAAGGG 1 chrII:2800914-2800994 ( 63) AAAAATGA 1 chrX:17545698-17545778 ( 47) AAAAATGA 1 chrM:11416-11496 ( 32) AAAAAATA 1 chrIV:9196164-9196244 ( 5) AAAAACTG 1 chrIV:1817262-1817342 ( 33) AAAAAATA 1 chrIV:17185224-17185304 ( 21) AAAAACTG 1 chrX:15075818-15075898 ( 71) AAAAATTG 1 chrX:7230246-7230326 ( 27) AAAAATTG 1 chrII:11742437-11742517 ( 18) AAAAATTG 1 chrIII:9523713-9523793 ( 6) AAAAACGG 1 chrII:12176445-12176525 ( 1) AAAAATGG 1 chrM:8827-8907 ( 28) AAAAATGG 1 chrV:9732492-9732572 ( 23) AAAAAATG 1 chrII:152919-152999 ( 25) AAAAAATG 1 chrI:1214704-1214784 ( 43) AAAAAATG 1 chrII:3499900-3499980 ( 20) AAAAAATG 1 chrII:11731390-11731470 ( 61) AAAAAATG 1 chrV:10203188-10203268 ( 67) AAAAAGAA 1 chrII:11917739-11917819 ( 3) AAAAAAGG 1 chrI:10777430-10777510 ( 64) AAAAACAA 1 chrIII:5953444-5953524 ( 68) AAAAATAA 1 chrIII:7142358-7142438 ( 37) AAAAATAA 1 chrX:5252975-5253055 ( 5) AAAAAGAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAANKR MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.2095 E= 1.2e+000 189 -1214 -1214 -1214 189 -1214 -1214 -1214 189 -1214 -1214 -1214 189 -1214 -1214 -1214 189 -1214 -1214 -1214 -60 0 60 -11 -128 -1214 60 95 126 -1214 69 -1214 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAANKR MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 45 E= 1.2e+000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.177778 0.222222 0.333333 0.266667 0.111111 0.000000 0.333333 0.555556 0.644444 0.000000 0.355556 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAANKR MEME-4 regular expression -------------------------------------------------------------------------------- AAAAA[GTC][TG][AG] -------------------------------------------------------------------------------- Time 19.99 secs. ******************************************************************************** ******************************************************************************** MOTIF GGCTCCGG MEME-5 width = 8 sites = 5 llr = 57 E-value = 3.2e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGCTCCGG MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C ::a:aa:2 probability G aa::::a8 matrix T :::a:::: bits 2.2 *** *** 2.0 *** *** 1.7 ******* 1.5 ******** Relative 1.3 ******** Entropy 1.1 ******** (16.3 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GGCTCCGG consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCTCCGG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:4647739-4647819 66 7.48e-06 CGGCTGGGGC GGCTCCGG CGTATCC chrII:11015993-11016073 32 7.48e-06 gggctccagc ggctccgg cgtttcctgg chrII:8358599-8358679 71 7.48e-06 CATTTCCTGG GGCTCCGG CG chrII:11015787-11015867 73 7.48e-06 GCTGTCCTGG GGCTCCGG chrI:12565542-12565622 51 1.51e-05 AAATCTCAGA GGCTCCGC CGCCAATGTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCTCCGG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:4647739-4647819 7.5e-06 65_[+5]_7 chrII:11015993-11016073 7.5e-06 31_[+5]_41 chrII:8358599-8358679 7.5e-06 70_[+5]_2 chrII:11015787-11015867 7.5e-06 72_[+5] chrI:12565542-12565622 1.5e-05 50_[+5]_22 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCTCCGG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGCTCCGG width=8 seqs=5 chrV:4647739-4647819 ( 66) GGCTCCGG 1 chrII:11015993-11016073 ( 32) GGCTCCGG 1 chrII:8358599-8358679 ( 71) GGCTCCGG 1 chrII:11015787-11015867 ( 73) GGCTCCGG 1 chrI:12565542-12565622 ( 51) GGCTCCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCTCCGG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 12.7769 E= 3.2e+004 -897 -897 218 -897 -897 -897 218 -897 -897 216 -897 -897 -897 -897 -897 180 -897 216 -897 -897 -897 216 -897 -897 -897 -897 218 -897 -897 -16 186 -897 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCTCCGG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 3.2e+004 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 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.200000 0.800000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCTCCGG MEME-5 regular expression -------------------------------------------------------------------------------- GGCTCCG[GC] -------------------------------------------------------------------------------- Time 23.59 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrII:5633579-5633659 1.41e-04 35_[+1(4.14e-05)]_4_[+3(1.13e-05)]_\ 25 chrI:10117619-10117699 8.40e-01 80 chrII:11719706-11719786 6.15e-01 80 chrII:11720970-11721050 9.79e-05 8_[+1(1.14e-05)]_4_[+3(1.13e-05)]_\ 52 chrII:15119711-15119791 5.32e-02 80 chrII:4790833-4790913 1.31e-01 80 chrII:4755792-4755872 3.28e-04 19_[+1(4.14e-05)]_4_[+3(1.13e-05)]_\ 41 chrII:5537240-5537320 1.43e-03 28_[+1(4.14e-05)]_4_[+3(1.13e-05)]_\ 32 chrIV:1067540-1067620 1.79e-03 30_[+2(1.28e-05)]_42 chrII:11731390-11731470 2.58e-01 80 chrM:8827-8907 3.90e-01 80 chrI:6499750-6499830 8.07e-01 80 chrIV:6378535-6378615 1.80e-01 17_[+4(2.45e-05)]_55 chrII:11336103-11336183 7.35e-02 80 chrM:1826-1906 9.47e-01 80 chrII:12787861-12787941 7.97e-01 80 chrV:5780872-5780952 3.56e-02 69_[+1(1.14e-05)]_3 chrII:11015787-11015867 1.28e-03 72_[+5(7.48e-06)] chrII:15119930-15120010 1.06e-01 80 chrIV:17185224-17185304 4.35e-01 80 chrV:13376762-13376842 9.28e-01 80 chrII:11733319-11733399 2.32e-03 24_[+1(4.14e-05)]_4_[+3(1.13e-05)]_\ 36 chrI:8244083-8244163 7.21e-01 80 chrV:8039321-8039401 8.25e-01 80 chrV:4651563-4651643 3.49e-01 80 chrIV:14822337-14822417 5.34e-01 80 chrV:11799399-11799479 1.15e-01 56_[+1(6.01e-05)]_16 chrV:14506013-14506093 5.28e-02 40_[+4(4.33e-05)]_32 chrII:9113951-9114031 2.01e-02 62_[+2(1.28e-05)]_10 chrII:10419385-10419465 2.37e-01 28_[+4(6.82e-05)]_44 chrIV:6378737-6378817 3.25e-01 80 chrM:3267-3347 8.73e-01 80 chrM:4982-5062 9.83e-01 80 chrI:1271063-1271143 1.02e-02 47_[+1(7.91e-05)]_15_[+1(4.14e-05)]_\ 2 chrIV:4519457-4519537 9.43e-01 80 chrII:10302467-10302547 9.98e-01 80 chrV:14463219-14463299 3.00e-02 80 chrM:8506-8586 9.77e-01 80 chrIV:3311390-3311470 2.10e-02 27_[+2(1.28e-05)]_45 chrIV:11491538-11491618 1.17e-02 31_[+1(4.14e-05)]_41 chrV:9340418-9340498 4.16e-01 80 chrX:12655455-12655535 9.82e-01 80 chrV:5330007-5330087 6.58e-01 80 chrIV:16775152-16775232 9.82e-01 80 chrII:5901796-5901876 5.13e-02 80 chrX:14744622-14744702 3.29e-02 80 chrIII:4174295-4174375 4.34e-01 80 chrII:11337637-11337717 8.14e-01 80 chrX:9237831-9237911 1.97e-01 80 chrV:13411528-13411608 6.25e-01 80 chrIII:8974890-8974970 9.84e-01 80 chrIV:4930892-4930972 3.18e-01 80 chrIV:9913243-9913323 1.43e-01 80 chrI:4654036-4654116 6.88e-02 28_[+2(1.28e-05)]_44 chrX:8623986-8624066 6.22e-03 [+4(2.45e-05)]_72 chrIII:12906767-12906847 9.18e-01 80 chrII:3499900-3499980 2.33e-01 80 chrIII:11554854-11554934 6.33e-01 80 chrV:19521337-19521417 5.84e-01 80 chrX:17545698-17545778 1.57e-01 80 chrI:1296639-1296719 5.46e-01 80 chrX:13308032-13308112 5.64e-01 80 chrIII:11463899-11463979 3.06e-04 80 chrII:14407979-14408059 3.53e-02 80 chrIII:2032717-2032797 9.16e-01 80 chrII:7002965-7003045 9.03e-01 80 chrI:14945930-14946010 8.14e-01 80 chrIII:10537685-10537765 2.01e-01 80 chrX:10218893-10218973 7.94e-01 80 chrV:12354585-12354665 9.82e-01 80 chrI:13324173-13324253 8.37e-01 80 chrII:5712260-5712340 9.37e-01 80 chrIV:292041-292121 8.00e-01 80 chrIII:5710937-5711017 1.87e-01 80 chrII:12176445-12176525 4.56e-02 80 chrII:8441638-8441718 8.63e-01 80 chrV:10681323-10681403 8.66e-02 80 chrIII:698931-699011 9.99e-01 80 chrII:10547470-10547550 2.60e-01 80 chrI:7490316-7490396 7.02e-01 80 chrM:10107-10187 8.67e-01 80 chrV:5667482-5667562 9.84e-01 80 chrX:5252975-5253055 1.50e-01 80 chrIII:344416-344496 2.42e-03 18_[+3(2.86e-05)]_37_[+4(4.33e-05)]_\ 9 chrV:6335332-6335412 9.89e-01 80 chrX:14437943-14438023 9.31e-01 80 chrIV:11601985-11602065 7.22e-01 80 chrIII:9060426-9060506 9.28e-01 80 chrX:14815729-14815809 7.14e-01 80 chrII:13829218-13829298 9.22e-01 80 chrV:729323-729403 7.78e-02 49_[+1(1.14e-05)]_23 chrX:16803949-16804029 1.17e-01 49_[+4(2.45e-05)]_23 chrX:5661351-5661431 8.87e-01 80 chrX:4193261-4193341 4.73e-01 80 chrX:9024384-9024464 3.83e-01 80 chrIII:6415623-6415703 2.04e-01 80 chrIV:1817262-1817342 5.68e-01 80 chrIII:7142358-7142438 2.46e-01 80 chrM:3584-3664 9.67e-01 80 chrI:1214704-1214784 3.99e-01 80 chrII:13522292-13522372 9.39e-01 80 chrII:10529607-10529687 3.27e-02 55_[+1(7.91e-05)]_17 chrX:15568448-15568528 5.82e-01 80 chrIII:9782168-9782248 1.70e-01 80 chrI:15040215-15040295 3.68e-01 42_[+4(6.82e-05)]_30 chrV:5768357-5768437 2.70e-01 80 chrII:4710353-4710433 8.71e-01 80 chrII:11742437-11742517 3.23e-03 31_[+3(3.92e-05)]_41 chrX:9234019-9234099 3.04e-01 80 chrV:15480012-15480092 2.85e-01 80 chrII:152919-152999 1.05e-01 80 chrIV:9196164-9196244 4.74e-01 80 chrII:13167743-13167823 7.17e-01 80 chrI:5375628-5375708 9.91e-01 80 chrI:571864-571944 9.04e-01 80 chrV:14366729-14366809 2.14e-03 80 chrII:4728833-4728913 7.37e-01 80 chrII:7877915-7877995 9.77e-01 80 chrX:12656815-12656895 1.76e-01 80 chrX:8477596-8477676 7.30e-03 80 chrIV:6117861-6117941 4.29e-02 52_[+1(6.01e-05)]_20 chrII:14097046-14097126 3.38e-03 19_[+1(8.60e-05)]_53 chrIV:16657669-16657749 9.99e-01 80 chrII:1402318-1402398 5.05e-01 80 chrI:9101032-9101112 4.33e-01 80 chrX:4007779-4007859 6.87e-01 80 chrV:6559720-6559800 6.52e-01 80 chrV:19519623-19519703 6.05e-01 80 chrX:10237252-10237332 3.02e-01 33_[+4(4.33e-05)]_39 chrII:11731597-11731677 6.89e-05 2_[+3(2.00e-05)]_46_[+2(1.28e-05)]_\ 16 chrII:13198726-13198806 1.66e-02 80 chrII:8358599-8358679 2.04e-03 70_[+5(7.48e-06)]_2 chrII:11724540-11724620 9.99e-01 80 chrI:10777430-10777510 3.97e-04 80 chrIV:12417145-12417225 1.10e-01 43_[+4(2.45e-05)]_29 chrX:15842608-15842688 4.01e-01 80 chrX:8154691-8154771 4.00e-03 71_[+3(2.00e-05)]_1 chrI:5372420-5372500 7.32e-01 80 chrII:11015993-11016073 2.04e-03 31_[+5(7.48e-06)]_41 chrM:11416-11496 5.59e-01 80 chrIII:12977757-12977837 2.01e-03 6_[+2(2.55e-05)]_66 chrV:15013228-15013308 2.53e-01 19_[+4(4.33e-05)]_53 chrV:19050692-19050772 2.12e-01 80 chrX:15362296-15362376 3.53e-04 10_[+1(1.14e-05)]_62 chrI:12728074-12728154 2.27e-02 80 chrM:2991-3071 9.64e-01 80 chrV:12552243-12552323 7.22e-01 80 chrIII:3471557-3471637 9.92e-01 80 chrM:8215-8295 6.09e-01 80 chrX:15773421-15773501 9.17e-01 80 chrX:2116594-2116674 1.23e-01 80 chrIV:7785822-7785902 9.87e-01 80 chrIII:4566196-4566276 8.80e-01 80 chrX:9234229-9234309 4.27e-01 80 chrII:10389197-10389277 8.82e-01 80 chrIV:3611976-3612056 1.62e-02 80 chrV:4647739-4647819 7.46e-04 65_[+5(7.48e-06)]_7 chrII:11376759-11376839 7.59e-01 80 chrIII:11091187-11091267 7.47e-01 80 chrX:4494624-4494704 8.68e-01 80 chrIII:13709208-13709288 3.07e-01 80 chrII:11917739-11917819 5.14e-02 80 chrIII:345679-345759 2.69e-02 56_[+1(2.26e-05)]_16 chrV:16040621-16040701 8.34e-01 80 chrIII:10463782-10463862 7.43e-01 80 chrV:12551988-12552068 1.35e-01 32_[+4(2.45e-05)]_40 chrX:8925629-8925709 2.79e-01 80 chrIV:5817678-5817758 9.63e-02 24_[+2(1.28e-05)]_19_[+2(1.28e-05)]_\ 21 chrIV:15932082-15932162 8.20e-01 80 chrIII:5557415-5557495 4.59e-01 80 chrI:6838241-6838321 8.67e-01 80 chrII:4048032-4048112 7.07e-01 80 chrIV:3336800-3336880 8.73e-02 80 chrII:5619454-5619534 1.81e-01 80 chrII:7406649-7406729 8.58e-01 80 chrIV:6377427-6377507 5.88e-02 80 chrIV:2388108-2388188 1.00e-01 80 chrII:2800914-2800994 1.26e-01 80 chrV:6515041-6515121 6.15e-01 80 chrII:12519120-12519200 4.81e-02 80 chrX:6321150-6321230 4.56e-01 80 chrV:14354512-14354592 2.17e-01 80 chrI:11584811-11584891 1.88e-02 80 chrIV:7983995-7984075 8.65e-01 80 chrIV:10387520-10387600 6.86e-01 80 chrI:7059286-7059366 9.08e-01 80 chrV:5844493-5844573 1.80e-02 80 chrII:13829467-13829547 5.91e-01 80 chrV:10203188-10203268 5.86e-01 80 chrM:11085-11165 6.77e-01 80 chrIV:3313397-3313477 1.25e-01 80 chrII:11247762-11247842 8.29e-02 32_[+4(2.45e-05)]_40 chrIV:991527-991607 9.51e-02 80 chrV:724008-724088 9.81e-01 80 chrX:15274048-15274128 1.32e-01 39_[+4(6.82e-05)]_33 chrII:11464588-11464668 9.49e-02 71_[+2(1.28e-05)]_1 chrV:4818293-4818373 4.10e-01 80 chrX:12655665-12655745 3.54e-01 80 chrI:2929630-2929710 9.87e-01 80 chrII:11880543-11880623 9.95e-01 80 chrI:3138873-3138953 3.83e-01 80 chrI:9883698-9883778 1.78e-01 80 chrIV:15693419-15693499 4.83e-03 48_[+5(5.26e-05)]_24 chrX:16024674-16024754 4.74e-01 80 chrIV:4450033-4450113 4.87e-01 80 chrX:7230246-7230326 4.95e-01 80 chrII:3500728-3500808 4.18e-01 80 chrII:5689125-5689205 7.58e-01 80 chrI:4769650-4769730 3.22e-01 80 chrX:10051766-10051846 4.39e-01 80 chrIV:14225030-14225110 6.34e-01 80 chrV:14468508-14468588 2.71e-01 80 chrIV:13826488-13826568 1.00e+00 80 chrIV:4817032-4817112 6.89e-01 80 chrV:4651772-4651852 9.99e-01 80 chrX:15075818-15075898 4.21e-01 80 chrIII:9523713-9523793 6.16e-04 71_[+1(6.01e-05)]_1 chrV:11177079-11177159 7.73e-01 80 chrI:9110853-9110933 1.99e-03 25_[+4(4.33e-05)]_47 chrIII:4498107-4498187 4.03e-01 80 chrIII:11918421-11918501 9.45e-01 80 chrIII:11372698-11372778 5.33e-01 80 chrX:8640803-8640883 4.60e-01 80 chrIV:6653858-6653938 9.83e-01 80 chrIII:11054964-11055044 4.95e-02 55_[+1(8.60e-05)]_17 chrV:7432814-7432894 9.99e-01 80 chrIV:4655409-4655489 1.06e-01 29_[+4(2.45e-05)]_43 chrIII:3249140-3249220 7.86e-01 80 chrIV:3652447-3652527 4.50e-02 80 chrV:14240684-14240764 4.05e-01 80 chrX:10142164-10142244 3.58e-01 80 chrIII:5953444-5953524 6.13e-01 80 chrII:7301830-7301910 3.85e-01 80 chrI:2419782-2419862 2.19e-02 80 chrIV:16503779-16503859 8.21e-01 80 chrV:9732492-9732572 3.97e-01 80 chrX:8386672-8386752 1.82e-01 80 chrIV:9464270-9464350 6.55e-01 80 chrV:7858277-7858357 9.53e-01 80 chrX:6521565-6521645 4.24e-01 80 chrIV:14872437-14872517 4.79e-02 23_[+2(1.28e-05)]_49 chrI:3832099-3832179 9.59e-01 80 chrI:33812-33892 8.54e-02 80 chrI:12565542-12565622 5.54e-03 50_[+5(1.51e-05)]_22 chrIII:13016126-13016206 1.70e-01 80 chrII:9128279-9128359 9.97e-01 80 chrIII:6462579-6462659 8.98e-01 80 chrII:3810686-3810766 2.51e-02 80 chrV:11572964-11573044 8.98e-01 80 chrV:9856607-9856687 1.87e-01 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n11.farnam.hpc.yale.internal ********************************************************************************