******************************************************************************** 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/nhr-90.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrIV:8266248-8266328 1.0000 80 chrI:1050906-1050986 1.0000 80 chrX:5105851-5105931 1.0000 80 chrV:20162972-20163052 1.0000 80 chrV:8384916-8384996 1.0000 80 chrIII:8473410-8473490 1.0000 80 chrV:14412181-14412261 1.0000 80 chrI:6499600-6499680 1.0000 80 chrX:5101137-5101217 1.0000 80 chrX:7507306-7507386 1.0000 80 chrV:20350543-20350623 1.0000 80 chrV:2872211-2872291 1.0000 80 chrIV:8262818-8262898 1.0000 80 chrX:3409025-3409105 1.0000 80 chrX:4971113-4971193 1.0000 80 chrIV:2111576-2111656 1.0000 80 chrX:4147728-4147808 1.0000 80 chrI:12601746-12601826 1.0000 80 chrV:15480709-15480789 1.0000 80 chrI:946061-946141 1.0000 80 chrIII:1744660-1744740 1.0000 80 chrIV:8265012-8265092 1.0000 80 chrIV:8266537-8266617 1.0000 80 chrX:5485743-5485823 1.0000 80 chrIII:3653000-3653080 1.0000 80 chrI:6498391-6498471 1.0000 80 chrX:11515471-11515551 1.0000 80 chrX:13284801-13284881 1.0000 80 chrIV:1459613-1459693 1.0000 80 chrIV:11913575-11913655 1.0000 80 chrV:8499584-8499664 1.0000 80 chrX:6533255-6533335 1.0000 80 chrV:2308370-2308450 1.0000 80 chrIV:5374360-5374440 1.0000 80 chrV:8495327-8495407 1.0000 80 chrV:11009237-11009317 1.0000 80 chrV:7548733-7548813 1.0000 80 chrII:3245056-3245136 1.0000 80 chrV:3163294-3163374 1.0000 80 chrIII:2711710-2711790 1.0000 80 chrX:11481138-11481218 1.0000 80 chrIII:13625814-13625894 1.0000 80 chrV:16640560-16640640 1.0000 80 chrV:3455259-3455339 1.0000 80 chrIII:5557328-5557408 1.0000 80 chrIII:2031316-2031396 1.0000 80 chrX:11993484-11993564 1.0000 80 chrI:7657947-7658027 1.0000 80 chrV:16645747-16645827 1.0000 80 chrIV:8263991-8264071 1.0000 80 chrV:12744333-12744413 1.0000 80 chrX:14679132-14679212 1.0000 80 chrV:13046359-13046439 1.0000 80 chrV:9078983-9079063 1.0000 80 chrIII:8646191-8646271 1.0000 80 chrX:1272699-1272779 1.0000 80 chrII:14601368-14601448 1.0000 80 chrX:4453252-4453332 1.0000 80 chrV:3634823-3634903 1.0000 80 chrX:15241330-15241410 1.0000 80 chrX:8945183-8945263 1.0000 80 chrX:7176948-7177028 1.0000 80 chrI:11584075-11584155 1.0000 80 chrIII:5196564-5196644 1.0000 80 chrX:8417860-8417940 1.0000 80 chrV:1132377-1132457 1.0000 80 chrX:5103640-5103720 1.0000 80 chrX:10666988-10667068 1.0000 80 chrI:754657-754737 1.0000 80 chrI:12343541-12343621 1.0000 80 chrIV:7499470-7499550 1.0000 80 chrV:10855476-10855556 1.0000 80 chrIV:7486743-7486823 1.0000 80 chrV:8230195-8230275 1.0000 80 chrX:6522855-6522935 1.0000 80 chrI:2076993-2077073 1.0000 80 chrV:14237579-14237659 1.0000 80 chrIV:12005542-12005622 1.0000 80 chrIII:13626099-13626179 1.0000 80 chrX:11933753-11933833 1.0000 80 chrIII:1599098-1599178 1.0000 80 chrX:13444420-13444500 1.0000 80 chrV:15515509-15515589 1.0000 80 chrV:6045238-6045318 1.0000 80 chrII:10546077-10546157 1.0000 80 chrIV:12834086-12834166 1.0000 80 chrX:487828-487908 1.0000 80 chrX:5709378-5709458 1.0000 80 chrII:4565336-4565416 1.0000 80 chrIV:10311261-10311341 1.0000 80 chrX:16217918-16217998 1.0000 80 chrIII:1163320-1163400 1.0000 80 chrIII:8653689-8653769 1.0000 80 chrX:8419440-8419520 1.0000 80 chrX:8149104-8149184 1.0000 80 chrX:12173007-12173087 1.0000 80 chrX:13443453-13443533 1.0000 80 chrI:1226492-1226572 1.0000 80 chrII:9740728-9740808 1.0000 80 chrX:8846562-8846642 1.0000 80 chrIII:2030975-2031055 1.0000 80 chrX:11163325-11163405 1.0000 80 chrII:162371-162451 1.0000 80 chrIV:5086670-5086750 1.0000 80 chrIII:1743263-1743343 1.0000 80 chrIV:8481469-8481549 1.0000 80 chrIV:4557847-4557927 1.0000 80 chrIV:2664220-2664300 1.0000 80 chrX:3567095-3567175 1.0000 80 chrV:15480000-15480080 1.0000 80 chrIII:4362493-4362573 1.0000 80 chrX:14228935-14229015 1.0000 80 chrIV:15933264-15933344 1.0000 80 chrI:13324198-13324278 1.0000 80 chrX:7906555-7906635 1.0000 80 chrX:11791817-11791897 1.0000 80 chrV:8651536-8651616 1.0000 80 chrV:1262372-1262452 1.0000 80 chrX:8381809-8381889 1.0000 80 chrX:3822018-3822098 1.0000 80 chrX:17198020-17198100 1.0000 80 chrI:11803327-11803407 1.0000 80 chrII:12542689-12542769 1.0000 80 chrIV:8155041-8155121 1.0000 80 chrX:17135778-17135858 1.0000 80 chrX:2526201-2526281 1.0000 80 chrX:6932302-6932382 1.0000 80 chrX:7898280-7898360 1.0000 80 chrI:12954684-12954764 1.0000 80 chrII:7060333-7060413 1.0000 80 chrII:4925519-4925599 1.0000 80 chrV:3635022-3635102 1.0000 80 chrV:20499072-20499152 1.0000 80 chrII:13780835-13780915 1.0000 80 chrX:9238872-9238952 1.0000 80 chrV:7081773-7081853 1.0000 80 chrII:2378697-2378777 1.0000 80 chrV:3588432-3588512 1.0000 80 chrII:2860345-2860425 1.0000 80 chrII:12362417-12362497 1.0000 80 chrX:1488991-1489071 1.0000 80 chrI:14758970-14759050 1.0000 80 chrII:10302172-10302252 1.0000 80 chrI:6943001-6943081 1.0000 80 chrM:5211-5291 1.0000 80 chrV:5588059-5588139 1.0000 80 chrI:4790694-4790774 1.0000 80 chrIII:10506473-10506553 1.0000 80 chrV:6551867-6551947 1.0000 80 chrIII:11554761-11554841 1.0000 80 chrI:7857670-7857750 1.0000 80 chrIII:2733758-2733838 1.0000 80 chrX:11872340-11872420 1.0000 80 chrIII:11026790-11026870 1.0000 80 chrX:8819977-8820057 1.0000 80 chrI:10758107-10758187 1.0000 80 chrX:12911393-12911473 1.0000 80 chrX:16503110-16503190 1.0000 80 chrV:15192584-15192664 1.0000 80 chrIII:698994-699074 1.0000 80 chrX:4007831-4007911 1.0000 80 chrV:20497741-20497821 1.0000 80 chrX:1504582-1504662 1.0000 80 chrII:8745415-8745495 1.0000 80 chrIV:11284254-11284334 1.0000 80 chrIV:3611970-3612050 1.0000 80 chrX:6789146-6789226 1.0000 80 chrIII:3112194-3112274 1.0000 80 chrV:6488015-6488095 1.0000 80 chrX:16590349-16590429 1.0000 80 chrX:2543467-2543547 1.0000 80 chrV:13043314-13043394 1.0000 80 chrV:6559731-6559811 1.0000 80 chrIV:2664943-2665023 1.0000 80 chrIII:5782255-5782335 1.0000 80 chrIV:12199783-12199863 1.0000 80 chrV:3697207-3697287 1.0000 80 chrIV:13701630-13701710 1.0000 80 chrIII:13411325-13411405 1.0000 80 chrIV:16775150-16775230 1.0000 80 chrX:16441115-16441195 1.0000 80 chrX:3793556-3793636 1.0000 80 chrII:12519040-12519120 1.0000 80 chrIII:10506256-10506336 1.0000 80 chrIV:15187702-15187782 1.0000 80 chrIII:5550953-5551033 1.0000 80 chrI:12919305-12919385 1.0000 80 chrII:14617053-14617133 1.0000 80 chrV:724770-724850 1.0000 80 chrX:15146546-15146626 1.0000 80 chrIII:5553252-5553332 1.0000 80 chrIV:5664698-5664778 1.0000 80 chrV:12935064-12935144 1.0000 80 chrX:15842607-15842687 1.0000 80 chrX:13714887-13714967 1.0000 80 chrV:17542491-17542571 1.0000 80 chrX:8640781-8640861 1.0000 80 chrV:18412503-18412583 1.0000 80 chrM:3303-3383 1.0000 80 chrIII:5506068-5506148 1.0000 80 chrIV:2657490-2657570 1.0000 80 chrV:16648773-16648853 1.0000 80 chrV:910716-910796 1.0000 80 chrV:17687569-17687649 1.0000 80 chrII:4857920-4858000 1.0000 80 chrX:7681012-7681092 1.0000 80 chrX:4410667-4410747 1.0000 80 chrX:16618262-16618342 1.0000 80 chrIV:4047860-4047940 1.0000 80 chrV:19050757-19050837 1.0000 80 chrIV:13026873-13026953 1.0000 80 chrIV:5038891-5038971 1.0000 80 chrX:9237813-9237893 1.0000 80 chrX:10124525-10124605 1.0000 80 chrI:3638872-3638952 1.0000 80 chrII:7944575-7944655 1.0000 80 chrIV:2808384-2808464 1.0000 80 chrV:13907861-13907941 1.0000 80 chrV:10887688-10887768 1.0000 80 chrX:8022870-8022950 1.0000 80 chrV:2664709-2664789 1.0000 80 chrII:6591093-6591173 1.0000 80 chrIII:6850384-6850464 1.0000 80 chrX:3290282-3290362 1.0000 80 chrV:10333951-10334031 1.0000 80 chrX:16299359-16299439 1.0000 80 chrI:6163496-6163576 1.0000 80 chrIII:10537676-10537756 1.0000 80 chrIV:16503742-16503822 1.0000 80 chrII:9713199-9713279 1.0000 80 chrI:7578690-7578770 1.0000 80 chrX:5451194-5451274 1.0000 80 chrV:20347801-20347881 1.0000 80 chrIV:3012525-3012605 1.0000 80 chrX:8838355-8838435 1.0000 80 chrV:6335364-6335444 1.0000 80 chrX:16192758-16192838 1.0000 80 chrX:13261183-13261263 1.0000 80 chrV:3686085-3686165 1.0000 80 chrX:13308015-13308095 1.0000 80 chrX:1489984-1490064 1.0000 80 chrX:10148606-10148686 1.0000 80 chrIII:1214834-1214914 1.0000 80 chrX:9024386-9024466 1.0000 80 chrV:15767563-15767643 1.0000 80 chrV:19521334-19521414 1.0000 80 chrX:8939583-8939663 1.0000 80 chrIII:1002707-1002787 1.0000 80 chrIV:12689847-12689927 1.0000 80 chrV:10161151-10161231 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_nhr-90/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/nhr-90.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 0.271 C 0.235 G 0.227 T 0.268 Background letter frequencies (from file dataset with add-one prior applied): A 0.271 C 0.235 G 0.227 T 0.268 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TCGAACCC MEME-1 width = 8 sites = 37 llr = 328 E-value = 5.5e-013 ******************************************************************************** -------------------------------------------------------------------------------- Motif TCGAACCC MEME-1 Description -------------------------------------------------------------------------------- Simplified A :::aa::1 pos.-specific C :9:::986 probability G ::a:::11 matrix T a1:::112 bits 2.1 * 1.9 * *** 1.7 ***** 1.5 ****** Relative 1.3 ******* Entropy 1.1 ******* (12.8 bits) 0.9 ******* 0.6 ******* 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TCGAACCC consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:5451194-5451274 25 1.36e-05 CCTAGGGGAC TCGAACCC CTGACCTTAA chrX:7898280-7898360 43 1.36e-05 TTGCGGGGAA TCGAACCC CGGCCTTATG chrX:11163325-11163405 48 1.36e-05 AGAGTGGGAT TCGAACCC ACGCCCCCGA chrIV:12005542-12005622 71 1.36e-05 GAACCGGGAA TCGAACCC GG chrX:10666988-10667068 49 1.36e-05 ATGCCGGGAA TCGAACCC GGGCCGCGTG chrX:8417860-8417940 67 1.36e-05 AGAGTGGGAT TCGAACCC ACGCCC chrI:11584075-11584155 62 1.36e-05 AATGCGGGGC TCGAACCC GCGACAACCA chrX:15241330-15241410 40 1.36e-05 AATGCGGGGC TCGAACCC GCGACAACCA chrIII:2031316-2031396 22 1.36e-05 CCAGTCGGGA TCGAACCC GTGGGCTTTC chrX:10148606-10148686 58 2.92e-05 ACGGCAGGAT TCGAACCT ACAATCTTCT chrX:8640781-8640861 28 2.92e-05 ACGGCAGGAT TCGAACCT ACAATCTTCT chrX:15146546-15146626 31 2.92e-05 CAGGCAGGGG TCGAACCT GCAATCTTCT chrX:2526201-2526281 32 2.92e-05 CCAGCAGGGG TCGAACCT GCGACCTTGG chrI:11803327-11803407 4 2.92e-05 GAT TCGAACCT ACGCGGGCAG chrX:8381809-8381889 1 2.92e-05 . TCGAACCT GCAATCTTCT chrIII:1163320-1163400 49 2.92e-05 CCAGCAGGGG TCGAACCT GCGACCTTGG chrV:20347801-20347881 11 4.49e-05 CCGGGTGGGC TCGAACCA CCAACCTTTC chrX:7176948-7177028 50 4.49e-05 CATGCTGGAA TCGAACCA GCGACCTTCT chrX:11993484-11993564 52 4.49e-05 GCGGCTGGAA TCGAACCA GCGTCGCCAC chrIII:13625814-13625894 5 4.49e-05 ATCA TCGAACCA CCAACACAAG chrV:20350543-20350623 1 4.49e-05 . TCGAACCA CCAACCTTTC chrX:8939583-8939663 30 7.36e-05 GGGCGTGGGT TCGAATCC CACTCTCTTC chrX:3793556-3793636 23 7.36e-05 CTGGCCGGGA TCGAACCG GCGATCTTCT chrV:3697207-3697287 14 7.36e-05 ATATCAATAT TCGAACCG CCGGTCGTAA chrII:2860345-2860425 60 7.36e-05 GGGCGTGGGT TCGAATCC CACTCTCTTC chrV:15515509-15515589 12 7.36e-05 CTGGCCGGGT TCGAACCG GCGACCTTCT chrIII:8646191-8646271 39 7.36e-05 CCGCGTAGGT TCGAATCC TGCTGACTGC chrV:15480709-15480789 50 7.36e-05 GGTCGCTGGT TCGAATCC GGCTCGACGG chrX:14228935-14229015 27 8.67e-05 CGATCTGGAG TCGAACGC GCTACCATTG chrIV:7486743-7486823 4 8.67e-05 TCT TCGAACGC ATCGCCTCGG chrX:8945183-8945263 19 8.67e-05 CGATCTGGAG TCGAACGC GCTACCATTG chrI:946061-946141 25 8.67e-05 CGATCTGGAG TCGAACGC GCTACCATTG chrV:6551867-6551947 2 1.02e-04 T TCGAACTC ACGCGGGGAA chrV:8230195-8230275 26 1.02e-04 CCGGTGAGGC TCGAACTC ACGACCTTCA chrX:16618262-16618342 49 1.18e-04 cggccgggaa ttgaaccc gggtctcgca chrV:16648773-16648853 8 1.18e-04 ccgggaa ttgaaccc gggtctcgca chrX:5709378-5709458 60 1.36e-04 CCGCGTGAGT TCGAATCT CATCCTGATC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:5451194-5451274 1.4e-05 24_[+1]_48 chrX:7898280-7898360 1.4e-05 42_[+1]_30 chrX:11163325-11163405 1.4e-05 47_[+1]_25 chrIV:12005542-12005622 1.4e-05 70_[+1]_2 chrX:10666988-10667068 1.4e-05 48_[+1]_24 chrX:8417860-8417940 1.4e-05 66_[+1]_6 chrI:11584075-11584155 1.4e-05 61_[+1]_11 chrX:15241330-15241410 1.4e-05 39_[+1]_33 chrIII:2031316-2031396 1.4e-05 21_[+1]_51 chrX:10148606-10148686 2.9e-05 57_[+1]_15 chrX:8640781-8640861 2.9e-05 27_[+1]_45 chrX:15146546-15146626 2.9e-05 30_[+1]_42 chrX:2526201-2526281 2.9e-05 31_[+1]_41 chrI:11803327-11803407 2.9e-05 3_[+1]_69 chrX:8381809-8381889 2.9e-05 [+1]_72 chrIII:1163320-1163400 2.9e-05 48_[+1]_24 chrV:20347801-20347881 4.5e-05 10_[+1]_62 chrX:7176948-7177028 4.5e-05 49_[+1]_23 chrX:11993484-11993564 4.5e-05 51_[+1]_21 chrIII:13625814-13625894 4.5e-05 4_[+1]_68 chrV:20350543-20350623 4.5e-05 [+1]_72 chrX:8939583-8939663 7.4e-05 29_[+1]_43 chrX:3793556-3793636 7.4e-05 22_[+1]_50 chrV:3697207-3697287 7.4e-05 13_[+1]_59 chrII:2860345-2860425 7.4e-05 59_[+1]_13 chrV:15515509-15515589 7.4e-05 11_[+1]_61 chrIII:8646191-8646271 7.4e-05 38_[+1]_34 chrV:15480709-15480789 7.4e-05 49_[+1]_23 chrX:14228935-14229015 8.7e-05 26_[+1]_46 chrIV:7486743-7486823 8.7e-05 3_[+1]_69 chrX:8945183-8945263 8.7e-05 18_[+1]_54 chrI:946061-946141 8.7e-05 24_[+1]_48 chrV:6551867-6551947 0.0001 1_[+1]_71 chrV:8230195-8230275 0.0001 25_[+1]_47 chrX:16618262-16618342 0.00012 48_[+1]_24 chrV:16648773-16648853 0.00012 7_[+1]_65 chrX:5709378-5709458 0.00014 59_[+1]_13 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TCGAACCC width=8 seqs=37 chrX:5451194-5451274 ( 25) TCGAACCC 1 chrX:7898280-7898360 ( 43) TCGAACCC 1 chrX:11163325-11163405 ( 48) TCGAACCC 1 chrIV:12005542-12005622 ( 71) TCGAACCC 1 chrX:10666988-10667068 ( 49) TCGAACCC 1 chrX:8417860-8417940 ( 67) TCGAACCC 1 chrI:11584075-11584155 ( 62) TCGAACCC 1 chrX:15241330-15241410 ( 40) TCGAACCC 1 chrIII:2031316-2031396 ( 22) TCGAACCC 1 chrX:10148606-10148686 ( 58) TCGAACCT 1 chrX:8640781-8640861 ( 28) TCGAACCT 1 chrX:15146546-15146626 ( 31) TCGAACCT 1 chrX:2526201-2526281 ( 32) TCGAACCT 1 chrI:11803327-11803407 ( 4) TCGAACCT 1 chrX:8381809-8381889 ( 1) TCGAACCT 1 chrIII:1163320-1163400 ( 49) TCGAACCT 1 chrV:20347801-20347881 ( 11) TCGAACCA 1 chrX:7176948-7177028 ( 50) TCGAACCA 1 chrX:11993484-11993564 ( 52) TCGAACCA 1 chrIII:13625814-13625894 ( 5) TCGAACCA 1 chrV:20350543-20350623 ( 1) TCGAACCA 1 chrX:8939583-8939663 ( 30) TCGAATCC 1 chrX:3793556-3793636 ( 23) TCGAACCG 1 chrV:3697207-3697287 ( 14) TCGAACCG 1 chrII:2860345-2860425 ( 60) TCGAATCC 1 chrV:15515509-15515589 ( 12) TCGAACCG 1 chrIII:8646191-8646271 ( 39) TCGAATCC 1 chrV:15480709-15480789 ( 50) TCGAATCC 1 chrX:14228935-14229015 ( 27) TCGAACGC 1 chrIV:7486743-7486823 ( 4) TCGAACGC 1 chrX:8945183-8945263 ( 19) TCGAACGC 1 chrI:946061-946141 ( 25) TCGAACGC 1 chrV:6551867-6551947 ( 2) TCGAACTC 1 chrV:8230195-8230275 ( 26) TCGAACTC 1 chrX:16618262-16618342 ( 49) TTGAACCC 1 chrV:16648773-16648853 ( 8) TTGAACCC 1 chrX:5709378-5709458 ( 60) TCGAATCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 8.27814 E= 5.5e-013 -1185 -1185 -1185 190 -1185 201 -1185 -231 -1185 -1185 214 -1185 188 -1185 -1185 -1185 188 -1185 -1185 -1185 -1185 188 -1185 -99 -1185 184 -107 -231 -100 127 -148 -31 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 37 E= 5.5e-013 0.000000 0.000000 0.000000 1.000000 0.000000 0.945946 0.000000 0.054054 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.864865 0.000000 0.135135 0.000000 0.837838 0.108108 0.054054 0.135135 0.567568 0.081081 0.216216 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGAACCC MEME-1 regular expression -------------------------------------------------------------------------------- TCGAACC[CT] -------------------------------------------------------------------------------- Time 9.85 secs. ******************************************************************************** ******************************************************************************** MOTIF AGCTCAGT MEME-2 width = 8 sites = 18 llr = 181 E-value = 2.4e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif AGCTCAGT MEME-2 Description -------------------------------------------------------------------------------- Simplified A 7::::a:: pos.-specific C ::a:a::: probability G 3a:3::a: matrix T :::7:::a bits 2.1 ** * * 1.9 ** **** 1.7 ** **** 1.5 ** **** Relative 1.3 ** **** Entropy 1.1 ******** (14.5 bits) 0.9 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel AGCTCAGT consensus G G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGCTCAGT MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:6335364-6335444 42 1.50e-05 CGTGGGGTAT AGCTCAGT GGCAGAGCAT chrX:9237813-9237893 6 1.50e-05 GGTAT AGCTCAGT GGTAGAGCGC chrIV:5038891-5038971 37 1.50e-05 GGGCCTCCTT AGCTCAGT TGGTAGAGCG chrX:13714887-13714967 9 1.50e-05 GCCCGGTT AGCTCAGT CGGTAGAGCA chrV:6559731-6559811 34 1.50e-05 ATGGGGGTAT AGCTCAGT GGCAGAGCAT chrIII:11554761-11554841 72 1.50e-05 GTGCCTCGAT AGCTCAGT T chrII:12362417-12362497 40 1.50e-05 GTGCCGCCAT AGCTCAGT CGGTTAGAGC chrII:4565336-4565416 61 1.50e-05 TCGGGGGTAT AGCTCAGT GGTAGAGCGC chrX:14679132-14679212 36 1.50e-05 CAGCCGCCAT AGCTCAGT CGGTTAGAGC chrI:12601746-12601826 36 1.50e-05 TTACCTGTGT AGCTCAGT GGTAGAGCGC chrV:14412181-14412261 71 1.50e-05 GAGTGTGAAA AGCTCAGT GA chrIII:8473410-8473490 71 1.50e-05 CCGCCCGGTT AGCTCAGT CG chrX:13261183-13261263 28 2.76e-05 CCGCCTCATT GGCTCAGT GGCAGAGCGT chrX:5485743-5485823 11 4.03e-05 GTGCTTCCGT AGCGCAGT AGGCAGCGCG chrX:16441115-16441195 39 5.09e-05 ACAGCAGCGT GGCGCAGT GGAAGCGTGC chrIV:13701630-13701710 40 5.09e-05 ATCTCTCGTT GGCGCAGT TGGTAAAGGC chrIV:2664220-2664300 30 5.09e-05 ATTTCAGCGT GGCGCAGT GGCTAACACT chrIII:1599098-1599178 35 5.09e-05 GGTTGCGCGT GGCGCAGT GGCTAACACT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGCTCAGT MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:6335364-6335444 1.5e-05 41_[+2]_31 chrX:9237813-9237893 1.5e-05 5_[+2]_67 chrIV:5038891-5038971 1.5e-05 36_[+2]_36 chrX:13714887-13714967 1.5e-05 8_[+2]_64 chrV:6559731-6559811 1.5e-05 33_[+2]_39 chrIII:11554761-11554841 1.5e-05 71_[+2]_1 chrII:12362417-12362497 1.5e-05 39_[+2]_33 chrII:4565336-4565416 1.5e-05 60_[+2]_12 chrX:14679132-14679212 1.5e-05 35_[+2]_37 chrI:12601746-12601826 1.5e-05 35_[+2]_37 chrV:14412181-14412261 1.5e-05 70_[+2]_2 chrIII:8473410-8473490 1.5e-05 70_[+2]_2 chrX:13261183-13261263 2.8e-05 27_[+2]_45 chrX:5485743-5485823 4e-05 10_[+2]_62 chrX:16441115-16441195 5.1e-05 38_[+2]_34 chrIV:13701630-13701710 5.1e-05 39_[+2]_33 chrIV:2664220-2664300 5.1e-05 29_[+2]_43 chrIII:1599098-1599178 5.1e-05 34_[+2]_38 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGCTCAGT MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AGCTCAGT width=8 seqs=18 chrV:6335364-6335444 ( 42) AGCTCAGT 1 chrX:9237813-9237893 ( 6) AGCTCAGT 1 chrIV:5038891-5038971 ( 37) AGCTCAGT 1 chrX:13714887-13714967 ( 9) AGCTCAGT 1 chrV:6559731-6559811 ( 34) AGCTCAGT 1 chrIII:11554761-11554841 ( 72) AGCTCAGT 1 chrII:12362417-12362497 ( 40) AGCTCAGT 1 chrII:4565336-4565416 ( 61) AGCTCAGT 1 chrX:14679132-14679212 ( 36) AGCTCAGT 1 chrI:12601746-12601826 ( 36) AGCTCAGT 1 chrV:14412181-14412261 ( 71) AGCTCAGT 1 chrIII:8473410-8473490 ( 71) AGCTCAGT 1 chrX:13261183-13261263 ( 28) GGCTCAGT 1 chrX:5485743-5485823 ( 11) AGCGCAGT 1 chrX:16441115-16441195 ( 39) GGCGCAGT 1 chrIV:13701630-13701710 ( 40) GGCGCAGT 1 chrIV:2664220-2664300 ( 30) GGCGCAGT 1 chrIII:1599098-1599178 ( 35) GGCGCAGT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGCTCAGT MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.1187 E= 2.4e-004 141 -1081 29 -1081 -1081 -1081 214 -1081 -1081 209 -1081 -1081 -1081 -1081 29 143 -1081 209 -1081 -1081 188 -1081 -1081 -1081 -1081 -1081 214 -1081 -1081 -1081 -1081 190 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGCTCAGT MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 18 E= 2.4e-004 0.722222 0.000000 0.277778 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.277778 0.722222 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGCTCAGT MEME-2 regular expression -------------------------------------------------------------------------------- [AG]GC[TG]CAGT -------------------------------------------------------------------------------- Time 14.84 secs. ******************************************************************************** ******************************************************************************** MOTIF GGTAGAGC MEME-3 width = 8 sites = 22 llr = 206 E-value = 6.5e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGTAGAGC MEME-3 Description -------------------------------------------------------------------------------- Simplified A :::9:9:: pos.-specific C ::31:1:9 probability G a9::a:a1 matrix T :17::::: bits 2.1 * * * 1.9 * * * 1.7 ** * ** 1.5 ** **** Relative 1.3 ** ***** Entropy 1.1 ******** (13.5 bits) 0.9 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GGTAGAGC consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTAGAGC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:9237813-9237893 14 1.23e-05 ATAGCTCAGT GGTAGAGC GCTCCCTTAG chrIV:5038891-5038971 46 1.23e-05 TAGCTCAGTT GGTAGAGC GTGAGACTTT chrV:18412503-18412583 54 1.23e-05 ATAAGGGCAC GGTAGAGC GTGCAATGAT chrX:13714887-13714967 18 1.23e-05 TAGCTCAGTC GGTAGAGC ACCAGACTCT chrX:9238872-9238952 8 1.23e-05 GCTCAGT GGTAGAGC GCTCCCTTAG chrII:4565336-4565416 69 1.23e-05 ATAGCTCAGT GGTAGAGC GCTC chrX:487828-487908 3 1.23e-05 GT GGTAGAGC GTTGGTCTTG chrV:15480709-15480789 2 1.23e-05 T GGTAGAGC GGAGGACTGT chrI:12601746-12601826 44 1.23e-05 GTAGCTCAGT GGTAGAGC GCTCCCTTAG chrX:13261183-13261263 36 2.31e-05 TTGGCTCAGT GGCAGAGC GTCTGTCTAG chrV:6335364-6335444 50 2.31e-05 ATAGCTCAGT GGCAGAGC ATTCGATTGC chrV:6559731-6559811 42 2.31e-05 ATAGCTCAGT GGCAGAGC ATTCGACTGC chrI:11803327-11803407 17 2.31e-05 AACCTACGCG GGCAGAGC CCATTTGATT chrX:5105851-5105931 59 3.37e-05 GCGGATACGA GGTCGAGC AGCAACAACA chrII:14617053-14617133 44 4.44e-05 TGGCGCAGGC GGTAGCGC ATTTCGCTGT chrV:19521334-19521414 45 5.62e-05 GGCTCAACTG GGTAGAGG GACGCAAATG chrV:3163294-3163374 40 5.62e-05 TAAACATTAG GGTAGAGG GTGCGCTGGT chrII:12362417-12362497 50 7.07e-05 AGCTCAGTCG GTTAGAGC GTGGGTCTAA chrX:14679132-14679212 46 7.07e-05 AGCTCAGTCG GTTAGAGC GTGGGTCTAA chrX:1504582-1504662 23 8.29e-05 GAAGTCACAT GGTTGAGC CGGTCAAGTT chrII:2860345-2860425 5 9.22e-05 AGAT GGCCGAGC GGTCCAAGGC chrX:5485743-5485823 20 1.02e-04 TAGCGCAGTA GGCAGCGC GTCAGTCTCA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTAGAGC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:9237813-9237893 1.2e-05 13_[+3]_59 chrIV:5038891-5038971 1.2e-05 45_[+3]_27 chrV:18412503-18412583 1.2e-05 53_[+3]_19 chrX:13714887-13714967 1.2e-05 17_[+3]_55 chrX:9238872-9238952 1.2e-05 7_[+3]_65 chrII:4565336-4565416 1.2e-05 68_[+3]_4 chrX:487828-487908 1.2e-05 2_[+3]_70 chrV:15480709-15480789 1.2e-05 1_[+3]_71 chrI:12601746-12601826 1.2e-05 43_[+3]_29 chrX:13261183-13261263 2.3e-05 35_[+3]_37 chrV:6335364-6335444 2.3e-05 49_[+3]_23 chrV:6559731-6559811 2.3e-05 41_[+3]_31 chrI:11803327-11803407 2.3e-05 16_[+3]_56 chrX:5105851-5105931 3.4e-05 58_[+3]_14 chrII:14617053-14617133 4.4e-05 43_[+3]_29 chrV:19521334-19521414 5.6e-05 44_[+3]_28 chrV:3163294-3163374 5.6e-05 39_[+3]_33 chrII:12362417-12362497 7.1e-05 49_[+3]_23 chrX:14679132-14679212 7.1e-05 45_[+3]_27 chrX:1504582-1504662 8.3e-05 22_[+3]_50 chrII:2860345-2860425 9.2e-05 4_[+3]_68 chrX:5485743-5485823 0.0001 19_[+3]_53 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTAGAGC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGTAGAGC width=8 seqs=22 chrX:9237813-9237893 ( 14) GGTAGAGC 1 chrIV:5038891-5038971 ( 46) GGTAGAGC 1 chrV:18412503-18412583 ( 54) GGTAGAGC 1 chrX:13714887-13714967 ( 18) GGTAGAGC 1 chrX:9238872-9238952 ( 8) GGTAGAGC 1 chrII:4565336-4565416 ( 69) GGTAGAGC 1 chrX:487828-487908 ( 3) GGTAGAGC 1 chrV:15480709-15480789 ( 2) GGTAGAGC 1 chrI:12601746-12601826 ( 44) GGTAGAGC 1 chrX:13261183-13261263 ( 36) GGCAGAGC 1 chrV:6335364-6335444 ( 50) GGCAGAGC 1 chrV:6559731-6559811 ( 42) GGCAGAGC 1 chrI:11803327-11803407 ( 17) GGCAGAGC 1 chrX:5105851-5105931 ( 59) GGTCGAGC 1 chrII:14617053-14617133 ( 44) GGTAGCGC 1 chrV:19521334-19521414 ( 45) GGTAGAGG 1 chrV:3163294-3163374 ( 40) GGTAGAGG 1 chrII:12362417-12362497 ( 50) GTTAGAGC 1 chrX:14679132-14679212 ( 46) GTTAGAGC 1 chrX:1504582-1504662 ( 23) GGTTGAGC 1 chrII:2860345-2860425 ( 5) GGCCGAGC 1 chrX:5485743-5485823 ( 20) GGCAGCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTAGAGC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.7218 E= 6.5e-004 -1110 -1110 214 -1110 -1110 -1110 200 -156 -1110 22 -1110 144 167 -137 -1110 -255 -1110 -1110 214 -1110 174 -137 -1110 -1110 -1110 -1110 214 -1110 -1110 195 -132 -1110 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTAGAGC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 22 E= 6.5e-004 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.909091 0.090909 0.000000 0.272727 0.000000 0.727273 0.863636 0.090909 0.000000 0.045455 0.000000 0.000000 1.000000 0.000000 0.909091 0.090909 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.909091 0.090909 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTAGAGC MEME-3 regular expression -------------------------------------------------------------------------------- GG[TC]AGAGC -------------------------------------------------------------------------------- Time 18.50 secs. ******************************************************************************** ******************************************************************************** MOTIF GCTCTMCC MEME-4 width = 8 sites = 24 llr = 217 E-value = 3.2e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCTCTMCC MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::::53: pos.-specific C 2a:a:38a probability G 8::::2:: matrix T ::a:a::: bits 2.1 * * * 1.9 **** * 1.7 **** * 1.5 ***** * Relative 1.3 ***** ** Entropy 1.1 ***** ** (13.0 bits) 0.9 ***** ** 0.6 ***** ** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GCTCTACC consensus C CA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCTMCC MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:5451194-5451274 58 1.35e-05 AAAGTCTCAC GCTCTACC AACTGAGCTA chrV:18412503-18412583 28 1.35e-05 CAAGACCAAC GCTCTACC ACTGAGCTAT chrV:17542491-17542571 14 1.35e-05 ACAGTCCTCC GCTCTACC AACTGAGCTA chrV:15480000-15480080 33 1.35e-05 CGAAGCGGGC GCTCTACC TCTGAGCTAT chrX:16217918-16217998 25 1.35e-05 AAAGTCTCAC GCTCTACC AACTGAGCTA chrX:15241330-15241410 73 1.35e-05 AGAGTCTGGT GCTCTACC chrV:8499584-8499664 28 1.35e-05 AAAGTCTCAC GCTCTACC AACTGAGCTA chrX:13284801-13284881 24 1.35e-05 ACAGTCCTCC GCTCTACC AACTGAGCTA chrX:7507306-7507386 32 1.35e-05 CTAAGGGAGC GCTCTACC ACTGAGCTAT chrII:9713199-9713279 73 2.52e-05 TCAGTCGTGC GCTCTCCC chrV:2664709-2664789 6 3.64e-05 CAGAC GCTCTGCC ACTGAGCCAA chrIII:8646191-8646271 22 3.64e-05 AATCAATTGG GCTCTGCC CGCGTAGGTT chrI:6163496-6163576 23 5.20e-05 TTAGACCCAC GCTCTAAC CGACTGAGCT chrX:2526201-2526281 65 5.20e-05 TTAGACCCAC GCTCTAAC CGACTGAG chrIII:698994-699074 40 6.59e-05 ACCCACGCAC CCTCTACC CTATTGCTCC chrI:7578690-7578770 55 7.94e-05 CTGTAGTACT GCTCTCAC TATTTTTCTT chrX:4410667-4410747 15 7.94e-05 AGGATTTATG GCTCTCAC CCATAAGGCC chrX:7681012-7681092 58 7.94e-05 AGGATTTATG GCTCTCAC CCATAAGGCC chrX:7906555-7906635 60 7.94e-05 AGGATTTATG GCTCTCAC CCATAAGGCC chrIII:1214834-1214914 3 9.15e-05 CC CCTCTCCC TCACTCTTAT chrIV:3611970-3612050 36 9.15e-05 AATTATAAAC CCTCTCCC CCCAGATTCT chrV:15767563-15767643 37 1.16e-04 TTGAACTTGT CCTCTGCC TGTCGATTGA chrIV:13026873-13026953 55 1.16e-04 CAGGTATCCT CCTCTGCC TCCTCGCACA chrV:20499072-20499152 49 1.30e-04 CATGCACTTT GCTCTTCC AGCGCGTGTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCTMCC MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:5451194-5451274 1.3e-05 57_[+4]_15 chrV:18412503-18412583 1.3e-05 27_[+4]_45 chrV:17542491-17542571 1.3e-05 13_[+4]_59 chrV:15480000-15480080 1.3e-05 32_[+4]_40 chrX:16217918-16217998 1.3e-05 24_[+4]_48 chrX:15241330-15241410 1.3e-05 72_[+4] chrV:8499584-8499664 1.3e-05 27_[+4]_45 chrX:13284801-13284881 1.3e-05 23_[+4]_49 chrX:7507306-7507386 1.3e-05 31_[+4]_41 chrII:9713199-9713279 2.5e-05 72_[+4] chrV:2664709-2664789 3.6e-05 5_[+4]_67 chrIII:8646191-8646271 3.6e-05 21_[+4]_51 chrI:6163496-6163576 5.2e-05 22_[+4]_50 chrX:2526201-2526281 5.2e-05 64_[+4]_8 chrIII:698994-699074 6.6e-05 39_[+4]_33 chrI:7578690-7578770 7.9e-05 54_[+4]_18 chrX:4410667-4410747 7.9e-05 14_[+4]_58 chrX:7681012-7681092 7.9e-05 57_[+4]_15 chrX:7906555-7906635 7.9e-05 59_[+4]_13 chrIII:1214834-1214914 9.2e-05 2_[+4]_70 chrIV:3611970-3612050 9.2e-05 35_[+4]_37 chrV:15767563-15767643 0.00012 36_[+4]_36 chrIV:13026873-13026953 0.00012 54_[+4]_18 chrV:20499072-20499152 0.00013 48_[+4]_24 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCTMCC MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCTCTMCC width=8 seqs=24 chrX:5451194-5451274 ( 58) GCTCTACC 1 chrV:18412503-18412583 ( 28) GCTCTACC 1 chrV:17542491-17542571 ( 14) GCTCTACC 1 chrV:15480000-15480080 ( 33) GCTCTACC 1 chrX:16217918-16217998 ( 25) GCTCTACC 1 chrX:15241330-15241410 ( 73) GCTCTACC 1 chrV:8499584-8499664 ( 28) GCTCTACC 1 chrX:13284801-13284881 ( 24) GCTCTACC 1 chrX:7507306-7507386 ( 32) GCTCTACC 1 chrII:9713199-9713279 ( 73) GCTCTCCC 1 chrV:2664709-2664789 ( 6) GCTCTGCC 1 chrIII:8646191-8646271 ( 22) GCTCTGCC 1 chrI:6163496-6163576 ( 23) GCTCTAAC 1 chrX:2526201-2526281 ( 65) GCTCTAAC 1 chrIII:698994-699074 ( 40) CCTCTACC 1 chrI:7578690-7578770 ( 55) GCTCTCAC 1 chrX:4410667-4410747 ( 15) GCTCTCAC 1 chrX:7681012-7681092 ( 58) GCTCTCAC 1 chrX:7906555-7906635 ( 60) GCTCTCAC 1 chrIII:1214834-1214914 ( 3) CCTCTCCC 1 chrIV:3611970-3612050 ( 36) CCTCTCCC 1 chrV:15767563-15767643 ( 37) CCTCTGCC 1 chrIV:13026873-13026953 ( 55) CCTCTGCC 1 chrV:20499072-20499152 ( 49) GCTCTTCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCTMCC MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.0167 E= 3.2e-002 -1123 -17 180 -1123 -1123 209 -1123 -1123 -1123 -1123 -1123 190 -1123 209 -1123 -1123 -1123 -1123 -1123 190 88 31 -44 -268 -12 168 -1123 -1123 -1123 209 -1123 -1123 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCTMCC MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 24 E= 3.2e-002 0.000000 0.208333 0.791667 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.500000 0.291667 0.166667 0.041667 0.250000 0.750000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCTMCC MEME-4 regular expression -------------------------------------------------------------------------------- [GC]CTCT[AC][CA]C -------------------------------------------------------------------------------- Time 22.11 secs. ******************************************************************************** ******************************************************************************** MOTIF CTGAGCTA MEME-5 width = 8 sites = 13 llr = 136 E-value = 1.0e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::8:::a pos.-specific C a::2:a1: probability G ::a:a::: matrix T :a::::9: bits 2.1 * * ** 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 CTGAGCTA consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:5451194-5451274 68 1.50e-05 GCTCTACCAA CTGAGCTA AGGAG chrI:6163496-6163576 34 1.50e-05 CTCTAACCGA CTGAGCTA TGGCGGCCAA chrV:18412503-18412583 37 1.50e-05 CGCTCTACCA CTGAGCTA TAAGGGCACG chrV:17542491-17542571 24 1.50e-05 GCTCTACCAA CTGAGCTA TCGACGGCAT chrV:15480000-15480080 42 1.50e-05 CGCTCTACCT CTGAGCTA TGCCCCCGAC chrX:16217918-16217998 35 1.50e-05 GCTCTACCAA CTGAGCTA AGGAGGCCCT chrX:6522855-6522935 52 1.50e-05 ACTTTTTTTG CTGAGCTA CCTGTCCATT chrV:8499584-8499664 38 1.50e-05 GCTCTACCAA CTGAGCTA AGGAGGCCCC chrX:13284801-13284881 34 1.50e-05 GCTCTACCAA CTGAGCTA TCGACGGCAC chrX:7507306-7507386 41 1.50e-05 CGCTCTACCA CTGAGCTA TACCCCCGGC chrI:3638872-3638952 38 2.80e-05 GCGCTGCCTA CTGCGCTA CGGAAGCGGC chrV:8230195-8230275 69 2.80e-05 GCGCTGCCTA CTGCGCTA CGGA chrV:2664709-2664789 15 4.12e-05 CGCTCTGCCA CTGAGCCA ATGAGGCGGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:5451194-5451274 1.5e-05 67_[+5]_5 chrI:6163496-6163576 1.5e-05 33_[+5]_39 chrV:18412503-18412583 1.5e-05 36_[+5]_36 chrV:17542491-17542571 1.5e-05 23_[+5]_49 chrV:15480000-15480080 1.5e-05 41_[+5]_31 chrX:16217918-16217998 1.5e-05 34_[+5]_38 chrX:6522855-6522935 1.5e-05 51_[+5]_21 chrV:8499584-8499664 1.5e-05 37_[+5]_35 chrX:13284801-13284881 1.5e-05 33_[+5]_39 chrX:7507306-7507386 1.5e-05 40_[+5]_32 chrI:3638872-3638952 2.8e-05 37_[+5]_35 chrV:8230195-8230275 2.8e-05 68_[+5]_4 chrV:2664709-2664789 4.1e-05 14_[+5]_58 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTGAGCTA width=8 seqs=13 chrX:5451194-5451274 ( 68) CTGAGCTA 1 chrI:6163496-6163576 ( 34) CTGAGCTA 1 chrV:18412503-18412583 ( 37) CTGAGCTA 1 chrV:17542491-17542571 ( 24) CTGAGCTA 1 chrV:15480000-15480080 ( 42) CTGAGCTA 1 chrX:16217918-16217998 ( 35) CTGAGCTA 1 chrX:6522855-6522935 ( 52) CTGAGCTA 1 chrV:8499584-8499664 ( 38) CTGAGCTA 1 chrX:13284801-13284881 ( 34) CTGAGCTA 1 chrX:7507306-7507386 ( 41) CTGAGCTA 1 chrI:3638872-3638952 ( 38) CTGCGCTA 1 chrV:8230195-8230275 ( 69) CTGCGCTA 1 chrV:2664709-2664789 ( 15) CTGAGCCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.985 E= 1.0e-001 -1035 209 -1035 -1035 -1035 -1035 -1035 190 -1035 -1035 214 -1035 164 -61 -1035 -1035 -1035 -1035 214 -1035 -1035 209 -1035 -1035 -1035 -161 -1035 179 188 -1035 -1035 -1035 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 13 E= 1.0e-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 0.846154 0.153846 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.076923 0.000000 0.923077 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGAGCTA MEME-5 regular expression -------------------------------------------------------------------------------- CTGAGCTA -------------------------------------------------------------------------------- Time 25.65 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:8266248-8266328 6.75e-02 80 chrI:1050906-1050986 9.60e-01 80 chrX:5105851-5105931 6.60e-03 58_[+3(3.37e-05)]_14 chrV:20162972-20163052 1.58e-01 80 chrV:8384916-8384996 2.98e-01 80 chrIII:8473410-8473490 2.85e-02 70_[+2(1.50e-05)]_2 chrV:14412181-14412261 2.16e-02 70_[+2(1.50e-05)]_2 chrI:6499600-6499680 9.15e-01 80 chrX:5101137-5101217 6.46e-02 80 chrX:7507306-7507386 1.36e-04 10_[+4(9.15e-05)]_13_[+4(1.35e-05)]_\ 1_[+5(1.50e-05)]_32 chrV:20350543-20350623 6.95e-03 [+1(4.49e-05)]_72 chrV:2872211-2872291 8.23e-01 80 chrIV:8262818-8262898 5.16e-01 80 chrX:3409025-3409105 9.99e-01 80 chrX:4971113-4971193 8.59e-01 80 chrIV:2111576-2111656 9.33e-01 80 chrX:4147728-4147808 6.88e-01 80 chrI:12601746-12601826 1.11e-04 35_[+2(1.50e-05)]_[+3(1.23e-05)]_29 chrV:15480709-15480789 1.42e-03 1_[+3(1.23e-05)]_40_[+1(7.36e-05)]_\ 23 chrI:946061-946141 9.24e-03 24_[+1(8.67e-05)]_48 chrIII:1744660-1744740 6.64e-01 80 chrIV:8265012-8265092 2.40e-03 80 chrIV:8266537-8266617 1.38e-01 80 chrX:5485743-5485823 1.95e-03 10_[+2(4.03e-05)]_62 chrIII:3653000-3653080 9.75e-01 80 chrI:6498391-6498471 6.52e-01 80 chrX:11515471-11515551 2.32e-01 80 chrX:13284801-13284881 9.55e-05 23_[+4(1.35e-05)]_2_[+5(1.50e-05)]_\ 39 chrIV:1459613-1459693 4.50e-01 80 chrIV:11913575-11913655 6.53e-01 80 chrV:8499584-8499664 7.92e-05 27_[+4(1.35e-05)]_2_[+5(1.50e-05)]_\ 35 chrX:6533255-6533335 8.73e-01 80 chrV:2308370-2308450 5.04e-01 80 chrIV:5374360-5374440 9.90e-01 80 chrV:8495327-8495407 3.32e-01 80 chrV:11009237-11009317 6.76e-01 80 chrV:7548733-7548813 4.78e-01 80 chrII:3245056-3245136 9.98e-01 80 chrV:3163294-3163374 1.08e-01 39_[+3(5.62e-05)]_33 chrIII:2711710-2711790 6.17e-01 80 chrX:11481138-11481218 2.71e-02 80 chrIII:13625814-13625894 4.75e-02 4_[+1(4.49e-05)]_68 chrV:16640560-16640640 7.11e-01 80 chrV:3455259-3455339 9.52e-01 80 chrIII:5557328-5557408 8.60e-02 80 chrIII:2031316-2031396 4.56e-02 21_[+1(1.36e-05)]_51 chrX:11993484-11993564 1.06e-01 51_[+1(4.49e-05)]_21 chrI:7657947-7658027 8.12e-01 80 chrV:16645747-16645827 6.95e-01 80 chrIV:8263991-8264071 8.73e-02 80 chrV:12744333-12744413 8.83e-01 80 chrX:14679132-14679212 1.46e-03 35_[+2(1.50e-05)]_2_[+3(7.07e-05)]_\ 27 chrV:13046359-13046439 9.07e-01 80 chrV:9078983-9079063 4.67e-01 80 chrIII:8646191-8646271 4.01e-03 21_[+4(3.64e-05)]_9_[+1(7.36e-05)]_\ 34 chrX:1272699-1272779 3.57e-01 80 chrII:14601368-14601448 3.09e-01 80 chrX:4453252-4453332 4.75e-01 80 chrV:3634823-3634903 6.12e-01 80 chrX:15241330-15241410 9.21e-05 39_[+1(1.36e-05)]_25_[+4(1.35e-05)] chrX:8945183-8945263 9.24e-03 18_[+1(8.67e-05)]_54 chrX:7176948-7177028 2.58e-01 49_[+1(4.49e-05)]_23 chrI:11584075-11584155 1.04e-03 61_[+1(1.36e-05)]_11 chrIII:5196564-5196644 4.37e-01 80 chrX:8417860-8417940 8.49e-02 66_[+1(1.36e-05)]_6 chrV:1132377-1132457 5.65e-01 80 chrX:5103640-5103720 6.94e-01 80 chrX:10666988-10667068 5.02e-02 48_[+1(1.36e-05)]_24 chrI:754657-754737 9.70e-02 80 chrI:12343541-12343621 9.79e-01 80 chrIV:7499470-7499550 2.05e-01 80 chrV:10855476-10855556 4.93e-01 80 chrIV:7486743-7486823 1.81e-02 3_[+1(8.67e-05)]_69 chrV:8230195-8230275 1.24e-03 68_[+5(2.80e-05)]_4 chrX:6522855-6522935 2.18e-02 51_[+5(1.50e-05)]_21 chrI:2076993-2077073 9.72e-01 80 chrV:14237579-14237659 7.38e-01 80 chrIV:12005542-12005622 9.84e-03 70_[+1(1.36e-05)]_2 chrIII:13626099-13626179 9.37e-01 80 chrX:11933753-11933833 8.40e-01 80 chrIII:1599098-1599178 1.29e-02 34_[+2(5.09e-05)]_38 chrX:13444420-13444500 5.47e-01 80 chrV:15515509-15515589 9.01e-02 11_[+1(7.36e-05)]_61 chrV:6045238-6045318 6.15e-01 80 chrII:10546077-10546157 4.14e-01 80 chrIV:12834086-12834166 4.75e-01 80 chrX:487828-487908 3.55e-02 2_[+3(1.23e-05)]_70 chrX:5709378-5709458 2.33e-02 80 chrII:4565336-4565416 1.34e-04 60_[+2(1.50e-05)]_[+3(1.23e-05)]_4 chrIV:10311261-10311341 6.13e-01 80 chrX:16217918-16217998 1.05e-04 24_[+4(1.35e-05)]_2_[+5(1.50e-05)]_\ 38 chrIII:1163320-1163400 2.09e-02 48_[+1(2.92e-05)]_24 chrIII:8653689-8653769 2.32e-01 80 chrX:8419440-8419520 2.84e-01 80 chrX:8149104-8149184 8.98e-01 80 chrX:12173007-12173087 5.22e-01 80 chrX:13443453-13443533 4.56e-01 80 chrI:1226492-1226572 8.28e-01 80 chrII:9740728-9740808 2.29e-01 80 chrX:8846562-8846642 8.64e-01 80 chrIII:2030975-2031055 9.98e-01 80 chrX:11163325-11163405 1.36e-01 47_[+1(1.36e-05)]_25 chrII:162371-162451 7.39e-01 80 chrIV:5086670-5086750 7.87e-01 80 chrIII:1743263-1743343 2.50e-01 80 chrIV:8481469-8481549 4.32e-01 80 chrIV:4557847-4557927 7.80e-01 80 chrIV:2664220-2664300 3.99e-02 29_[+2(5.09e-05)]_43 chrX:3567095-3567175 1.04e-01 80 chrV:15480000-15480080 4.52e-04 32_[+4(1.35e-05)]_1_[+5(1.50e-05)]_\ 31 chrIII:4362493-4362573 3.31e-01 80 chrX:14228935-14229015 6.03e-03 26_[+1(8.67e-05)]_46 chrIV:15933264-15933344 4.37e-01 80 chrI:13324198-13324278 1.78e-01 80 chrX:7906555-7906635 9.61e-02 59_[+4(7.94e-05)]_13 chrX:11791817-11791897 9.01e-01 80 chrV:8651536-8651616 9.49e-01 80 chrV:1262372-1262452 7.53e-01 80 chrX:8381809-8381889 5.37e-02 [+1(2.92e-05)]_72 chrX:3822018-3822098 9.53e-01 80 chrX:17198020-17198100 9.87e-01 80 chrI:11803327-11803407 4.71e-04 3_[+1(2.92e-05)]_5_[+3(2.31e-05)]_\ 56 chrII:12542689-12542769 5.51e-01 80 chrIV:8155041-8155121 2.16e-01 80 chrX:17135778-17135858 8.20e-01 80 chrX:2526201-2526281 5.59e-04 31_[+1(2.92e-05)]_25_[+4(5.20e-05)]_\ 8 chrX:6932302-6932382 9.24e-01 80 chrX:7898280-7898360 1.79e-02 42_[+1(1.36e-05)]_30 chrI:12954684-12954764 7.92e-01 80 chrII:7060333-7060413 7.78e-01 80 chrII:4925519-4925599 7.83e-01 80 chrV:3635022-3635102 3.87e-01 80 chrV:20499072-20499152 2.77e-01 80 chrII:13780835-13780915 9.70e-01 80 chrX:9238872-9238952 7.62e-03 7_[+3(1.23e-05)]_65 chrV:7081773-7081853 9.88e-01 80 chrII:2378697-2378777 9.03e-02 80 chrV:3588432-3588512 8.89e-01 80 chrII:2860345-2860425 8.06e-03 4_[+3(9.22e-05)]_47_[+1(7.36e-05)]_\ 13 chrII:12362417-12362497 1.82e-03 39_[+2(1.50e-05)]_2_[+3(7.07e-05)]_\ 23 chrX:1488991-1489071 4.87e-01 80 chrI:14758970-14759050 8.86e-01 80 chrII:10302172-10302252 1.15e-01 80 chrI:6943001-6943081 3.88e-01 80 chrM:5211-5291 3.62e-01 80 chrV:5588059-5588139 9.92e-01 80 chrI:4790694-4790774 3.85e-01 80 chrIII:10506473-10506553 6.37e-02 80 chrV:6551867-6551947 1.63e-01 80 chrIII:11554761-11554841 4.73e-02 71_[+2(1.50e-05)]_1 chrI:7857670-7857750 5.57e-01 80 chrIII:2733758-2733838 9.54e-01 80 chrX:11872340-11872420 9.89e-01 80 chrIII:11026790-11026870 5.68e-02 80 chrX:8819977-8820057 8.37e-01 80 chrI:10758107-10758187 6.77e-01 80 chrX:12911393-12911473 9.39e-02 80 chrX:16503110-16503190 3.15e-01 80 chrV:15192584-15192664 3.89e-01 80 chrIII:698994-699074 5.42e-02 39_[+4(6.59e-05)]_33 chrX:4007831-4007911 9.57e-01 80 chrV:20497741-20497821 8.42e-01 80 chrX:1504582-1504662 1.27e-01 22_[+3(8.29e-05)]_50 chrII:8745415-8745495 7.46e-01 80 chrIV:11284254-11284334 8.79e-01 80 chrIV:3611970-3612050 2.82e-01 35_[+4(9.15e-05)]_37 chrX:6789146-6789226 9.60e-01 80 chrIII:3112194-3112274 8.00e-01 80 chrV:6488015-6488095 8.65e-01 80 chrX:16590349-16590429 5.06e-01 80 chrX:2543467-2543547 9.02e-01 80 chrV:13043314-13043394 5.43e-01 80 chrV:6559731-6559811 3.34e-04 33_[+2(1.50e-05)]_[+3(2.31e-05)]_31 chrIV:2664943-2665023 3.48e-01 80 chrIII:5782255-5782335 2.40e-01 80 chrIV:12199783-12199863 7.67e-01 80 chrV:3697207-3697287 3.59e-01 13_[+1(7.36e-05)]_59 chrIV:13701630-13701710 4.99e-02 39_[+2(5.09e-05)]_33 chrIII:13411325-13411405 4.12e-01 80 chrIV:16775150-16775230 5.27e-01 80 chrX:16441115-16441195 6.06e-02 38_[+2(5.09e-05)]_34 chrX:3793556-3793636 1.41e-01 22_[+1(7.36e-05)]_50 chrII:12519040-12519120 5.58e-01 80 chrIII:10506256-10506336 1.26e-01 80 chrIV:15187702-15187782 6.04e-01 80 chrIII:5550953-5551033 9.84e-01 80 chrI:12919305-12919385 9.15e-01 80 chrII:14617053-14617133 4.39e-02 43_[+3(4.44e-05)]_29 chrV:724770-724850 5.55e-01 80 chrX:15146546-15146626 3.05e-02 30_[+1(2.92e-05)]_42 chrIII:5553252-5553332 7.25e-01 80 chrIV:5664698-5664778 2.29e-01 80 chrV:12935064-12935144 2.27e-01 80 chrX:15842607-15842687 8.66e-01 80 chrX:13714887-13714967 1.04e-04 8_[+2(1.50e-05)]_1_[+3(1.23e-05)]_\ 55 chrV:17542491-17542571 5.58e-04 13_[+4(1.35e-05)]_2_[+5(1.50e-05)]_\ 49 chrX:8640781-8640861 3.50e-03 27_[+1(2.92e-05)]_45 chrV:18412503-18412583 2.34e-06 27_[+4(1.35e-05)]_1_[+5(1.50e-05)]_\ 9_[+3(1.23e-05)]_19 chrM:3303-3383 9.48e-01 80 chrIII:5506068-5506148 1.49e-01 80 chrIV:2657490-2657570 6.92e-01 80 chrV:16648773-16648853 1.28e-01 80 chrV:910716-910796 1.42e-01 80 chrV:17687569-17687649 4.67e-02 27_[+5(5.26e-05)]_45 chrII:4857920-4858000 4.74e-01 80 chrX:7681012-7681092 4.99e-02 57_[+4(7.94e-05)]_15 chrX:4410667-4410747 4.54e-02 14_[+4(7.94e-05)]_58 chrX:16618262-16618342 1.23e-01 80 chrIV:4047860-4047940 2.48e-01 80 chrV:19050757-19050837 2.97e-01 80 chrIV:13026873-13026953 4.24e-03 80 chrIV:5038891-5038971 3.55e-04 36_[+2(1.50e-05)]_1_[+3(1.23e-05)]_\ 27 chrX:9237813-9237893 8.32e-05 5_[+2(1.50e-05)]_[+3(1.23e-05)]_59 chrX:10124525-10124605 6.95e-01 80 chrI:3638872-3638952 1.60e-02 37_[+5(2.80e-05)]_35 chrII:7944575-7944655 4.61e-01 80 chrIV:2808384-2808464 9.50e-01 80 chrV:13907861-13907941 1.58e-01 80 chrV:10887688-10887768 7.93e-01 80 chrX:8022870-8022950 7.75e-01 80 chrV:2664709-2664789 1.88e-03 5_[+4(3.64e-05)]_1_[+5(4.12e-05)]_\ 58 chrII:6591093-6591173 9.55e-01 80 chrIII:6850384-6850464 4.34e-01 80 chrX:3290282-3290362 5.56e-01 80 chrV:10333951-10334031 8.86e-01 80 chrX:16299359-16299439 8.21e-01 80 chrI:6163496-6163576 6.65e-05 22_[+4(5.20e-05)]_3_[+5(1.50e-05)]_\ 39 chrIII:10537676-10537756 5.89e-01 80 chrIV:16503742-16503822 2.32e-01 80 chrII:9713199-9713279 8.30e-03 72_[+4(2.52e-05)] chrI:7578690-7578770 9.91e-02 54_[+4(7.94e-05)]_18 chrX:5451194-5451274 2.09e-06 24_[+1(1.36e-05)]_25_[+4(1.35e-05)]_\ 2_[+5(1.50e-05)]_5 chrV:20347801-20347881 2.53e-03 10_[+1(4.49e-05)]_62 chrIV:3012525-3012605 8.94e-01 80 chrX:8838355-8838435 4.02e-01 80 chrV:6335364-6335444 7.74e-04 41_[+2(1.50e-05)]_[+3(2.31e-05)]_23 chrX:16192758-16192838 4.87e-01 80 chrX:13261183-13261263 4.10e-04 27_[+2(2.76e-05)]_[+3(2.31e-05)]_37 chrV:3686085-3686165 6.61e-01 80 chrX:13308015-13308095 2.81e-01 80 chrX:1489984-1490064 9.08e-01 80 chrX:10148606-10148686 1.55e-01 57_[+1(2.92e-05)]_15 chrIII:1214834-1214914 2.91e-01 2_[+4(9.15e-05)]_70 chrX:9024386-9024466 4.22e-01 80 chrV:15767563-15767643 2.98e-02 80 chrV:19521334-19521414 3.47e-02 44_[+3(5.62e-05)]_28 chrX:8939583-8939663 1.85e-01 29_[+1(7.36e-05)]_43 chrIII:1002707-1002787 5.89e-01 80 chrIV:12689847-12689927 8.95e-01 80 chrV:10161151-10161231 8.86e-01 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n06.farnam.hpc.yale.internal ********************************************************************************