******************************************************************************** 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/che-1.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrM:12032-12112 1.0000 80 chrM:3957-4037 1.0000 80 chrM:181-261 1.0000 80 chrII:13986223-13986303 1.0000 80 chrX:8603194-8603274 1.0000 80 chrM:5575-5655 1.0000 80 chrX:16944194-16944274 1.0000 80 chrM:7608-7688 1.0000 80 chrX:16944398-16944478 1.0000 80 chrI:12093802-12093882 1.0000 80 chrII:2570635-2570715 1.0000 80 chrX:5056377-5056457 1.0000 80 chrM:9894-9974 1.0000 80 chrV:16699928-16700008 1.0000 80 chrV:4495228-4495308 1.0000 80 chrIV:2740191-2740271 1.0000 80 chrX:16602539-16602619 1.0000 80 chrV:15553966-15554046 1.0000 80 chrM:5791-5871 1.0000 80 chrI:933475-933555 1.0000 80 chrIV:14576635-14576715 1.0000 80 chrX:4295000-4295080 1.0000 80 chrII:3268001-3268081 1.0000 80 chrM:2812-2892 1.0000 80 chrIII:1218384-1218464 1.0000 80 chrV:16550307-16550387 1.0000 80 chrIV:11071025-11071105 1.0000 80 chrV:20483680-20483760 1.0000 80 chrX:8818120-8818200 1.0000 80 chrIII:445745-445825 1.0000 80 chrV:3587801-3587881 1.0000 80 chrI:9249375-9249455 1.0000 80 chrIV:14013825-14013905 1.0000 80 chrIV:13549486-13549566 1.0000 80 chrI:12004929-12005009 1.0000 80 chrM:10795-10875 1.0000 80 chrIV:1981080-1981160 1.0000 80 chrX:9225383-9225463 1.0000 80 chrX:3914474-3914554 1.0000 80 chrI:1884647-1884727 1.0000 80 chrV:14689479-14689559 1.0000 80 chrIII:931568-931648 1.0000 80 chrX:8944248-8944328 1.0000 80 chrX:8156106-8156186 1.0000 80 chrX:5140275-5140355 1.0000 80 chrV:1821426-1821506 1.0000 80 chrV:13415735-13415815 1.0000 80 chrIII:1962335-1962415 1.0000 80 chrIII:11936202-11936282 1.0000 80 chrIII:5828308-5828388 1.0000 80 chrX:12337960-12338040 1.0000 80 chrI:11609255-11609335 1.0000 80 chrI:12229282-12229362 1.0000 80 chrX:13730671-13730751 1.0000 80 chrM:2418-2498 1.0000 80 chrM:6314-6394 1.0000 80 chrII:14857112-14857192 1.0000 80 chrX:15877199-15877279 1.0000 80 chrI:1884414-1884494 1.0000 80 chrI:12225475-12225555 1.0000 80 chrX:3994580-3994660 1.0000 80 chrIII:12399886-12399966 1.0000 80 chrIV:13029746-13029826 1.0000 80 chrM:7072-7152 1.0000 80 chrIII:3499984-3500064 1.0000 80 chrX:16040518-16040598 1.0000 80 chrII:6898122-6898202 1.0000 80 chrV:12331834-12331914 1.0000 80 chrII:8128789-8128869 1.0000 80 chrX:9296708-9296788 1.0000 80 chrX:12692332-12692412 1.0000 80 chrI:3567665-3567745 1.0000 80 chrX:3472554-3472634 1.0000 80 chrM:10097-10177 1.0000 80 chrIII:6805565-6805645 1.0000 80 chrIII:11236990-11237070 1.0000 80 chrIII:10432231-10432311 1.0000 80 chrI:3994738-3994818 1.0000 80 chrM:948-1028 1.0000 80 chrII:14474913-14474993 1.0000 80 chrX:6134677-6134757 1.0000 80 chrX:8969663-8969743 1.0000 80 chrIV:10175173-10175253 1.0000 80 chrI:3638941-3639021 1.0000 80 chrV:14855804-14855884 1.0000 80 chrM:9120-9200 1.0000 80 chrI:6136569-6136649 1.0000 80 chrV:12510135-12510215 1.0000 80 chrV:19962144-19962224 1.0000 80 chrI:1559272-1559352 1.0000 80 chrIII:5769854-5769934 1.0000 80 chrIII:8650397-8650477 1.0000 80 chrV:13396559-13396639 1.0000 80 chrIII:1533300-1533380 1.0000 80 chrX:12693337-12693417 1.0000 80 chrIV:14128516-14128596 1.0000 80 chrX:13415143-13415223 1.0000 80 chrV:8230201-8230281 1.0000 80 chrI:1575714-1575794 1.0000 80 chrI:14708099-14708179 1.0000 80 chrIII:10906359-10906439 1.0000 80 chrI:11585439-11585519 1.0000 80 chrV:15505259-15505339 1.0000 80 chrIV:9822536-9822616 1.0000 80 chrI:1175843-1175923 1.0000 80 chrIII:13224589-13224669 1.0000 80 chrIV:1901059-1901139 1.0000 80 chrIV:5038889-5038969 1.0000 80 chrI:7951898-7951978 1.0000 80 chrX:11662699-11662779 1.0000 80 chrI:954021-954101 1.0000 80 chrIV:12417237-12417317 1.0000 80 chrX:2901285-2901365 1.0000 80 chrX:14229620-14229700 1.0000 80 chrIII:4542497-4542577 1.0000 80 chrIV:4398655-4398735 1.0000 80 chrV:14524357-14524437 1.0000 80 chrII:4238040-4238120 1.0000 80 chrV:19722975-19723055 1.0000 80 chrII:873572-873652 1.0000 80 chrV:7548724-7548804 1.0000 80 chrII:5293378-5293458 1.0000 80 chrI:11187639-11187719 1.0000 80 chrI:13421220-13421300 1.0000 80 chrI:6283511-6283591 1.0000 80 chrII:10336311-10336391 1.0000 80 chrIII:1122427-1122507 1.0000 80 chrV:8785645-8785725 1.0000 80 chrII:14198068-14198148 1.0000 80 chrII:7001603-7001683 1.0000 80 chrIV:1738408-1738488 1.0000 80 chrI:14606052-14606132 1.0000 80 chrIII:1824692-1824772 1.0000 80 chrIV:4407506-4407586 1.0000 80 chrV:7230997-7231077 1.0000 80 chrIII:9463153-9463233 1.0000 80 chrIII:2282336-2282416 1.0000 80 chrIV:5334683-5334763 1.0000 80 chrIII:12564015-12564095 1.0000 80 chrIV:16684394-16684474 1.0000 80 chrX:1022075-1022155 1.0000 80 chrX:12890267-12890347 1.0000 80 chrIII:4426816-4426896 1.0000 80 chrV:9692426-9692506 1.0000 80 chrIV:1687342-1687422 1.0000 80 chrIV:1514582-1514662 1.0000 80 chrX:13653721-13653801 1.0000 80 chrII:6022675-6022755 1.0000 80 chrIII:4427021-4427101 1.0000 80 chrM:12627-12707 1.0000 80 chrI:4132248-4132328 1.0000 80 chrX:1603324-1603404 1.0000 80 chrIII:4369390-4369470 1.0000 80 chrX:3226968-3227048 1.0000 80 chrX:8650601-8650681 1.0000 80 chrV:11852347-11852427 1.0000 80 chrV:20061707-20061787 1.0000 80 chrX:3347992-3348072 1.0000 80 chrI:4005814-4005894 1.0000 80 chrIV:15931279-15931359 1.0000 80 chrV:18496741-18496821 1.0000 80 chrIII:3664366-3664446 1.0000 80 chrV:9583088-9583168 1.0000 80 chrI:14651551-14651631 1.0000 80 chrIV:5753128-5753208 1.0000 80 chrIV:13030957-13031037 1.0000 80 chrV:13176539-13176619 1.0000 80 chrIV:16863661-16863741 1.0000 80 chrX:16271289-16271369 1.0000 80 chrIII:3620858-3620938 1.0000 80 chrV:2673982-2674062 1.0000 80 chrIV:16388369-16388449 1.0000 80 chrII:5399324-5399404 1.0000 80 chrII:6721697-6721777 1.0000 80 chrIV:16775194-16775274 1.0000 80 chrIII:4666819-4666899 1.0000 80 chrX:4617029-4617109 1.0000 80 chrX:4620161-4620241 1.0000 80 chrM:9322-9402 1.0000 80 chrIV:842835-842915 1.0000 80 chrIV:2639858-2639938 1.0000 80 chrI:7279368-7279448 1.0000 80 chrII:4130450-4130530 1.0000 80 chrX:2879741-2879821 1.0000 80 chrI:9116144-9116224 1.0000 80 chrI:1271138-1271218 1.0000 80 chrII:7003007-7003087 1.0000 80 chrM:8345-8425 1.0000 80 chrII:14635382-14635462 1.0000 80 chrX:9024387-9024467 1.0000 80 chrII:5772967-5773047 1.0000 80 chrIII:8653104-8653184 1.0000 80 chrII:2860311-2860391 1.0000 80 chrI:10400693-10400773 1.0000 80 chrV:19622706-19622786 1.0000 80 chrI:9176235-9176315 1.0000 80 chrIV:12617411-12617491 1.0000 80 chrX:5407393-5407473 1.0000 80 chrIV:385242-385322 1.0000 80 chrX:12348071-12348151 1.0000 80 chrX:14115651-14115731 1.0000 80 chrIII:349589-349669 1.0000 80 chrX:9622815-9622895 1.0000 80 chrM:2219-2299 1.0000 80 chrII:11694613-11694693 1.0000 80 chrIV:9316183-9316263 1.0000 80 chrII:1323225-1323305 1.0000 80 chrI:11505515-11505595 1.0000 80 chrI:9268915-9268995 1.0000 80 chrI:11978699-11978779 1.0000 80 chrI:11203491-11203571 1.0000 80 chrIV:3135178-3135258 1.0000 80 chrM:12414-12494 1.0000 80 chrX:1524732-1524812 1.0000 80 chrX:16928269-16928349 1.0000 80 chrIV:10821564-10821644 1.0000 80 chrM:4719-4799 1.0000 80 chrIII:9191325-9191405 1.0000 80 chrIII:1601589-1601669 1.0000 80 chrII:6859054-6859134 1.0000 80 chrII:7708718-7708798 1.0000 80 chrIII:3175124-3175204 1.0000 80 chrII:11157815-11157895 1.0000 80 chrIV:11928518-11928598 1.0000 80 chrX:3694252-3694332 1.0000 80 chrX:9373150-9373230 1.0000 80 chrI:9373055-9373135 1.0000 80 chrX:14804837-14804917 1.0000 80 chrI:8530116-8530196 1.0000 80 chrIII:6133646-6133726 1.0000 80 chrI:6531995-6532075 1.0000 80 chrIII:4587351-4587431 1.0000 80 chrX:10395743-10395823 1.0000 80 chrV:13393457-13393537 1.0000 80 chrI:10807206-10807286 1.0000 80 chrII:3567732-3567812 1.0000 80 chrX:13781612-13781692 1.0000 80 chrX:4444990-4445070 1.0000 80 chrIII:9104195-9104275 1.0000 80 chrIV:11310783-11310863 1.0000 80 chrIII:6537321-6537401 1.0000 80 chrX:12367609-12367689 1.0000 80 chrI:13310305-13310385 1.0000 80 chrX:8386199-8386279 1.0000 80 chrII:11959379-11959459 1.0000 80 chrI:4633626-4633706 1.0000 80 chrII:7756944-7757024 1.0000 80 chrX:13442585-13442665 1.0000 80 chrX:6220069-6220149 1.0000 80 chrIII:7030554-7030634 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_che-1/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/che-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 0.257 C 0.236 G 0.241 T 0.267 Background letter frequencies (from file dataset with add-one prior applied): A 0.257 C 0.236 G 0.241 T 0.267 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF CTCCGCCC MEME-1 width = 8 sites = 15 llr = 152 E-value = 2.1e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTCCGCCC MEME-1 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C a:aa:aa9 probability G :1::8::1 matrix T :9::2::: bits 2.1 * ** ** 1.9 * ** ** 1.7 * ** ** 1.5 **** *** Relative 1.3 ******** Entropy 1.0 ******** (14.6 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CTCCGCCC consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCGCCC MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:20061707-20061787 62 1.11e-05 CCACGTTTGG CTCCGCCC ACTTTTCGGG chrI:4132248-4132328 71 1.11e-05 CCGAGCAAGT CTCCGCCC AC chrI:14606052-14606132 31 1.11e-05 CACCCCCTGG CTCCGCCC ATTTTTCTGC chrI:6283511-6283591 34 1.11e-05 AGTCAGTAGA CTCCGCCC AAATTTTCCG chrI:14708099-14708179 27 1.11e-05 ATTCTCCAAA CTCCGCCC ATTTGCAACT chrV:1821426-1821506 12 1.11e-05 AAATACCCGA CTCCGCCC ACATGCAAGG chrI:12004929-12005009 59 1.11e-05 CAAAGGGAGT CTCCGCCC ATTTTTTATT chrI:9249375-9249455 40 1.11e-05 GGGGTTGAGA CTCCGCCC ACCGCAAGGC chrIV:11310783-11310863 40 2.34e-05 GGGCGTGTAA CTCCTCCC CATAATTCGT chrX:14115651-14115731 24 2.34e-05 GGCAAACGAC CTCCTCCC ACTTTCGTGG chrX:9296708-9296788 53 2.34e-05 TTCGGTGAGA CTCCTCCC CCATGCAACC chrX:13781612-13781692 24 3.35e-05 CACTCGCTAT CGCCGCCC GGTTAGCTCA chrI:6136569-6136649 24 3.35e-05 CATGTTGTGT CGCCGCCC GGTTAGCTCA chrI:11585439-11585519 9 4.48e-05 GGCCATCT CTCCGCCG GCGACTAACG chrV:3587801-3587881 33 4.48e-05 GATTTCGCAA CTCCGCCG CACAGTTTTA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCGCCC MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:20061707-20061787 1.1e-05 61_[+1]_11 chrI:4132248-4132328 1.1e-05 70_[+1]_2 chrI:14606052-14606132 1.1e-05 30_[+1]_42 chrI:6283511-6283591 1.1e-05 33_[+1]_39 chrI:14708099-14708179 1.1e-05 26_[+1]_46 chrV:1821426-1821506 1.1e-05 11_[+1]_61 chrI:12004929-12005009 1.1e-05 58_[+1]_14 chrI:9249375-9249455 1.1e-05 39_[+1]_33 chrIV:11310783-11310863 2.3e-05 39_[+1]_33 chrX:14115651-14115731 2.3e-05 23_[+1]_49 chrX:9296708-9296788 2.3e-05 52_[+1]_20 chrX:13781612-13781692 3.3e-05 23_[+1]_49 chrI:6136569-6136649 3.3e-05 23_[+1]_49 chrI:11585439-11585519 4.5e-05 8_[+1]_64 chrV:3587801-3587881 4.5e-05 32_[+1]_40 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCGCCC MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTCCGCCC width=8 seqs=15 chrV:20061707-20061787 ( 62) CTCCGCCC 1 chrI:4132248-4132328 ( 71) CTCCGCCC 1 chrI:14606052-14606132 ( 31) CTCCGCCC 1 chrI:6283511-6283591 ( 34) CTCCGCCC 1 chrI:14708099-14708179 ( 27) CTCCGCCC 1 chrV:1821426-1821506 ( 12) CTCCGCCC 1 chrI:12004929-12005009 ( 59) CTCCGCCC 1 chrI:9249375-9249455 ( 40) CTCCGCCC 1 chrIV:11310783-11310863 ( 40) CTCCTCCC 1 chrX:14115651-14115731 ( 24) CTCCTCCC 1 chrX:9296708-9296788 ( 53) CTCCTCCC 1 chrX:13781612-13781692 ( 24) CGCCGCCC 1 chrI:6136569-6136649 ( 24) CGCCGCCC 1 chrI:11585439-11585519 ( 9) CTCCGCCG 1 chrV:3587801-3587881 ( 33) CTCCGCCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCGCCC MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.9222 E= 2.1e-002 -1055 208 -1055 -1055 -1055 -1055 -85 170 -1055 208 -1055 -1055 -1055 208 -1055 -1055 -1055 -1055 173 -42 -1055 208 -1055 -1055 -1055 208 -1055 -1055 -1055 188 -85 -1055 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCGCCC MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 15 E= 2.1e-002 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.133333 0.866667 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.800000 0.200000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.866667 0.133333 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCGCCC MEME-1 regular expression -------------------------------------------------------------------------------- CTCC[GT]CCC -------------------------------------------------------------------------------- Time 9.05 secs. ******************************************************************************** ******************************************************************************** MOTIF TCGAACCC MEME-2 width = 8 sites = 31 llr = 270 E-value = 1.1e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif TCGAACCC MEME-2 Description -------------------------------------------------------------------------------- Simplified A :::a8::1 pos.-specific C :8:::988 probability G ::a:1::: matrix T a2::1121 bits 2.1 * 1.9 * * 1.7 * ** * 1.5 * ** * Relative 1.3 ******** Entropy 1.0 ******** (12.6 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TCGAACCC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:12367609-12367689 48 1.32e-05 ATGCCGGGAA TCGAACCC GGGCCGCGTG chrII:3567732-3567812 47 1.32e-05 AATGCGGGGC TCGAACCC GCGACAACCA chrI:8530116-8530196 27 1.32e-05 TTGCGGGGAA TCGAACCC CGGCCTTATG chrII:11157815-11157895 2 1.32e-05 C TCGAACCC GCGACAACCA chrX:16928269-16928349 17 1.32e-05 cgaccgggaa tcgaaccc gggccgcccg chrI:7279368-7279448 2 1.32e-05 C TCGAACCC GCGACAACCA chrX:16271289-16271369 22 1.32e-05 TTGCGGGGAA TCGAACCC CGGCCTTATG chrIV:16684394-16684474 4 1.32e-05 GAA TCGAACCC CGGTCGAATG chrIV:14576635-14576715 2 1.32e-05 A TCGAACCC CCGTCGAATG chrIV:11928518-11928598 19 4.30e-05 CCAGTCGACC TCGAACTC GAGGCAAGCA chrX:9622815-9622895 24 4.30e-05 GTATGGGGAA TTGAACCC CAGCCCTCTC chrX:5407393-5407473 35 4.30e-05 CCGGTGAGGC TCGAACTC ACGACCTTCA chrII:7003007-7003087 1 4.30e-05 . TTGAACCC CAGCCCTCTC chrX:12890267-12890347 33 4.30e-05 GCACGGGGAA TTGAACCC CGGACTTCTC chrV:8230201-8230281 20 4.30e-05 CCGGTGAGGC TCGAACTC ACGACCTTCA chrX:8386199-8386279 59 5.54e-05 GATTGCAGGT TCGAGCCC TGCCTGGGTC chrI:1575714-1575794 60 5.54e-05 GATTGCAGGT TCGAGCCC TGCCTGGGTC chrIII:6805565-6805645 57 5.54e-05 GGTTGGTGGT TCGAGCCC ACCCGGGAGC chrX:6220069-6220149 16 7.03e-05 ACGGCAGGAT TCGAACCT ACAATCTTCT chrX:12337960-12338040 53 7.03e-05 ACGGCAGGAC TCGAACCT GCAATCCCCA chrIII:1218384-1218464 7 7.03e-05 CAGGGG TCGAACCT GCGACCTTGG chrII:11959379-11959459 50 8.40e-05 GGCCGCCGGT TCGATCCC GGCCAGGACC chrI:9268915-9268995 28 8.40e-05 GAGCCGGGGA TCGATCCC GGGACCTCTC chrIII:7030554-7030634 18 9.83e-05 CATGCTGGAA TCGAACCA GCGACCTTCT chrIII:9104195-9104275 27 9.83e-05 CCGGGTGGGC TCGAACCA CCAACCTTTC chrIII:13224589-13224669 42 1.13e-04 GGTCACTGGT TCGAATCC GGTTCGACGG chrII:3268001-3268081 51 1.13e-04 CCGCGTAGGT TCGAATCC TGCTGACTGC chrII:7756944-7757024 20 1.30e-04 CCACCGAGAT TTGAACTC GGGTCGCAGG chrIV:12417237-12417317 27 1.30e-04 CCACCGAGAT TTGAACTC GGGTCGCAGG chrIII:12399886-12399966 38 1.30e-04 CCACCGAGAT TTGAACTC GGGTCGCAGG chrIII:8650397-8650477 15 1.42e-04 CCGGGACCTC TCGCACCC GAAGCGAGAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:12367609-12367689 1.3e-05 47_[+2]_25 chrII:3567732-3567812 1.3e-05 46_[+2]_26 chrI:8530116-8530196 1.3e-05 26_[+2]_46 chrII:11157815-11157895 1.3e-05 1_[+2]_71 chrX:16928269-16928349 1.3e-05 16_[+2]_56 chrI:7279368-7279448 1.3e-05 1_[+2]_71 chrX:16271289-16271369 1.3e-05 21_[+2]_51 chrIV:16684394-16684474 1.3e-05 3_[+2]_69 chrIV:14576635-14576715 1.3e-05 1_[+2]_71 chrIV:11928518-11928598 4.3e-05 18_[+2]_54 chrX:9622815-9622895 4.3e-05 23_[+2]_49 chrX:5407393-5407473 4.3e-05 34_[+2]_38 chrII:7003007-7003087 4.3e-05 [+2]_72 chrX:12890267-12890347 4.3e-05 32_[+2]_40 chrV:8230201-8230281 4.3e-05 19_[+2]_53 chrX:8386199-8386279 5.5e-05 58_[+2]_14 chrI:1575714-1575794 5.5e-05 59_[+2]_13 chrIII:6805565-6805645 5.5e-05 56_[+2]_16 chrX:6220069-6220149 7e-05 15_[+2]_57 chrX:12337960-12338040 7e-05 52_[+2]_20 chrIII:1218384-1218464 7e-05 6_[+2]_66 chrII:11959379-11959459 8.4e-05 49_[+2]_23 chrI:9268915-9268995 8.4e-05 27_[+2]_45 chrIII:7030554-7030634 9.8e-05 17_[+2]_55 chrIII:9104195-9104275 9.8e-05 26_[+2]_46 chrIII:13224589-13224669 0.00011 41_[+2]_31 chrII:3268001-3268081 0.00011 50_[+2]_22 chrII:7756944-7757024 0.00013 19_[+2]_53 chrIV:12417237-12417317 0.00013 26_[+2]_46 chrIII:12399886-12399966 0.00013 37_[+2]_35 chrIII:8650397-8650477 0.00014 14_[+2]_58 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TCGAACCC width=8 seqs=31 chrX:12367609-12367689 ( 48) TCGAACCC 1 chrII:3567732-3567812 ( 47) TCGAACCC 1 chrI:8530116-8530196 ( 27) TCGAACCC 1 chrII:11157815-11157895 ( 2) TCGAACCC 1 chrX:16928269-16928349 ( 17) TCGAACCC 1 chrI:7279368-7279448 ( 2) TCGAACCC 1 chrX:16271289-16271369 ( 22) TCGAACCC 1 chrIV:16684394-16684474 ( 4) TCGAACCC 1 chrIV:14576635-14576715 ( 2) TCGAACCC 1 chrIV:11928518-11928598 ( 19) TCGAACTC 1 chrX:9622815-9622895 ( 24) TTGAACCC 1 chrX:5407393-5407473 ( 35) TCGAACTC 1 chrII:7003007-7003087 ( 1) TTGAACCC 1 chrX:12890267-12890347 ( 33) TTGAACCC 1 chrV:8230201-8230281 ( 20) TCGAACTC 1 chrX:8386199-8386279 ( 59) TCGAGCCC 1 chrI:1575714-1575794 ( 60) TCGAGCCC 1 chrIII:6805565-6805645 ( 57) TCGAGCCC 1 chrX:6220069-6220149 ( 16) TCGAACCT 1 chrX:12337960-12338040 ( 53) TCGAACCT 1 chrIII:1218384-1218464 ( 7) TCGAACCT 1 chrII:11959379-11959459 ( 50) TCGATCCC 1 chrI:9268915-9268995 ( 28) TCGATCCC 1 chrIII:7030554-7030634 ( 18) TCGAACCA 1 chrIII:9104195-9104275 ( 27) TCGAACCA 1 chrIII:13224589-13224669 ( 42) TCGAATCC 1 chrII:3268001-3268081 ( 51) TCGAATCC 1 chrII:7756944-7757024 ( 20) TTGAACTC 1 chrIV:12417237-12417317 ( 27) TTGAACTC 1 chrIII:12399886-12399966 ( 38) TTGAACTC 1 chrIII:8650397-8650477 ( 15) TCGCACCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.4993 E= 1.1e-004 -1160 -1160 -1160 190 -1160 177 -1160 -46 -1160 -1160 206 -1160 191 -287 -1160 -1160 171 -1160 -131 -205 -1160 199 -1160 -205 -1160 177 -1160 -46 -199 183 -1160 -146 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 31 E= 1.1e-004 0.000000 0.000000 0.000000 1.000000 0.000000 0.806452 0.000000 0.193548 0.000000 0.000000 1.000000 0.000000 0.967742 0.032258 0.000000 0.000000 0.838710 0.000000 0.096774 0.064516 0.000000 0.935484 0.000000 0.064516 0.000000 0.806452 0.000000 0.193548 0.064516 0.838710 0.000000 0.096774 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-2 regular expression -------------------------------------------------------------------------------- TCGAACCC -------------------------------------------------------------------------------- Time 12.86 secs. ******************************************************************************** ******************************************************************************** MOTIF AAAAAKAA MEME-3 width = 8 sites = 31 llr = 264 E-value = 4.1e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif AAAAAKAA MEME-3 Description -------------------------------------------------------------------------------- Simplified A aaa99198 pos.-specific C :::1:::: probability G :::::6:1 matrix T ::::1311 bits 2.1 1.9 *** 1.7 ***** 1.5 ***** * Relative 1.3 ***** * Entropy 1.0 ***** ** (12.3 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel AAAAAGAA consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAKAA MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:12367609-12367689 23 1.78e-05 TCACAACTGC AAAAAGAA ACTTCCCATG chrX:5407393-5407473 5 1.78e-05 ATGA AAAAAGAA AAATAATTGC chrI:4132248-4132328 29 1.78e-05 ACTGGAGATA AAAAAGAA CAGAATTTCT chrII:14198068-14198148 71 1.78e-05 AACAAAAAAC AAAAAGAA GA chrIII:4542497-4542577 34 1.78e-05 CGAAGAGAAG AAAAAGAA TAGAAAAAAT chrI:7951898-7951978 64 1.78e-05 cagaagaaga aaaaagaa ggagaCATT chrIV:14128516-14128596 31 1.78e-05 GAAAGAAAGA AAAAAGAA GAGGAGGAGG chrX:4295000-4295080 59 1.78e-05 AGTTCGACGA AAAAAGAA TTGAAACTTG chrI:4633626-4633706 5 3.76e-05 gaac aaaaataa taaataacaa chrI:6531995-6532075 48 3.76e-05 TGGTAAAATA AAAAATAA AATCAGAGAA chrIII:3175124-3175204 9 3.76e-05 CCCCAAAA AAAAATAA ATCCACAAGC chrI:10400693-10400773 9 3.76e-05 taaaaatg aaaaataa gaagaaaaag chrII:5399324-5399404 2 3.76e-05 A AAAAATAA TTGTTGAAAA chrV:15505259-15505339 45 3.76e-05 TCAGGGTGGC AAAAATAA AAGCAATGTG chrX:12337960-12338040 16 3.76e-05 ATTACAAACA AAAAATAA AAAACAAAAG chrX:16944398-16944478 37 3.76e-05 GAGAAATTTC AAAAATAA AATTATTTAA chrI:13310305-13310385 30 5.44e-05 TAAGTTCAGC AAAAAGAG ATTGCCCCCA chrX:12890267-12890347 7 5.44e-05 ACAATG AAAAAGAG ATTTGGAGGC chrII:3567732-3567812 24 7.29e-05 AGATGGTAGT AAAAAGTA AGCCCAATGC chrX:3347992-3348072 4 7.29e-05 GGA AAAAAGTA TATTGTTTTG chrI:8530116-8530196 3 9.14e-05 TA AAAAAGAT CTTCCGTTGC chrIV:4407506-4407586 33 1.10e-04 AGCATTTTGT AAAAAAAA ATTTTTTTTT chrII:2570635-2570715 31 1.10e-04 AAAAACCGGC AAAAAAAA TCTTTAAAAA chrX:4444990-4445070 59 1.45e-04 TCTGTCTAGT AAACAGAA GGTCGCTGGT chrV:2673982-2674062 63 1.45e-04 TCTGTCTAGT AAACAGAA GGTCGCTGGT chrIII:9463153-9463233 49 1.84e-04 CATGTTTCAC AAAATGAA TAAATTGAGC chrIV:1981080-1981160 40 1.84e-04 AAATTGCTTT AAAATGAA ACTGCGCGGC chrIV:15931279-15931359 54 2.05e-04 AGGTGAGGCA AAAAATAT TCTCCCcggc chrII:10336311-10336391 33 2.05e-04 CCATTCACTC AAAAATAT GACTCTAACC chrX:11662699-11662779 60 2.61e-04 ATAACTGCAC AAAAAGTG CGCCAGTGTC chrX:13730671-13730751 21 2.61e-04 CTATTACACT AAAAAGTG CGAGACACTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAKAA MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:12367609-12367689 1.8e-05 22_[+3]_50 chrX:5407393-5407473 1.8e-05 4_[+3]_68 chrI:4132248-4132328 1.8e-05 28_[+3]_44 chrII:14198068-14198148 1.8e-05 70_[+3]_2 chrIII:4542497-4542577 1.8e-05 33_[+3]_39 chrI:7951898-7951978 1.8e-05 63_[+3]_9 chrIV:14128516-14128596 1.8e-05 30_[+3]_42 chrX:4295000-4295080 1.8e-05 58_[+3]_14 chrI:4633626-4633706 3.8e-05 4_[+3]_68 chrI:6531995-6532075 3.8e-05 47_[+3]_25 chrIII:3175124-3175204 3.8e-05 8_[+3]_64 chrI:10400693-10400773 3.8e-05 8_[+3]_64 chrII:5399324-5399404 3.8e-05 1_[+3]_71 chrV:15505259-15505339 3.8e-05 44_[+3]_28 chrX:12337960-12338040 3.8e-05 15_[+3]_57 chrX:16944398-16944478 3.8e-05 36_[+3]_36 chrI:13310305-13310385 5.4e-05 29_[+3]_43 chrX:12890267-12890347 5.4e-05 6_[+3]_66 chrII:3567732-3567812 7.3e-05 23_[+3]_49 chrX:3347992-3348072 7.3e-05 3_[+3]_69 chrI:8530116-8530196 9.1e-05 2_[+3]_70 chrIV:4407506-4407586 0.00011 32_[+3]_40 chrII:2570635-2570715 0.00011 30_[+3]_42 chrX:4444990-4445070 0.00015 58_[+3]_14 chrV:2673982-2674062 0.00015 62_[+3]_10 chrIII:9463153-9463233 0.00018 48_[+3]_24 chrIV:1981080-1981160 0.00018 39_[+3]_33 chrIV:15931279-15931359 0.00021 53_[+3]_19 chrII:10336311-10336391 0.00021 32_[+3]_40 chrX:11662699-11662779 0.00026 59_[+3]_13 chrX:13730671-13730751 0.00026 20_[+3]_52 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAKAA MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AAAAAKAA width=8 seqs=31 chrX:12367609-12367689 ( 23) AAAAAGAA 1 chrX:5407393-5407473 ( 5) AAAAAGAA 1 chrI:4132248-4132328 ( 29) AAAAAGAA 1 chrII:14198068-14198148 ( 71) AAAAAGAA 1 chrIII:4542497-4542577 ( 34) AAAAAGAA 1 chrI:7951898-7951978 ( 64) AAAAAGAA 1 chrIV:14128516-14128596 ( 31) AAAAAGAA 1 chrX:4295000-4295080 ( 59) AAAAAGAA 1 chrI:4633626-4633706 ( 5) AAAAATAA 1 chrI:6531995-6532075 ( 48) AAAAATAA 1 chrIII:3175124-3175204 ( 9) AAAAATAA 1 chrI:10400693-10400773 ( 9) AAAAATAA 1 chrII:5399324-5399404 ( 2) AAAAATAA 1 chrV:15505259-15505339 ( 45) AAAAATAA 1 chrX:12337960-12338040 ( 16) AAAAATAA 1 chrX:16944398-16944478 ( 37) AAAAATAA 1 chrI:13310305-13310385 ( 30) AAAAAGAG 1 chrX:12890267-12890347 ( 7) AAAAAGAG 1 chrII:3567732-3567812 ( 24) AAAAAGTA 1 chrX:3347992-3348072 ( 4) AAAAAGTA 1 chrI:8530116-8530196 ( 3) AAAAAGAT 1 chrIV:4407506-4407586 ( 33) AAAAAAAA 1 chrII:2570635-2570715 ( 31) AAAAAAAA 1 chrX:4444990-4445070 ( 59) AAACAGAA 1 chrV:2673982-2674062 ( 63) AAACAGAA 1 chrIII:9463153-9463233 ( 49) AAAATGAA 1 chrIV:1981080-1981160 ( 40) AAAATGAA 1 chrIV:15931279-15931359 ( 54) AAAAATAT 1 chrII:10336311-10336391 ( 33) AAAAATAT 1 chrX:11662699-11662779 ( 60) AAAAAGTG 1 chrX:13730671-13730751 ( 21) AAAAAGTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAKAA MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.90618 E= 4.1e-002 196 -1160 -1160 -1160 196 -1160 -1160 -1160 196 -1160 -1160 -1160 187 -187 -1160 -1160 187 -1160 -1160 -205 -199 -1160 135 27 176 -1160 -1160 -105 159 -1160 -90 -146 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAKAA MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 31 E= 4.1e-002 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.935484 0.064516 0.000000 0.000000 0.935484 0.000000 0.000000 0.064516 0.064516 0.000000 0.612903 0.322581 0.870968 0.000000 0.000000 0.129032 0.774194 0.000000 0.129032 0.096774 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAKAA MEME-3 regular expression -------------------------------------------------------------------------------- AAAAA[GT]AA -------------------------------------------------------------------------------- Time 16.53 secs. ******************************************************************************** ******************************************************************************** MOTIF TAGCTCAG MEME-4 width = 8 sites = 10 llr = 106 E-value = 1.7e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-4 Description -------------------------------------------------------------------------------- Simplified A :8::::a: pos.-specific C :::a:a:: probability G :2a::::a matrix T a:::a::: bits 2.1 ** * * 1.9 * ****** 1.7 * ****** 1.5 * ****** Relative 1.3 ******** Entropy 1.0 ******** (15.3 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TAGCTCAG consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:13781612-13781692 35 1.52e-05 GCCGCCCGGT TAGCTCAG TCGGTAGAGC chrX:14804837-14804917 47 1.52e-05 CACGGGGGTA TAGCTCAG TGGCAGAGCA chrI:11505515-11505595 43 1.52e-05 ATCGGGGGTA TAGCTCAG TGGCAGAGCA chrX:13653721-13653801 14 1.52e-05 GTCGCCCTTA TAGCTCAG TGGTAGAGCG chrII:7001603-7001683 31 1.52e-05 GTTACCTGTG TAGCTCAG GGGTAGAGCG chrIV:5038889-5038969 38 1.52e-05 TGGGCCTCCT TAGCTCAG TTGGTAGAGC chrI:6136569-6136649 35 1.52e-05 GCCGCCCGGT TAGCTCAG TCGGTAGAGC chrV:14689479-14689559 60 1.52e-05 ATGCCGTCGA TAGCTCAG TTGGTAGAGC chrX:4444990-4445070 31 2.95e-05 AGCGCCTCAT TGGCTCAG TGGCAGAGCG chrV:2673982-2674062 35 2.95e-05 AGCGCCTCAT TGGCTCAG TGGCAGAGCG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:13781612-13781692 1.5e-05 34_[+4]_38 chrX:14804837-14804917 1.5e-05 46_[+4]_26 chrI:11505515-11505595 1.5e-05 42_[+4]_30 chrX:13653721-13653801 1.5e-05 13_[+4]_59 chrII:7001603-7001683 1.5e-05 30_[+4]_42 chrIV:5038889-5038969 1.5e-05 37_[+4]_35 chrI:6136569-6136649 1.5e-05 34_[+4]_38 chrV:14689479-14689559 1.5e-05 59_[+4]_13 chrX:4444990-4445070 3e-05 30_[+4]_42 chrV:2673982-2674062 3e-05 34_[+4]_38 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TAGCTCAG width=8 seqs=10 chrX:13781612-13781692 ( 35) TAGCTCAG 1 chrX:14804837-14804917 ( 47) TAGCTCAG 1 chrI:11505515-11505595 ( 43) TAGCTCAG 1 chrX:13653721-13653801 ( 14) TAGCTCAG 1 chrII:7001603-7001683 ( 31) TAGCTCAG 1 chrIV:5038889-5038969 ( 38) TAGCTCAG 1 chrI:6136569-6136649 ( 35) TAGCTCAG 1 chrV:14689479-14689559 ( 60) TAGCTCAG 1 chrX:4444990-4445070 ( 31) TGGCTCAG 1 chrV:2673982-2674062 ( 35) TGGCTCAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.0846 E= 1.7e+002 -997 -997 -997 190 164 -997 -27 -997 -997 -997 205 -997 -997 208 -997 -997 -997 -997 -997 190 -997 208 -997 -997 196 -997 -997 -997 -997 -997 205 -997 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 1.7e+002 0.000000 0.000000 0.000000 1.000000 0.800000 0.000000 0.200000 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-4 regular expression -------------------------------------------------------------------------------- T[AG]GCTCAG -------------------------------------------------------------------------------- Time 20.11 secs. ******************************************************************************** ******************************************************************************** MOTIF CTGAGCTA MEME-5 width = 8 sites = 9 llr = 100 E-value = 2.3e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::a:::a pos.-specific C a::::a:: probability G ::a:a::: matrix T :a::::a: bits 2.1 * * ** 1.9 ******** 1.7 ******** 1.5 ******** Relative 1.3 ******** Entropy 1.0 ******** (16.0 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CTGAGCTA consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrII:11157815-11157895 45 1.52e-05 GCTCTACCGA CTGAGCTA ACCGGGCAGC chrX:9622815-9622895 66 1.52e-05 CGCTCTACCA CTGAGCTA TACCCCC chrII:7003007-7003087 43 1.52e-05 CGCTCTACCA CTGAGCTA TACCCCCGCA chrI:7279368-7279448 45 1.52e-05 GCTCTACCGG CTGAGCTA ACCGGGCCCG chrX:13415143-13415223 36 1.52e-05 CTCTAACCGA CTGAGCTA TGGCGGCTGA chrV:14855804-14855884 40 1.52e-05 TGCTCTGCCA CTGAGCTA TACCCCCGAC chrIV:14013825-14013905 37 1.52e-05 CGCTCTACCC CTGAGCTA TACCCCCGGA chrX:8818120-8818200 37 1.52e-05 TGCTCTGCCA CTGAGCTA TACCCCCACA chrIII:1218384-1218464 51 1.52e-05 CTCTAACCGA CTGAGCTA TGGCGGCACG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrII:11157815-11157895 1.5e-05 44_[+5]_28 chrX:9622815-9622895 1.5e-05 65_[+5]_7 chrII:7003007-7003087 1.5e-05 42_[+5]_30 chrI:7279368-7279448 1.5e-05 44_[+5]_28 chrX:13415143-13415223 1.5e-05 35_[+5]_37 chrV:14855804-14855884 1.5e-05 39_[+5]_33 chrIV:14013825-14013905 1.5e-05 36_[+5]_36 chrX:8818120-8818200 1.5e-05 36_[+5]_36 chrIII:1218384-1218464 1.5e-05 50_[+5]_22 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTGAGCTA width=8 seqs=9 chrII:11157815-11157895 ( 45) CTGAGCTA 1 chrX:9622815-9622895 ( 66) CTGAGCTA 1 chrII:7003007-7003087 ( 43) CTGAGCTA 1 chrI:7279368-7279448 ( 45) CTGAGCTA 1 chrX:13415143-13415223 ( 36) CTGAGCTA 1 chrV:14855804-14855884 ( 40) CTGAGCTA 1 chrIV:14013825-14013905 ( 37) CTGAGCTA 1 chrX:8818120-8818200 ( 37) CTGAGCTA 1 chrIII:1218384-1218464 ( 51) CTGAGCTA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.1193 E= 2.3e+001 -982 208 -982 -982 -982 -982 -982 190 -982 -982 205 -982 196 -982 -982 -982 -982 -982 205 -982 -982 208 -982 -982 -982 -982 -982 190 196 -982 -982 -982 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 9 E= 2.3e+001 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 regular expression -------------------------------------------------------------------------------- CTGAGCTA -------------------------------------------------------------------------------- Time 23.68 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrM:12032-12112 8.47e-01 80 chrM:3957-4037 8.73e-01 80 chrM:181-261 9.67e-01 80 chrII:13986223-13986303 9.99e-01 80 chrX:8603194-8603274 7.76e-01 80 chrM:5575-5655 8.85e-01 80 chrX:16944194-16944274 6.43e-01 80 chrM:7608-7688 9.62e-01 80 chrX:16944398-16944478 2.95e-01 36_[+3(3.76e-05)]_36 chrI:12093802-12093882 9.59e-01 80 chrII:2570635-2570715 4.72e-01 80 chrX:5056377-5056457 9.90e-01 80 chrM:9894-9974 9.55e-01 80 chrV:16699928-16700008 9.88e-01 80 chrV:4495228-4495308 2.42e-01 80 chrIV:2740191-2740271 7.29e-01 80 chrX:16602539-16602619 1.71e-01 12_[+1(7.88e-05)]_60 chrV:15553966-15554046 8.96e-01 80 chrM:5791-5871 9.28e-01 80 chrI:933475-933555 9.52e-01 80 chrIV:14576635-14576715 8.40e-02 1_[+2(1.32e-05)]_71 chrX:4295000-4295080 9.40e-02 58_[+3(1.78e-05)]_14 chrII:3268001-3268081 9.57e-03 80 chrM:2812-2892 8.89e-01 80 chrIII:1218384-1218464 2.21e-03 6_[+2(7.03e-05)]_36_[+5(1.52e-05)]_\ 22 chrV:16550307-16550387 6.42e-01 80 chrIV:11071025-11071105 1.00e+00 80 chrV:20483680-20483760 3.98e-01 80 chrX:8818120-8818200 4.72e-03 36_[+5(1.52e-05)]_36 chrIII:445745-445825 9.53e-01 80 chrV:3587801-3587881 1.38e-01 32_[+1(4.48e-05)]_40 chrI:9249375-9249455 1.89e-02 39_[+1(1.11e-05)]_33 chrIV:14013825-14013905 3.55e-02 36_[+5(1.52e-05)]_36 chrIV:13549486-13549566 9.93e-01 80 chrI:12004929-12005009 5.04e-02 58_[+1(1.11e-05)]_14 chrM:10795-10875 7.94e-01 80 chrIV:1981080-1981160 6.72e-02 80 chrX:9225383-9225463 9.06e-01 80 chrX:3914474-3914554 2.96e-01 80 chrI:1884647-1884727 9.95e-01 80 chrV:14689479-14689559 8.00e-02 59_[+4(1.52e-05)]_13 chrIII:931568-931648 6.78e-01 80 chrX:8944248-8944328 7.31e-01 80 chrX:8156106-8156186 1.00e+00 80 chrX:5140275-5140355 9.11e-01 80 chrV:1821426-1821506 4.54e-02 11_[+1(1.11e-05)]_61 chrV:13415735-13415815 2.41e-01 80 chrIII:1962335-1962415 8.95e-01 80 chrIII:11936202-11936282 6.25e-01 80 chrIII:5828308-5828388 1.16e-01 80 chrX:12337960-12338040 1.14e-02 15_[+3(3.76e-05)]_29_[+2(7.03e-05)]_\ 20 chrI:11609255-11609335 2.58e-01 80 chrI:12229282-12229362 1.87e-01 80 chrX:13730671-13730751 4.50e-01 80 chrM:2418-2498 9.66e-01 80 chrM:6314-6394 8.25e-01 80 chrII:14857112-14857192 3.47e-01 80 chrX:15877199-15877279 5.86e-01 80 chrI:1884414-1884494 5.76e-01 80 chrI:12225475-12225555 2.31e-01 80 chrX:3994580-3994660 9.78e-01 80 chrIII:12399886-12399966 1.58e-01 80 chrIV:13029746-13029826 4.80e-01 80 chrM:7072-7152 4.86e-01 80 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3_[+2(1.32e-05)]_69 chrX:1022075-1022155 7.87e-01 80 chrX:12890267-12890347 1.50e-03 6_[+3(5.44e-05)]_18_[+2(4.30e-05)]_\ 40 chrIII:4426816-4426896 4.98e-01 80 chrV:9692426-9692506 6.22e-01 80 chrIV:1687342-1687422 5.91e-01 80 chrIV:1514582-1514662 9.67e-01 80 chrX:13653721-13653801 8.37e-03 13_[+4(1.52e-05)]_59 chrII:6022675-6022755 6.79e-01 80 chrIII:4427021-4427101 4.42e-01 80 chrM:12627-12707 9.19e-01 80 chrI:4132248-4132328 8.39e-05 28_[+3(1.78e-05)]_34_[+1(1.11e-05)]_\ 2 chrX:1603324-1603404 1.33e-01 80 chrIII:4369390-4369470 8.76e-01 80 chrX:3226968-3227048 7.81e-01 80 chrX:8650601-8650681 4.07e-01 80 chrV:11852347-11852427 9.66e-01 80 chrV:20061707-20061787 1.40e-02 61_[+1(1.11e-05)]_11 chrX:3347992-3348072 1.64e-02 3_[+3(7.29e-05)]_69 chrI:4005814-4005894 2.06e-01 80 chrIV:15931279-15931359 1.28e-01 80 chrV:18496741-18496821 5.82e-01 80 chrIII:3664366-3664446 4.68e-01 80 chrV:9583088-9583168 5.33e-01 80 chrI:14651551-14651631 7.11e-01 80 chrIV:5753128-5753208 5.57e-01 80 chrIV:13030957-13031037 8.93e-01 80 chrV:13176539-13176619 1.54e-01 33_[+5(9.90e-05)]_39 chrIV:16863661-16863741 3.20e-01 80 chrX:16271289-16271369 1.67e-02 21_[+2(1.32e-05)]_51 chrIII:3620858-3620938 9.30e-01 80 chrV:2673982-2674062 2.20e-03 34_[+4(2.95e-05)]_38 chrIV:16388369-16388449 4.80e-01 80 chrII:5399324-5399404 1.44e-01 1_[+3(3.76e-05)]_71 chrII:6721697-6721777 9.79e-01 80 chrIV:16775194-16775274 3.01e-01 80 chrIII:4666819-4666899 8.83e-01 80 chrX:4617029-4617109 8.87e-01 80 chrX:4620161-4620241 1.86e-01 80 chrM:9322-9402 8.91e-01 80 chrIV:842835-842915 1.50e-01 80 chrIV:2639858-2639938 7.29e-01 80 chrI:7279368-7279448 2.81e-04 1_[+2(1.32e-05)]_35_[+5(1.52e-05)]_\ 28 chrII:4130450-4130530 9.01e-01 80 chrX:2879741-2879821 7.72e-01 80 chrI:9116144-9116224 4.19e-01 80 chrI:1271138-1271218 5.69e-01 80 chrII:7003007-7003087 8.78e-04 [+2(4.30e-05)]_34_[+5(1.52e-05)]_30 chrM:8345-8425 6.00e-01 80 chrII:14635382-14635462 8.13e-01 80 chrX:9024387-9024467 3.37e-02 80 chrII:5772967-5773047 7.10e-01 80 chrIII:8653104-8653184 2.30e-01 80 chrII:2860311-2860391 4.18e-01 80 chrI:10400693-10400773 7.44e-02 8_[+3(3.76e-05)]_4_[+3(5.44e-05)]_\ 52 chrV:19622706-19622786 9.42e-01 80 chrI:9176235-9176315 8.79e-01 80 chrIV:12617411-12617491 8.82e-01 80 chrX:5407393-5407473 1.86e-03 4_[+3(1.78e-05)]_22_[+2(4.30e-05)]_\ 38 chrIV:385242-385322 7.37e-01 80 chrX:12348071-12348151 5.20e-01 80 chrX:14115651-14115731 7.25e-02 23_[+1(2.34e-05)]_49 chrIII:349589-349669 1.92e-01 80 chrX:9622815-9622895 8.70e-04 23_[+2(4.30e-05)]_34_[+5(1.52e-05)]_\ 7 chrM:2219-2299 6.52e-01 80 chrII:11694613-11694693 5.15e-01 80 chrIV:9316183-9316263 9.11e-01 80 chrII:1323225-1323305 6.32e-01 80 chrI:11505515-11505595 8.43e-02 42_[+4(1.52e-05)]_30 chrI:9268915-9268995 1.03e-02 27_[+2(8.40e-05)]_45 chrI:11978699-11978779 2.33e-01 80 chrI:11203491-11203571 8.33e-01 80 chrIV:3135178-3135258 9.35e-01 80 chrM:12414-12494 6.25e-01 80 chrX:1524732-1524812 8.45e-01 80 chrX:16928269-16928349 7.53e-03 16_[+2(1.32e-05)]_56 chrIV:10821564-10821644 1.44e-01 80 chrM:4719-4799 7.99e-01 80 chrIII:9191325-9191405 8.11e-01 80 chrIII:1601589-1601669 2.80e-01 80 chrII:6859054-6859134 9.46e-01 80 chrII:7708718-7708798 2.26e-01 80 chrIII:3175124-3175204 6.48e-02 8_[+3(3.76e-05)]_64 chrII:11157815-11157895 5.24e-04 1_[+2(1.32e-05)]_35_[+5(1.52e-05)]_\ 28 chrIV:11928518-11928598 8.03e-02 18_[+2(4.30e-05)]_54 chrX:3694252-3694332 7.51e-01 80 chrX:9373150-9373230 5.08e-02 80 chrI:9373055-9373135 8.35e-01 80 chrX:14804837-14804917 4.83e-02 46_[+4(1.52e-05)]_26 chrI:8530116-8530196 5.82e-04 2_[+3(9.14e-05)]_16_[+2(1.32e-05)]_\ 46 chrIII:6133646-6133726 9.13e-01 80 chrI:6531995-6532075 3.20e-02 47_[+3(3.76e-05)]_25 chrIII:4587351-4587431 7.02e-02 80 chrX:10395743-10395823 1.13e-01 80 chrV:13393457-13393537 5.15e-01 80 chrI:10807206-10807286 9.24e-01 80 chrII:3567732-3567812 2.40e-03 23_[+3(7.29e-05)]_15_[+2(1.32e-05)]_\ 26 chrX:13781612-13781692 1.09e-03 23_[+1(3.35e-05)]_3_[+4(1.52e-05)]_\ 38 chrX:4444990-4445070 4.13e-03 30_[+4(2.95e-05)]_42 chrIII:9104195-9104275 2.58e-02 26_[+2(9.83e-05)]_46 chrIV:11310783-11310863 5.46e-02 39_[+1(2.34e-05)]_33 chrIII:6537321-6537401 5.78e-01 80 chrX:12367609-12367689 1.84e-03 22_[+3(1.78e-05)]_17_[+2(1.32e-05)]_\ 25 chrI:13310305-13310385 3.86e-03 29_[+3(5.44e-05)]_43 chrX:8386199-8386279 6.74e-02 58_[+2(5.54e-05)]_14 chrII:11959379-11959459 1.24e-01 49_[+2(8.40e-05)]_23 chrI:4633626-4633706 9.72e-02 4_[+3(3.76e-05)]_68 chrII:7756944-7757024 2.47e-01 80 chrX:13442585-13442665 3.57e-01 80 chrX:6220069-6220149 5.93e-02 15_[+2(7.03e-05)]_57 chrIII:7030554-7030634 5.27e-03 17_[+2(9.83e-05)]_34_[+5(9.90e-05)]_\ 13 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c28n01.farnam.hpc.yale.internal ********************************************************************************