******************************************************************************** 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/akir-1.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrV:13646338-13646418 1.0000 80 chrM:8827-8907 1.0000 80 chrM:5152-5232 1.0000 80 chrM:1608-1688 1.0000 80 chrIV:8263961-8264041 1.0000 80 chrM:3233-3313 1.0000 80 chrM:10110-10190 1.0000 80 chrV:11533141-11533221 1.0000 80 chrM:3657-3737 1.0000 80 chrM:11090-11170 1.0000 80 chrV:5841100-5841180 1.0000 80 chrIII:13721318-13721398 1.0000 80 chrIII:10857038-10857118 1.0000 80 chrIII:445646-445726 1.0000 80 chrM:3027-3107 1.0000 80 chrIII:11091821-11091901 1.0000 80 chrM:8262-8342 1.0000 80 chrIV:10950271-10950351 1.0000 80 chrX:3453214-3453294 1.0000 80 chrM:5997-6077 1.0000 80 chrX:14229616-14229696 1.0000 80 chrX:2569277-2569357 1.0000 80 chrM:9027-9107 1.0000 80 chrIII:11830600-11830680 1.0000 80 chrM:7219-7299 1.0000 80 chrIII:10868288-10868368 1.0000 80 chrI:13421224-13421304 1.0000 80 chrM:1052-1132 1.0000 80 chrI:2864120-2864200 1.0000 80 chrV:20164613-20164693 1.0000 80 chrII:6560821-6560901 1.0000 80 chrV:14848689-14848769 1.0000 80 chrIII:12617108-12617188 1.0000 80 chrI:13369957-13370037 1.0000 80 chrIII:5722004-5722084 1.0000 80 chrX:16024668-16024748 1.0000 80 chrV:4821128-4821208 1.0000 80 chrM:4672-4752 1.0000 80 chrM:2195-2275 1.0000 80 chrV:265001-265081 1.0000 80 chrIV:3337603-3337683 1.0000 80 chrV:7854952-7855032 1.0000 80 chrI:7083139-7083219 1.0000 80 chrIV:4406127-4406207 1.0000 80 chrV:13656668-13656748 1.0000 80 chrX:4208663-4208743 1.0000 80 chrII:14050609-14050689 1.0000 80 chrV:12063366-12063446 1.0000 80 chrX:13525616-13525696 1.0000 80 chrV:20785391-20785471 1.0000 80 chrV:898133-898213 1.0000 80 chrIII:9782319-9782399 1.0000 80 chrX:4961251-4961331 1.0000 80 chrV:13313254-13313334 1.0000 80 chrM:12454-12534 1.0000 80 chrIV:10483850-10483930 1.0000 80 chrX:9927284-9927364 1.0000 80 chrI:7139623-7139703 1.0000 80 chrI:7658999-7659079 1.0000 80 chrV:12064260-12064340 1.0000 80 chrX:8110384-8110464 1.0000 80 chrIV:8264177-8264257 1.0000 80 chrIII:2293138-2293218 1.0000 80 chrII:12348811-12348891 1.0000 80 chrX:16378070-16378150 1.0000 80 chrI:11934227-11934307 1.0000 80 chrX:17633366-17633446 1.0000 80 chrV:3711839-3711919 1.0000 80 chrV:16401679-16401759 1.0000 80 chrX:4222915-4222995 1.0000 80 chrIV:11855798-11855878 1.0000 80 chrI:3987229-3987309 1.0000 80 chrIII:8319265-8319345 1.0000 80 chrIV:3233033-3233113 1.0000 80 chrV:3706972-3707052 1.0000 80 chrX:3348010-3348090 1.0000 80 chrII:14318254-14318334 1.0000 80 chrII:6741594-6741674 1.0000 80 chrIV:3258320-3258400 1.0000 80 chrX:3472357-3472437 1.0000 80 chrX:2071741-2071821 1.0000 80 chrII:8016762-8016842 1.0000 80 chrV:11933369-11933449 1.0000 80 chrIV:4469017-4469097 1.0000 80 chrIV:11582019-11582099 1.0000 80 chrII:5593717-5593797 1.0000 80 chrX:13730413-13730493 1.0000 80 chrIII:7728988-7729068 1.0000 80 chrX:15468017-15468097 1.0000 80 chrV:13468320-13468400 1.0000 80 chrX:5475264-5475344 1.0000 80 chrIII:6551595-6551675 1.0000 80 chrI:7657007-7657087 1.0000 80 chrIII:10270945-10271025 1.0000 80 chrIV:6336916-6336996 1.0000 80 chrII:6346771-6346851 1.0000 80 chrX:13527517-13527597 1.0000 80 chrI:3246612-3246692 1.0000 80 chrX:15200893-15200973 1.0000 80 chrV:14055186-14055266 1.0000 80 chrX:1452719-1452799 1.0000 80 chrV:11573033-11573113 1.0000 80 chrIII:7278625-7278705 1.0000 80 chrX:14804872-14804952 1.0000 80 chrIII:4193707-4193787 1.0000 80 chrII:9622108-9622188 1.0000 80 chrX:7181680-7181760 1.0000 80 chrI:11202380-11202460 1.0000 80 chrII:10544527-10544607 1.0000 80 chrV:15590375-15590455 1.0000 80 chrII:4740174-4740254 1.0000 80 chrX:11792164-11792244 1.0000 80 chrX:12347889-12347969 1.0000 80 chrX:4190795-4190875 1.0000 80 chrX:8638771-8638851 1.0000 80 chrX:7334427-7334507 1.0000 80 chrIII:13225186-13225266 1.0000 80 chrV:11039723-11039803 1.0000 80 chrX:17545693-17545773 1.0000 80 chrIV:8973687-8973767 1.0000 80 chrIV:16389237-16389317 1.0000 80 chrV:14354443-14354523 1.0000 80 chrIV:2602083-2602163 1.0000 80 chrI:4536146-4536226 1.0000 80 chrIV:6321838-6321918 1.0000 80 chrIV:6206574-6206654 1.0000 80 chrIII:354736-354816 1.0000 80 chrV:10719956-10720036 1.0000 80 chrI:8135671-8135751 1.0000 80 chrV:723991-724071 1.0000 80 chrII:8747359-8747439 1.0000 80 chrII:6360951-6361031 1.0000 80 chrX:4142320-4142400 1.0000 80 chrII:5358396-5358476 1.0000 80 chrIII:4237868-4237948 1.0000 80 chrIV:11956478-11956558 1.0000 80 chrIII:9717364-9717444 1.0000 80 chrI:10161996-10162076 1.0000 80 chrII:5836461-5836541 1.0000 80 chrIII:6158786-6158866 1.0000 80 chrII:9591238-9591318 1.0000 80 chrIII:8443721-8443801 1.0000 80 chrII:14018357-14018437 1.0000 80 chrX:1446956-1447036 1.0000 80 chrIV:9074380-9074460 1.0000 80 chrX:9622800-9622880 1.0000 80 chrIII:8865498-8865578 1.0000 80 chrX:6750173-6750253 1.0000 80 chrIII:7520805-7520885 1.0000 80 chrI:10642427-10642507 1.0000 80 chrX:8021841-8021921 1.0000 80 chrIV:4470057-4470137 1.0000 80 chrV:8349090-8349170 1.0000 80 chrIII:9051514-9051594 1.0000 80 chrIV:9477704-9477784 1.0000 80 chrV:1871937-1872017 1.0000 80 chrV:53456-53536 1.0000 80 chrIII:349929-350009 1.0000 80 chrV:8228977-8229057 1.0000 80 chrX:11522277-11522357 1.0000 80 chrIV:11594229-11594309 1.0000 80 chrX:13514559-13514639 1.0000 80 chrV:12870073-12870153 1.0000 80 chrIV:2708674-2708754 1.0000 80 chrV:12497863-12497943 1.0000 80 chrIII:6464324-6464404 1.0000 80 chrI:8615197-8615277 1.0000 80 chrI:3824410-3824490 1.0000 80 chrI:12198620-12198700 1.0000 80 chrIII:5172654-5172734 1.0000 80 chrX:6286263-6286343 1.0000 80 chrII:2974021-2974101 1.0000 80 chrX:4606643-4606723 1.0000 80 chrV:13715456-13715536 1.0000 80 chrI:5176399-5176479 1.0000 80 chrII:10248524-10248604 1.0000 80 chrX:14602826-14602906 1.0000 80 chrX:5707965-5708045 1.0000 80 chrII:11545435-11545515 1.0000 80 chrIII:13068421-13068501 1.0000 80 chrV:14351188-14351268 1.0000 80 chrIV:11593449-11593529 1.0000 80 chrI:6164184-6164264 1.0000 80 chrI:7772597-7772677 1.0000 80 chrX:7951729-7951809 1.0000 80 chrII:6913453-6913533 1.0000 80 chrX:11643923-11644003 1.0000 80 chrIV:4445834-4445914 1.0000 80 chrIII:12583538-12583618 1.0000 80 chrX:12563725-12563805 1.0000 80 chrIV:16382337-16382417 1.0000 80 chrII:14250285-14250365 1.0000 80 chrX:1345015-1345095 1.0000 80 chrI:4298084-4298164 1.0000 80 chrX:9637918-9637998 1.0000 80 chrX:6743968-6744048 1.0000 80 chrI:2876698-2876778 1.0000 80 chrI:2514273-2514353 1.0000 80 chrIII:9053976-9054056 1.0000 80 chrII:14561799-14561879 1.0000 80 chrII:14143932-14144012 1.0000 80 chrV:14347421-14347501 1.0000 80 chrI:2996334-2996414 1.0000 80 chrII:8107257-8107337 1.0000 80 chrII:5292302-5292382 1.0000 80 chrIV:620451-620531 1.0000 80 chrIII:11946515-11946595 1.0000 80 chrIV:11026163-11026243 1.0000 80 chrX:7068545-7068625 1.0000 80 chrII:4299396-4299476 1.0000 80 chrX:14753711-14753791 1.0000 80 chrII:11759415-11759495 1.0000 80 chrX:15742021-15742101 1.0000 80 chrIV:683030-683110 1.0000 80 chrX:949652-949732 1.0000 80 chrX:14169783-14169863 1.0000 80 chrI:5807461-5807541 1.0000 80 chrII:4376867-4376947 1.0000 80 chrX:2549496-2549576 1.0000 80 chrIII:7498585-7498665 1.0000 80 chrX:1389561-1389641 1.0000 80 chrII:9940605-9940685 1.0000 80 chrV:15085586-15085666 1.0000 80 chrI:13297736-13297816 1.0000 80 chrV:6227555-6227635 1.0000 80 chrV:9790023-9790103 1.0000 80 chrIV:11119183-11119263 1.0000 80 chrIII:11371362-11371442 1.0000 80 chrX:11252500-11252580 1.0000 80 chrV:14685757-14685837 1.0000 80 chrIII:836074-836154 1.0000 80 chrII:6853292-6853372 1.0000 80 chrX:3697759-3697839 1.0000 80 chrI:3721728-3721808 1.0000 80 chrII:10502894-10502974 1.0000 80 chrII:5105204-5105284 1.0000 80 chrIV:17249884-17249964 1.0000 80 chrX:12363137-12363217 1.0000 80 chrII:11749766-11749846 1.0000 80 chrI:9381514-9381594 1.0000 80 chrV:20778424-20778504 1.0000 80 chrX:6092129-6092209 1.0000 80 chrIV:11083059-11083139 1.0000 80 chrIII:8937731-8937811 1.0000 80 chrX:11031222-11031302 1.0000 80 chrV:6000375-6000455 1.0000 80 chrX:7823218-7823298 1.0000 80 chrIII:4899815-4899895 1.0000 80 chrIII:8801962-8802042 1.0000 80 chrX:5429503-5429583 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_akir-1/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/akir-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 0.266 C 0.223 G 0.24 T 0.271 Background letter frequencies (from file dataset with add-one prior applied): A 0.266 C 0.223 G 0.24 T 0.27 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF CTMGGCCA MEME-1 width = 8 sites = 21 llr = 205 E-value = 7.1e-006 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTMGGCCA MEME-1 Description -------------------------------------------------------------------------------- Simplified A ::61:::a pos.-specific C a:4::aa: probability G :::98::: matrix T :a::2::: bits 2.2 * ** 1.9 ** *** 1.7 ** *** 1.5 ** * *** Relative 1.3 ** ***** Entropy 1.1 ******** (14.1 bits) 0.9 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CTAGGCCA consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTMGGCCA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:15085586-15085666 5 1.22e-05 GAAA CTAGGCCA GCAGGCCACG chrX:4606643-4606723 51 1.22e-05 ATTTCGTTTT CTAGGCCA CCCCACCAAA chrI:8615197-8615277 52 1.22e-05 CAAACTGTTT CTAGGCCA TCTGTACATT chrIII:7520805-7520885 52 1.22e-05 AATTTGGATT CTAGGCCA TGCAGTCTTT chrII:5358396-5358476 27 1.22e-05 GGTGCGATTT CTAGGCCA GCAGGGCTCT chrIV:6206574-6206654 1 1.22e-05 . CTAGGCCA CCGTGCTGGT chrIV:6321838-6321918 57 1.22e-05 AAACGGTAAA CTAGGCCA GGGGAAATGT chrII:4740174-4740254 10 1.22e-05 TGCGAGTTT CTAGGCCA CGCGGAAATG chrIII:10270945-10271025 45 1.22e-05 GAGGAGAATT CTAGGCCA CGTCTCCTCC chrV:13468320-13468400 52 1.22e-05 TGTGCGTTTT CTAGGCCA TTTTGGCGTG chrIII:8319265-8319345 61 1.22e-05 CATCACAATT CTAGGCCA TTTTCAAAGA chrIII:5722004-5722084 51 1.22e-05 GCGGAGGTTT CTAGGCCA CCGGCTGTGT chrIII:8443721-8443801 64 2.24e-05 CATGTTATTT CTCGGCCA TTCAAACTA chrIV:10483850-10483930 60 2.24e-05 AGCATAAATC CTCGGCCA CGGTTTGTGG chrX:4190795-4190875 40 4.77e-05 CAACCAAGTT CTCGTCCA CGACCGCGAC chrV:15590375-15590455 60 4.77e-05 gtagagaatt ctcgtcca tgtacccccc chrIV:8264177-8264257 67 4.77e-05 ATGATCCAAT CTCGTCCA GTCACC chrM:3027-3107 1 4.77e-05 . CTCGTCCA CTTGCTTTAA chrI:9381514-9381594 17 7.25e-05 GGGGCACACG CTCAGCCA ATTTTTCGTT chrIII:7498585-7498665 43 7.25e-05 AAGTTGAATA CTCAGCCA ACGCGCGAAA chrX:14753711-14753791 23 7.25e-05 TCGTTTGATA CTCAGCCA ACCAATTGGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTMGGCCA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:15085586-15085666 1.2e-05 4_[+1]_68 chrX:4606643-4606723 1.2e-05 50_[+1]_22 chrI:8615197-8615277 1.2e-05 51_[+1]_21 chrIII:7520805-7520885 1.2e-05 51_[+1]_21 chrII:5358396-5358476 1.2e-05 26_[+1]_46 chrIV:6206574-6206654 1.2e-05 [+1]_72 chrIV:6321838-6321918 1.2e-05 56_[+1]_16 chrII:4740174-4740254 1.2e-05 9_[+1]_63 chrIII:10270945-10271025 1.2e-05 44_[+1]_28 chrV:13468320-13468400 1.2e-05 51_[+1]_21 chrIII:8319265-8319345 1.2e-05 60_[+1]_12 chrIII:5722004-5722084 1.2e-05 50_[+1]_22 chrIII:8443721-8443801 2.2e-05 63_[+1]_9 chrIV:10483850-10483930 2.2e-05 59_[+1]_13 chrX:4190795-4190875 4.8e-05 39_[+1]_33 chrV:15590375-15590455 4.8e-05 59_[+1]_13 chrIV:8264177-8264257 4.8e-05 66_[+1]_6 chrM:3027-3107 4.8e-05 [+1]_72 chrI:9381514-9381594 7.3e-05 16_[+1]_56 chrIII:7498585-7498665 7.3e-05 42_[+1]_30 chrX:14753711-14753791 7.3e-05 22_[+1]_50 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTMGGCCA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTMGGCCA width=8 seqs=21 chrV:15085586-15085666 ( 5) CTAGGCCA 1 chrX:4606643-4606723 ( 51) CTAGGCCA 1 chrI:8615197-8615277 ( 52) CTAGGCCA 1 chrIII:7520805-7520885 ( 52) CTAGGCCA 1 chrII:5358396-5358476 ( 27) CTAGGCCA 1 chrIV:6206574-6206654 ( 1) CTAGGCCA 1 chrIV:6321838-6321918 ( 57) CTAGGCCA 1 chrII:4740174-4740254 ( 10) CTAGGCCA 1 chrIII:10270945-10271025 ( 45) CTAGGCCA 1 chrV:13468320-13468400 ( 52) CTAGGCCA 1 chrIII:8319265-8319345 ( 61) CTAGGCCA 1 chrIII:5722004-5722084 ( 51) CTAGGCCA 1 chrIII:8443721-8443801 ( 64) CTCGGCCA 1 chrIV:10483850-10483930 ( 60) CTCGGCCA 1 chrX:4190795-4190875 ( 40) CTCGTCCA 1 chrV:15590375-15590455 ( 60) CTCGTCCA 1 chrIV:8264177-8264257 ( 67) CTCGTCCA 1 chrM:3027-3107 ( 1) CTCGTCCA 1 chrI:9381514-9381594 ( 17) CTCAGCCA 1 chrIII:7498585-7498665 ( 43) CTCAGCCA 1 chrX:14753711-14753791 ( 23) CTCAGCCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTMGGCCA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.7488 E= 7.1e-006 -1104 216 -1104 -1104 -1104 -1104 -1104 189 110 94 -1104 -1104 -90 -1104 184 -1104 -1104 -1104 176 -51 -1104 216 -1104 -1104 -1104 216 -1104 -1104 191 -1104 -1104 -1104 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTMGGCCA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 21 E= 7.1e-006 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.571429 0.428571 0.000000 0.000000 0.142857 0.000000 0.857143 0.000000 0.000000 0.000000 0.809524 0.190476 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTMGGCCA MEME-1 regular expression -------------------------------------------------------------------------------- CT[AC]GGCCA -------------------------------------------------------------------------------- Time 4.97 secs. ******************************************************************************** ******************************************************************************** MOTIF GARAGAGA MEME-2 width = 8 sites = 37 llr = 301 E-value = 1.9e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif GARAGAGA MEME-2 Description -------------------------------------------------------------------------------- Simplified A :74a1a:6 pos.-specific C ::1:::21 probability G a36:9:83 matrix T :::::::: bits 2.2 * 1.9 * * * 1.7 * *** 1.5 * **** Relative 1.3 * **** Entropy 1.1 ** **** (11.7 bits) 0.9 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GAGAGAGA consensus GA G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARAGAGA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:7823218-7823298 39 1.66e-05 CTCGCACATT GAGAGAGA TTACGCAAAA chrI:3721728-3721808 11 1.66e-05 GTATgagaga gagagaga gagaagcgaa chrI:4298084-4298164 57 1.66e-05 AGAGTAGGAA GAGAGAGA GGAGGAAGGC chrIV:2708674-2708754 9 1.66e-05 TGCGACTC GAGAGAGA GTACACGGAA chrI:4536146-4536226 67 1.66e-05 atggagaaga gagagaga gagaga chrX:8638771-8638851 29 1.66e-05 ACCACAGACA GAGAGAGA AACGAGATCG chrX:3472357-3472437 55 1.66e-05 CACAACGTga gagagaga tagagggaga chrII:11759415-11759495 49 3.50e-05 CATTATAAGA GAAAGAGA CGGCCGACAG chrI:7658999-7659079 32 3.50e-05 GAGAATGAGA GAAAGAGA ATGAAAGACT chrV:11533141-11533221 23 3.50e-05 AATCGAAAGT GAAAGAGA AAGGAGATGA chrIV:16382337-16382417 15 5.00e-05 TAAAAGGGTG GAGAGAGG GAAAATGCCG chrII:2974021-2974101 4 5.00e-05 GTG GAGAGAGG GGGAGAGTGT chrIII:9051514-9051594 5 5.00e-05 GTGT GAGAGAGG TTCATAGAAA chrI:7657007-7657087 46 5.00e-05 TGATATAATT GAGAGAGG AATAGAATAA chrII:14050609-14050689 31 5.00e-05 AGAGACGGGG GAGAGAGG CTAGTGAGAC chrM:5997-6077 4 6.50e-05 GTT GGGAGAGA CTTGATCACC chrII:11749766-11749846 16 8.16e-05 GGGCCCGAGT GAAAGAGG CAAAAGGAAG chrII:8107257-8107337 41 9.70e-05 AGGTAAGAGC GAGAGACA CTCACGCTAA chrIV:6336916-6336996 44 9.70e-05 AAGACAATGC GAGAGACA ACATAAGACG chrIII:10857038-10857118 52 9.70e-05 GGATTCCACC GAGAGACA TCCTGGTGAC chrII:10502894-10502974 45 1.14e-04 GGAGAAAAAT GGAAGAGA AAGAGCGCTC chrV:6227555-6227635 62 1.14e-04 AGACACGATA GGAAGAGA AAAGAGAGCG chrII:4299396-4299476 61 1.14e-04 GGTCTCGCAG GGAAGAGA CGACGCGGGG chrV:12870073-12870153 50 1.14e-04 ACGGCGGGAT GGAAGAGA AAACGCGCGC chrIV:8973687-8973767 21 1.14e-04 ATGGAAATAT GGAAGAGA AATCAATTGG chrII:5292302-5292382 67 1.27e-04 CCCTTAGCAT GGGAGAGG GCTGGG chrIII:349929-350009 34 1.41e-04 CACCCGGCAC GAGAGAGC GCGCCCGTCG chrX:4222915-4222995 50 1.72e-04 ATGAGTGATC GAGAGACG GAGACAGGTG chrII:6853292-6853372 68 2.03e-04 AAAGGGTGTC GACAGAGA GGTTC chrII:4376867-4376947 67 2.03e-04 TGTGTCGAGT GGAAGAGG GCGCGG chrI:5176399-5176479 15 2.03e-04 CGTTTTTCTT GACAGAGA AAAAGTGTGC chrII:5836461-5836541 9 2.32e-04 CGATTATC GGGAGACA ACGATTTGTG chrIII:354736-354816 68 2.32e-04 AAGAGTGAGC GAAAGAGC GGAGT chrIV:8263961-8264041 46 2.32e-04 CCAAAGAACG GAAAGAGC TTCGACGGAC chrII:5593717-5593797 8 2.63e-04 TGGCCCT GAGAAAGA ATAGGAAACA chrII:14143932-14144012 27 3.20e-04 AGTGCAAATA GGGAGACG TCACGGAATA chrX:6743968-6744048 28 3.81e-04 GCATCAGTTG GAAAAAGA AAAGGGTGAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARAGAGA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:7823218-7823298 1.7e-05 38_[+2]_34 chrI:3721728-3721808 1.7e-05 10_[+2]_62 chrI:4298084-4298164 1.7e-05 56_[+2]_16 chrIV:2708674-2708754 1.7e-05 8_[+2]_64 chrI:4536146-4536226 1.7e-05 66_[+2]_6 chrX:8638771-8638851 1.7e-05 28_[+2]_44 chrX:3472357-3472437 1.7e-05 54_[+2]_18 chrII:11759415-11759495 3.5e-05 48_[+2]_24 chrI:7658999-7659079 3.5e-05 31_[+2]_41 chrV:11533141-11533221 3.5e-05 22_[+2]_50 chrIV:16382337-16382417 5e-05 14_[+2]_58 chrII:2974021-2974101 5e-05 3_[+2]_69 chrIII:9051514-9051594 5e-05 4_[+2]_68 chrI:7657007-7657087 5e-05 45_[+2]_27 chrII:14050609-14050689 5e-05 30_[+2]_42 chrM:5997-6077 6.5e-05 3_[+2]_69 chrII:11749766-11749846 8.2e-05 15_[+2]_57 chrII:8107257-8107337 9.7e-05 40_[+2]_32 chrIV:6336916-6336996 9.7e-05 43_[+2]_29 chrIII:10857038-10857118 9.7e-05 51_[+2]_21 chrII:10502894-10502974 0.00011 44_[+2]_28 chrV:6227555-6227635 0.00011 61_[+2]_11 chrII:4299396-4299476 0.00011 60_[+2]_12 chrV:12870073-12870153 0.00011 49_[+2]_23 chrIV:8973687-8973767 0.00011 20_[+2]_52 chrII:5292302-5292382 0.00013 66_[+2]_6 chrIII:349929-350009 0.00014 33_[+2]_39 chrX:4222915-4222995 0.00017 49_[+2]_23 chrII:6853292-6853372 0.0002 67_[+2]_5 chrII:4376867-4376947 0.0002 66_[+2]_6 chrI:5176399-5176479 0.0002 14_[+2]_58 chrII:5836461-5836541 0.00023 8_[+2]_64 chrIII:354736-354816 0.00023 67_[+2]_5 chrIV:8263961-8264041 0.00023 45_[+2]_27 chrII:5593717-5593797 0.00026 7_[+2]_65 chrII:14143932-14144012 0.00032 26_[+2]_46 chrX:6743968-6744048 0.00038 27_[+2]_45 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARAGAGA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GARAGAGA width=8 seqs=37 chrX:7823218-7823298 ( 39) GAGAGAGA 1 chrI:3721728-3721808 ( 11) GAGAGAGA 1 chrI:4298084-4298164 ( 57) GAGAGAGA 1 chrIV:2708674-2708754 ( 9) GAGAGAGA 1 chrI:4536146-4536226 ( 67) GAGAGAGA 1 chrX:8638771-8638851 ( 29) GAGAGAGA 1 chrX:3472357-3472437 ( 55) GAGAGAGA 1 chrII:11759415-11759495 ( 49) GAAAGAGA 1 chrI:7658999-7659079 ( 32) GAAAGAGA 1 chrV:11533141-11533221 ( 23) GAAAGAGA 1 chrIV:16382337-16382417 ( 15) GAGAGAGG 1 chrII:2974021-2974101 ( 4) GAGAGAGG 1 chrIII:9051514-9051594 ( 5) GAGAGAGG 1 chrI:7657007-7657087 ( 46) GAGAGAGG 1 chrII:14050609-14050689 ( 31) GAGAGAGG 1 chrM:5997-6077 ( 4) GGGAGAGA 1 chrII:11749766-11749846 ( 16) GAAAGAGG 1 chrII:8107257-8107337 ( 41) GAGAGACA 1 chrIV:6336916-6336996 ( 44) GAGAGACA 1 chrIII:10857038-10857118 ( 52) GAGAGACA 1 chrII:10502894-10502974 ( 45) GGAAGAGA 1 chrV:6227555-6227635 ( 62) GGAAGAGA 1 chrII:4299396-4299476 ( 61) GGAAGAGA 1 chrV:12870073-12870153 ( 50) GGAAGAGA 1 chrIV:8973687-8973767 ( 21) GGAAGAGA 1 chrII:5292302-5292382 ( 67) GGGAGAGG 1 chrIII:349929-350009 ( 34) GAGAGAGC 1 chrX:4222915-4222995 ( 50) GAGAGACG 1 chrII:6853292-6853372 ( 68) GACAGAGA 1 chrII:4376867-4376947 ( 67) GGAAGAGG 1 chrI:5176399-5176479 ( 15) GACAGAGA 1 chrII:5836461-5836541 ( 9) GGGAGACA 1 chrIII:354736-354816 ( 68) GAAAGAGC 1 chrIV:8263961-8264041 ( 46) GAAAGAGC 1 chrII:5593717-5593797 ( 8) GAGAAAGA 1 chrII:14143932-14144012 ( 27) GGGAGACG 1 chrX:6743968-6744048 ( 28) GAAAAAGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARAGAGA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.3679 E= 1.9e-001 -1185 -1185 206 -1185 145 -1185 17 -1185 40 -205 131 -1185 191 -1185 -1185 -1185 -230 -1185 198 -1185 191 -1185 -1185 -1185 -1185 -46 180 -1185 128 -146 17 -1185 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARAGAGA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 37 E= 1.9e-001 0.000000 0.000000 1.000000 0.000000 0.729730 0.000000 0.270270 0.000000 0.351351 0.054054 0.594595 0.000000 1.000000 0.000000 0.000000 0.000000 0.054054 0.000000 0.945946 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.162162 0.837838 0.000000 0.648649 0.081081 0.270270 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARAGAGA MEME-2 regular expression -------------------------------------------------------------------------------- G[AG][GA]AGAG[AG] -------------------------------------------------------------------------------- Time 8.58 secs. ******************************************************************************** ******************************************************************************** MOTIF ACGCAGAS MEME-3 width = 8 sites = 15 llr = 144 E-value = 1.3e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif ACGCAGAS MEME-3 Description -------------------------------------------------------------------------------- Simplified A a:1:a:a2 pos.-specific C :a:a:1:5 probability G ::9::9:3 matrix T :::::::: bits 2.2 * * 1.9 ** ** * 1.7 ***** * 1.5 ******* Relative 1.3 ******* Entropy 1.1 ******* (13.8 bits) 0.9 ******* 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel ACGCAGAC consensus G sequence A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACGCAGAS MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:6336916-6336996 67 1.20e-05 AGACGTGGAT ACGCAGAC GGAGAA chrIII:8319265-8319345 3 1.20e-05 TG ACGCAGAC AATTCCCGCC chrX:4222915-4222995 10 1.20e-05 ACCGCGGAG ACGCAGAC GAGGCGAAGC chrII:14050609-14050689 67 1.20e-05 AGGGTGGGAG ACGCAGAC AGTCAA chrV:14848689-14848769 16 1.20e-05 TATATTAGAT ACGCAGAC AGCTAGAACA chrIV:11083059-11083139 65 2.50e-05 TAGACACGAA ACGCAGAG AGGTAGAG chrX:6092129-6092209 27 2.50e-05 GCGCGCAGAG ACGCAGAG TCATTCGGCC chrI:3824410-3824490 5 2.50e-05 ATAG ACGCAGAG ATAACCCTCC chrIV:6321838-6321918 38 2.50e-05 ATAATGTGTT ACGCAGAG AAAACGGTAA chrII:5593717-5593797 43 2.50e-05 AATGAAGGTG ACGCAGAG ACTTTGGCGG chrIV:620451-620531 67 3.93e-05 TCTGCTTCAC ACGCAGAA GGTCGC chrV:12497863-12497943 56 3.93e-05 GTAGTTGCTG ACGCAGAA GTGGTCACGA chrII:6360951-6361031 70 3.93e-05 TTTCTCGTGT ACGCAGAA CCC chrII:11749766-11749846 61 5.05e-05 GCGGATCAAT acgcacac acaaacagac chrIII:4899815-4899895 73 1.32e-04 CACACGCATG ACACACAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACGCAGAS MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:6336916-6336996 1.2e-05 66_[+3]_6 chrIII:8319265-8319345 1.2e-05 2_[+3]_70 chrX:4222915-4222995 1.2e-05 9_[+3]_63 chrII:14050609-14050689 1.2e-05 66_[+3]_6 chrV:14848689-14848769 1.2e-05 15_[+3]_57 chrIV:11083059-11083139 2.5e-05 64_[+3]_8 chrX:6092129-6092209 2.5e-05 26_[+3]_46 chrI:3824410-3824490 2.5e-05 4_[+3]_68 chrIV:6321838-6321918 2.5e-05 37_[+3]_35 chrII:5593717-5593797 2.5e-05 42_[+3]_30 chrIV:620451-620531 3.9e-05 66_[+3]_6 chrV:12497863-12497943 3.9e-05 55_[+3]_17 chrII:6360951-6361031 3.9e-05 69_[+3]_3 chrII:11749766-11749846 5e-05 60_[+3]_12 chrIII:4899815-4899895 0.00013 72_[+3] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACGCAGAS MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF ACGCAGAS width=8 seqs=15 chrIV:6336916-6336996 ( 67) ACGCAGAC 1 chrIII:8319265-8319345 ( 3) ACGCAGAC 1 chrX:4222915-4222995 ( 10) ACGCAGAC 1 chrII:14050609-14050689 ( 67) ACGCAGAC 1 chrV:14848689-14848769 ( 16) ACGCAGAC 1 chrIV:11083059-11083139 ( 65) ACGCAGAG 1 chrX:6092129-6092209 ( 27) ACGCAGAG 1 chrI:3824410-3824490 ( 5) ACGCAGAG 1 chrIV:6321838-6321918 ( 38) ACGCAGAG 1 chrII:5593717-5593797 ( 43) ACGCAGAG 1 chrIV:620451-620531 ( 67) ACGCAGAA 1 chrV:12497863-12497943 ( 56) ACGCAGAA 1 chrII:6360951-6361031 ( 70) ACGCAGAA 1 chrII:11749766-11749846 ( 61) ACGCACAC 1 chrIII:4899815-4899895 ( 73) ACACACAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACGCAGAS MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.1725 E= 1.3e+002 191 -1055 -1055 -1055 -1055 216 -1055 -1055 -200 -1055 196 -1055 -1055 216 -1055 -1055 191 -1055 -1055 -1055 -1055 -74 185 -1055 191 -1055 -1055 -1055 -41 106 48 -1055 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACGCAGAS MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 15 E= 1.3e+002 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.066667 0.000000 0.933333 0.000000 0.000000 1.000000 0.000000 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 0.200000 0.466667 0.333333 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACGCAGAS MEME-3 regular expression -------------------------------------------------------------------------------- ACGCAGA[CGA] -------------------------------------------------------------------------------- Time 12.09 secs. ******************************************************************************** ******************************************************************************** MOTIF CCGAGWGG MEME-4 width = 8 sites = 12 llr = 123 E-value = 2.8e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif CCGAGWGG MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::a:6:: pos.-specific C aa:::::2 probability G ::a:a:a8 matrix T :::::4:: bits 2.2 *** * * 1.9 ***** * 1.7 ***** * 1.5 ***** ** Relative 1.3 ***** ** Entropy 1.1 ***** ** (14.8 bits) 0.9 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CCGAGAGG consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGAGWGG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIII:8937731-8937811 17 1.17e-05 CAAACTGCGT CCGAGAGG TCGCTGGTTC chrII:6913453-6913533 16 1.17e-05 AATTTATTGT CCGAGAGG AGTACACGAC chrIII:7520805-7520885 8 1.17e-05 AAGTTGT CCGAGAGG AGTTCACCAC chrIII:10270945-10271025 61 1.17e-05 CACGTCTCCT CCGAGAGG AGTACGCCGA chrV:13468320-13468400 18 1.17e-05 TTATGTTTTT CCGAGAGG GCTACACGAC chrX:15742021-15742101 39 2.35e-05 GCCGTTCTGG CCGAGTGG TCTAAGGCGC chrX:5707965-5708045 73 2.35e-05 GATCAGGTGG CCGAGTGG chrIII:349929-350009 2 2.35e-05 G CCGAGTGG CGGAGATCAC chrV:53456-53536 30 2.35e-05 tttcgcatgg ccgagtgg ttagtacgta chrIII:6158786-6158866 2 2.35e-05 T CCGAGTGG TTAAGGAGAT chrIV:4445834-4445914 7 3.44e-05 TGCAAA CCGAGAGC TCCGCCGTAA chrIII:6464324-6464404 22 3.44e-05 CTGAGCGAAG CCGAGAGC GAGATAGGCG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGAGWGG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIII:8937731-8937811 1.2e-05 16_[+4]_56 chrII:6913453-6913533 1.2e-05 15_[+4]_57 chrIII:7520805-7520885 1.2e-05 7_[+4]_65 chrIII:10270945-10271025 1.2e-05 60_[+4]_12 chrV:13468320-13468400 1.2e-05 17_[+4]_55 chrX:15742021-15742101 2.4e-05 38_[+4]_34 chrX:5707965-5708045 2.4e-05 72_[+4] chrIII:349929-350009 2.4e-05 1_[+4]_71 chrV:53456-53536 2.4e-05 29_[+4]_43 chrIII:6158786-6158866 2.4e-05 1_[+4]_71 chrIV:4445834-4445914 3.4e-05 6_[+4]_66 chrIII:6464324-6464404 3.4e-05 21_[+4]_51 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGAGWGG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CCGAGWGG width=8 seqs=12 chrIII:8937731-8937811 ( 17) CCGAGAGG 1 chrII:6913453-6913533 ( 16) CCGAGAGG 1 chrIII:7520805-7520885 ( 8) CCGAGAGG 1 chrIII:10270945-10271025 ( 61) CCGAGAGG 1 chrV:13468320-13468400 ( 18) CCGAGAGG 1 chrX:15742021-15742101 ( 39) CCGAGTGG 1 chrX:5707965-5708045 ( 73) CCGAGTGG 1 chrIII:349929-350009 ( 2) CCGAGTGG 1 chrV:53456-53536 ( 30) CCGAGTGG 1 chrIII:6158786-6158866 ( 2) CCGAGTGG 1 chrIV:4445834-4445914 ( 7) CCGAGAGC 1 chrIII:6464324-6464404 ( 22) CCGAGAGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGAGWGG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.2284 E= 2.8e+001 -1023 216 -1023 -1023 -1023 216 -1023 -1023 -1023 -1023 206 -1023 191 -1023 -1023 -1023 -1023 -1023 206 -1023 113 -1023 -1023 62 -1023 -1023 206 -1023 -1023 -42 180 -1023 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGAGWGG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 12 E= 2.8e+001 0.000000 1.000000 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 0.000000 0.583333 0.000000 0.000000 0.416667 0.000000 0.000000 1.000000 0.000000 0.000000 0.166667 0.833333 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGAGWGG MEME-4 regular expression -------------------------------------------------------------------------------- CCGAG[AT]GG -------------------------------------------------------------------------------- Time 15.57 secs. ******************************************************************************** ******************************************************************************** MOTIF CTCCTCTC MEME-5 width = 8 sites = 10 llr = 105 E-value = 1.3e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTCCTCTC MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::::2::: pos.-specific C a:aa:a:a probability G ::::2::: matrix T :a::6:a: bits 2.2 * ** * * 1.9 **** *** 1.7 **** *** 1.5 **** *** Relative 1.3 **** *** Entropy 1.1 **** *** (15.1 bits) 0.9 **** *** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CTCCTCTC consensus A sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCTCTC MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIII:8443721-8443801 12 1.09e-05 ATTATTTATT CTCCTCTC ACTTGCAAGT chrII:9591238-9591318 59 1.09e-05 GCGTCGTGTA CTCCTCTC AGACAAACAG chrI:3246612-3246692 66 1.09e-05 ATCTTTCTCT CTCCTCTC AATTCTA chrV:16401679-16401759 62 1.09e-05 CGCGCTCGGA CTCCTCTC GGAGGAGTAT chrV:13656668-13656748 54 1.09e-05 TCATCTGTTT CTCCTCTC CATTAATTGA chrIII:5722004-5722084 70 1.09e-05 CGGCTGTGTA CTCCTCTC GGA chrII:4299396-4299476 37 2.05e-05 ACGCTGCGTA CTCCGCTC GGAGAAGGTC chrI:3824410-3824490 19 2.05e-05 AGAGATAACC CTCCGCTC ACAACCACGC chrV:13468320-13468400 72 3.12e-05 TTGGCGTGTA CTCCACTC G chrV:11533141-11533221 63 3.12e-05 GGGTTTTCAC CTCCACTC ACTCTTTCTA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCTCTC MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIII:8443721-8443801 1.1e-05 11_[+5]_61 chrII:9591238-9591318 1.1e-05 58_[+5]_14 chrI:3246612-3246692 1.1e-05 65_[+5]_7 chrV:16401679-16401759 1.1e-05 61_[+5]_11 chrV:13656668-13656748 1.1e-05 53_[+5]_19 chrIII:5722004-5722084 1.1e-05 69_[+5]_3 chrII:4299396-4299476 2.1e-05 36_[+5]_36 chrI:3824410-3824490 2.1e-05 18_[+5]_54 chrV:13468320-13468400 3.1e-05 71_[+5]_1 chrV:11533141-11533221 3.1e-05 62_[+5]_10 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCTCTC MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTCCTCTC width=8 seqs=10 chrIII:8443721-8443801 ( 12) CTCCTCTC 1 chrII:9591238-9591318 ( 59) CTCCTCTC 1 chrI:3246612-3246692 ( 66) CTCCTCTC 1 chrV:16401679-16401759 ( 62) CTCCTCTC 1 chrV:13656668-13656748 ( 54) CTCCTCTC 1 chrIII:5722004-5722084 ( 70) CTCCTCTC 1 chrII:4299396-4299476 ( 37) CTCCGCTC 1 chrI:3824410-3824490 ( 19) CTCCGCTC 1 chrV:13468320-13468400 ( 72) CTCCACTC 1 chrV:11533141-11533221 ( 63) CTCCACTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCTCTC MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.0846 E= 1.3e+002 -997 216 -997 -997 -997 -997 -997 189 -997 216 -997 -997 -997 216 -997 -997 -41 -997 -26 115 -997 216 -997 -997 -997 -997 -997 189 -997 216 -997 -997 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCTCTC MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 1.3e+002 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 0.200000 0.000000 0.200000 0.600000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCTCTC MEME-5 regular expression -------------------------------------------------------------------------------- CTCC[TAG]CTC -------------------------------------------------------------------------------- Time 19.05 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:13646338-13646418 9.85e-01 80 chrM:8827-8907 8.21e-01 80 chrM:5152-5232 9.58e-01 80 chrM:1608-1688 9.94e-01 80 chrIV:8263961-8264041 1.01e-01 80 chrM:3233-3313 9.76e-01 80 chrM:10110-10190 9.27e-01 80 chrV:11533141-11533221 2.05e-03 22_[+2(3.50e-05)]_32_[+5(3.12e-05)]_\ 10 chrM:3657-3737 5.88e-01 80 chrM:11090-11170 7.62e-01 80 chrV:5841100-5841180 7.80e-01 80 chrIII:13721318-13721398 3.11e-01 80 chrIII:10857038-10857118 1.01e-02 49_[+4(9.18e-05)]_23 chrIII:445646-445726 1.00e+00 80 chrM:3027-3107 2.19e-01 [+1(4.77e-05)]_72 chrIII:11091821-11091901 9.54e-01 80 chrM:8262-8342 9.71e-01 80 chrIV:10950271-10950351 8.94e-01 80 chrX:3453214-3453294 4.50e-01 80 chrM:5997-6077 9.24e-02 3_[+2(6.50e-05)]_69 chrX:14229616-14229696 1.00e+00 80 chrX:2569277-2569357 4.15e-01 80 chrM:9027-9107 1.00e+00 80 chrIII:11830600-11830680 9.24e-01 80 chrM:7219-7299 6.42e-01 80 chrIII:10868288-10868368 6.72e-01 80 chrI:13421224-13421304 1.13e-01 80 chrM:1052-1132 1.00e+00 80 chrI:2864120-2864200 2.95e-01 80 chrV:20164613-20164693 9.33e-01 80 chrII:6560821-6560901 9.97e-01 80 chrV:14848689-14848769 1.23e-02 15_[+3(1.20e-05)]_57 chrIII:12617108-12617188 8.15e-01 80 chrI:13369957-13370037 3.93e-02 45_[+2(1.66e-05)]_[+2(1.66e-05)]_\ [+2(1.66e-05)]_[+2(1.66e-05)]_3 chrIII:5722004-5722084 4.91e-04 50_[+1(1.22e-05)]_11_[+5(1.09e-05)]_\ 3 chrX:16024668-16024748 2.27e-02 80 chrV:4821128-4821208 8.44e-01 80 chrM:4672-4752 1.00e+00 80 chrM:2195-2275 1.00e+00 80 chrV:265001-265081 9.81e-01 80 chrIV:3337603-3337683 4.65e-01 80 chrV:7854952-7855032 7.79e-01 80 chrI:7083139-7083219 5.17e-01 80 chrIV:4406127-4406207 3.08e-01 80 chrV:13656668-13656748 1.06e-01 53_[+5(1.09e-05)]_19 chrX:4208663-4208743 8.32e-01 80 chrII:14050609-14050689 9.98e-04 30_[+2(5.00e-05)]_28_[+3(1.20e-05)]_\ 6 chrV:12063366-12063446 5.40e-01 80 chrX:13525616-13525696 9.29e-01 80 chrV:20785391-20785471 8.91e-01 80 chrV:898133-898213 9.59e-01 80 chrIII:9782319-9782399 9.72e-01 80 chrX:4961251-4961331 5.34e-01 80 chrV:13313254-13313334 6.30e-01 80 chrM:12454-12534 7.06e-01 80 chrIV:10483850-10483930 1.05e-01 59_[+1(2.24e-05)]_13 chrX:9927284-9927364 1.00e+00 80 chrI:7139623-7139703 8.25e-01 80 chrI:7658999-7659079 5.15e-02 31_[+2(3.50e-05)]_41 chrV:12064260-12064340 9.69e-01 80 chrX:8110384-8110464 6.25e-01 80 chrIV:8264177-8264257 1.85e-02 66_[+1(4.77e-05)]_6 chrIII:2293138-2293218 9.80e-01 80 chrII:12348811-12348891 7.53e-01 80 chrX:16378070-16378150 4.79e-01 80 chrI:11934227-11934307 8.08e-01 80 chrX:17633366-17633446 8.17e-02 80 chrV:3711839-3711919 9.98e-01 80 chrV:16401679-16401759 2.53e-02 61_[+5(1.09e-05)]_11 chrX:4222915-4222995 1.12e-03 9_[+3(1.20e-05)]_63 chrIV:11855798-11855878 4.77e-01 80 chrI:3987229-3987309 2.75e-02 8_[+4(1.17e-05)]_14_[+4(1.17e-05)]_\ 14_[+4(1.17e-05)]_20 chrIII:8319265-8319345 9.80e-04 2_[+3(1.20e-05)]_28_[+1(3.62e-05)]_\ 14_[+1(1.22e-05)]_12 chrIV:3233033-3233113 6.91e-01 80 chrV:3706972-3707052 3.14e-01 80 chrX:3348010-3348090 2.50e-01 80 chrII:14318254-14318334 7.85e-01 80 chrII:6741594-6741674 1.28e-01 80 chrIV:3258320-3258400 5.01e-01 80 chrX:3472357-3472437 6.19e-03 52_[+2(1.66e-05)]_6_[+2(6.50e-05)]_\ 6 chrX:2071741-2071821 8.89e-01 80 chrII:8016762-8016842 9.99e-01 80 chrV:11933369-11933449 7.50e-01 80 chrIV:4469017-4469097 9.64e-01 80 chrIV:11582019-11582099 7.96e-01 80 chrII:5593717-5593797 1.45e-02 42_[+3(2.50e-05)]_30 chrX:13730413-13730493 9.99e-01 80 chrIII:7728988-7729068 9.73e-01 80 chrX:15468017-15468097 1.88e-01 80 chrV:13468320-13468400 3.93e-06 17_[+4(1.17e-05)]_26_[+1(1.22e-05)]_\ 12_[+5(3.12e-05)]_1 chrX:5475264-5475344 4.70e-01 80 chrIII:6551595-6551675 8.75e-01 80 chrI:7657007-7657087 1.52e-01 45_[+2(5.00e-05)]_27 chrIII:10270945-10271025 1.04e-05 44_[+1(1.22e-05)]_8_[+4(1.17e-05)]_\ 12 chrIV:6336916-6336996 3.38e-04 43_[+2(9.70e-05)]_15_[+3(1.20e-05)]_\ 6 chrII:6346771-6346851 9.98e-01 80 chrX:13527517-13527597 7.25e-01 80 chrI:3246612-3246692 3.18e-02 65_[+5(1.09e-05)]_7 chrX:15200893-15200973 4.34e-01 80 chrV:14055186-14055266 9.52e-02 80 chrX:1452719-1452799 8.76e-01 80 chrV:11573033-11573113 7.94e-01 80 chrIII:7278625-7278705 3.44e-01 80 chrX:14804872-14804952 4.05e-02 80 chrIII:4193707-4193787 4.64e-01 80 chrII:9622108-9622188 9.28e-01 80 chrX:7181680-7181760 3.15e-01 80 chrI:11202380-11202460 1.11e-01 80 chrII:10544527-10544607 2.45e-01 80 chrV:15590375-15590455 4.99e-03 59_[+1(4.77e-05)]_13 chrII:4740174-4740254 8.62e-03 9_[+1(1.22e-05)]_63 chrX:11792164-11792244 3.21e-01 80 chrX:12347889-12347969 6.09e-01 80 chrX:4190795-4190875 8.77e-03 39_[+1(4.77e-05)]_33 chrX:8638771-8638851 1.18e-02 28_[+2(1.66e-05)]_44 chrX:7334427-7334507 2.84e-02 80 chrIII:13225186-13225266 5.84e-01 80 chrV:11039723-11039803 7.41e-01 80 chrX:17545693-17545773 1.59e-01 80 chrIV:8973687-8973767 7.81e-03 80 chrIV:16389237-16389317 3.92e-01 80 chrV:14354443-14354523 9.94e-01 80 chrIV:2602083-2602163 6.31e-01 80 chrI:4536146-4536226 3.79e-02 49_[+2(1.66e-05)]_7_[+2(1.66e-05)]_\ [+2(1.66e-05)] chrIV:6321838-6321918 1.01e-03 37_[+3(2.50e-05)]_11_[+1(1.22e-05)]_\ 16 chrIV:6206574-6206654 1.05e-01 [+1(1.22e-05)]_11_[+1(2.24e-05)]_53 chrIII:354736-354816 9.06e-02 80 chrV:10719956-10720036 6.13e-01 80 chrI:8135671-8135751 9.91e-01 80 chrV:723991-724071 7.18e-01 80 chrII:8747359-8747439 5.49e-01 80 chrII:6360951-6361031 2.41e-02 69_[+3(3.93e-05)]_3 chrX:4142320-4142400 3.70e-01 80 chrII:5358396-5358476 7.62e-03 26_[+1(1.22e-05)]_46 chrIII:4237868-4237948 1.87e-01 80 chrIV:11956478-11956558 2.07e-01 80 chrIII:9717364-9717444 5.58e-01 80 chrI:10161996-10162076 5.85e-02 60_[+1(8.77e-05)]_12 chrII:5836461-5836541 5.11e-01 80 chrIII:6158786-6158866 3.63e-02 1_[+4(2.35e-05)]_71 chrII:9591238-9591318 6.63e-04 58_[+5(1.09e-05)]_14 chrIII:8443721-8443801 1.54e-03 11_[+5(1.09e-05)]_44_[+1(2.24e-05)]_\ 9 chrII:14018357-14018437 2.45e-01 80 chrX:1446956-1447036 1.14e-01 80 chrIV:9074380-9074460 3.76e-01 80 chrX:9622800-9622880 2.04e-01 80 chrIII:8865498-8865578 2.44e-01 80 chrX:6750173-6750253 3.34e-01 80 chrIII:7520805-7520885 2.21e-04 7_[+4(1.17e-05)]_36_[+1(1.22e-05)]_\ 21 chrI:10642427-10642507 7.90e-01 80 chrX:8021841-8021921 2.08e-01 80 chrIV:4470057-4470137 2.85e-01 80 chrV:8349090-8349170 9.07e-01 80 chrIII:9051514-9051594 4.97e-03 4_[+2(5.00e-05)]_68 chrIV:9477704-9477784 8.35e-02 80 chrV:1871937-1872017 3.03e-01 80 chrV:53456-53536 3.27e-02 29_[+4(2.35e-05)]_43 chrIII:349929-350009 6.90e-03 1_[+4(2.35e-05)]_71 chrV:8228977-8229057 1.85e-01 80 chrX:11522277-11522357 7.65e-01 80 chrIV:11594229-11594309 9.87e-01 80 chrX:13514559-13514639 6.24e-01 80 chrV:12870073-12870153 5.16e-03 80 chrIV:2708674-2708754 1.81e-02 8_[+2(1.66e-05)]_64 chrV:12497863-12497943 4.51e-02 55_[+3(3.93e-05)]_17 chrIII:6464324-6464404 1.81e-02 21_[+4(3.44e-05)]_51 chrI:8615197-8615277 8.71e-02 51_[+1(1.22e-05)]_21 chrI:3824410-3824490 1.02e-03 4_[+3(2.50e-05)]_6_[+5(2.05e-05)]_\ 54 chrI:12198620-12198700 7.83e-01 80 chrIII:5172654-5172734 1.50e-01 80 chrX:6286263-6286343 9.83e-01 80 chrII:2974021-2974101 1.26e-01 3_[+2(5.00e-05)]_69 chrX:4606643-4606723 3.92e-02 50_[+1(1.22e-05)]_22 chrV:13715456-13715536 3.14e-01 80 chrI:5176399-5176479 6.05e-02 80 chrII:10248524-10248604 7.83e-01 80 chrX:14602826-14602906 2.66e-01 80 chrX:5707965-5708045 2.68e-02 72_[+4(2.35e-05)] chrII:11545435-11545515 5.92e-01 80 chrIII:13068421-13068501 1.51e-01 80 chrV:14351188-14351268 8.46e-02 80 chrIV:11593449-11593529 1.38e-01 48_[+5(9.88e-05)]_24 chrI:6164184-6164264 9.79e-01 80 chrI:7772597-7772677 9.87e-01 80 chrX:7951729-7951809 9.82e-01 80 chrII:6913453-6913533 6.23e-03 15_[+4(1.17e-05)]_57 chrX:11643923-11644003 1.78e-01 80 chrIV:4445834-4445914 9.38e-03 6_[+4(3.44e-05)]_66 chrIII:12583538-12583618 2.27e-01 80 chrX:12563725-12563805 1.64e-01 80 chrIV:16382337-16382417 8.34e-02 14_[+2(5.00e-05)]_58 chrII:14250285-14250365 5.05e-01 80 chrX:1345015-1345095 1.23e-01 80 chrI:4298084-4298164 3.12e-02 56_[+2(1.66e-05)]_16 chrX:9637918-9637998 2.47e-01 80 chrX:6743968-6744048 9.35e-02 80 chrI:2876698-2876778 5.05e-01 80 chrI:2514273-2514353 7.89e-01 80 chrIII:9053976-9054056 8.95e-01 80 chrII:14561799-14561879 2.53e-01 80 chrII:14143932-14144012 9.47e-02 80 chrV:14347421-14347501 2.02e-01 80 chrI:2996334-2996414 5.66e-01 80 chrII:8107257-8107337 8.21e-03 40_[+2(9.70e-05)]_32 chrII:5292302-5292382 6.73e-02 80 chrIV:620451-620531 3.37e-02 66_[+3(3.93e-05)]_6 chrIII:11946515-11946595 1.51e-01 80 chrIV:11026163-11026243 1.65e-01 80 chrX:7068545-7068625 8.17e-01 80 chrII:4299396-4299476 8.52e-04 36_[+5(2.05e-05)]_36 chrX:14753711-14753791 3.34e-02 22_[+1(7.25e-05)]_50 chrII:11759415-11759495 1.36e-02 48_[+2(3.50e-05)]_24 chrX:15742021-15742101 8.05e-04 38_[+4(2.35e-05)]_34 chrIV:683030-683110 7.94e-01 80 chrX:949652-949732 3.32e-01 80 chrX:14169783-14169863 2.46e-02 80 chrI:5807461-5807541 8.75e-01 80 chrII:4376867-4376947 7.54e-02 80 chrX:2549496-2549576 3.49e-01 80 chrIII:7498585-7498665 1.74e-02 42_[+1(7.25e-05)]_30 chrX:1389561-1389641 8.75e-01 80 chrII:9940605-9940685 2.43e-01 80 chrV:15085586-15085666 3.98e-02 4_[+1(1.22e-05)]_68 chrI:13297736-13297816 1.75e-01 80 chrV:6227555-6227635 8.10e-02 80 chrV:9790023-9790103 1.36e-01 80 chrIV:11119183-11119263 6.56e-01 80 chrIII:11371362-11371442 8.94e-01 80 chrX:11252500-11252580 7.85e-01 80 chrV:14685757-14685837 4.65e-01 80 chrIII:836074-836154 1.40e-01 80 chrII:6853292-6853372 1.70e-02 80 chrX:3697759-3697839 3.83e-01 80 chrI:3721728-3721808 3.71e-02 4_[+2(1.66e-05)]_[+2(1.66e-05)]_60 chrII:10502894-10502974 7.35e-02 80 chrII:5105204-5105284 1.09e-01 80 chrIV:17249884-17249964 9.85e-01 80 chrX:12363137-12363217 6.81e-01 80 chrII:11749766-11749846 1.15e-03 15_[+2(8.16e-05)]_37_[+3(5.05e-05)]_\ 12 chrI:9381514-9381594 3.18e-02 16_[+1(7.25e-05)]_56 chrV:20778424-20778504 3.88e-01 80 chrX:6092129-6092209 1.98e-03 26_[+3(2.50e-05)]_46 chrIV:11083059-11083139 2.29e-03 64_[+3(2.50e-05)]_8 chrIII:8937731-8937811 1.01e-02 16_[+4(1.17e-05)]_56 chrX:11031222-11031302 6.54e-01 80 chrV:6000375-6000455 1.09e-02 80 chrX:7823218-7823298 1.13e-03 38_[+2(1.66e-05)]_34 chrIII:4899815-4899895 1.74e-02 80 chrIII:8801962-8802042 2.78e-01 80 chrX:5429503-5429583 6.76e-02 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n01.farnam.hpc.yale.internal ********************************************************************************