******************************************************************************** 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-21.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrII:9033122-9033202 1.0000 80 chrII:13145380-13145460 1.0000 80 chrII:2399920-2400000 1.0000 80 chrII:11843587-11843667 1.0000 80 chrV:3610853-3610933 1.0000 80 chrV:3980717-3980797 1.0000 80 chrI:9084225-9084305 1.0000 80 chrI:7213715-7213795 1.0000 80 chrII:7545548-7545628 1.0000 80 chrI:8987287-8987367 1.0000 80 chrII:7279899-7279979 1.0000 80 chrI:529568-529648 1.0000 80 chrIII:7305720-7305800 1.0000 80 chrIV:11702004-11702084 1.0000 80 chrII:8731130-8731210 1.0000 80 chrIV:14613556-14613636 1.0000 80 chrX:5148581-5148661 1.0000 80 chrI:9330890-9330970 1.0000 80 chrI:429237-429317 1.0000 80 chrIII:7115147-7115227 1.0000 80 chrII:3241961-3242041 1.0000 80 chrII:4866231-4866311 1.0000 80 chrII:11502165-11502245 1.0000 80 chrII:14004899-14004979 1.0000 80 chrX:5787835-5787915 1.0000 80 chrII:6379222-6379302 1.0000 80 chrV:7543889-7543969 1.0000 80 chrX:15159112-15159192 1.0000 80 chrX:4102385-4102465 1.0000 80 chrIII:5096882-5096962 1.0000 80 chrX:7594319-7594399 1.0000 80 chrV:16211854-16211934 1.0000 80 chrV:8238422-8238502 1.0000 80 chrX:8504370-8504450 1.0000 80 chrII:6712485-6712565 1.0000 80 chrIV:4216290-4216370 1.0000 80 chrV:5701319-5701399 1.0000 80 chrV:3874507-3874587 1.0000 80 chrX:11064873-11064953 1.0000 80 chrI:10174859-10174939 1.0000 80 chrX:6179124-6179204 1.0000 80 chrV:12550173-12550253 1.0000 80 chrII:8731893-8731973 1.0000 80 chrIII:9646596-9646676 1.0000 80 chrII:8854138-8854218 1.0000 80 chrIV:5706854-5706934 1.0000 80 chrI:7756827-7756907 1.0000 80 chrIV:8027444-8027524 1.0000 80 chrIV:12711136-12711216 1.0000 80 chrV:10940190-10940270 1.0000 80 chrX:17417757-17417837 1.0000 80 chrV:12295144-12295224 1.0000 80 chrIV:14089914-14089994 1.0000 80 chrV:5693744-5693824 1.0000 80 chrIV:13111030-13111110 1.0000 80 chrII:9344123-9344203 1.0000 80 chrX:13357816-13357896 1.0000 80 chrV:7774260-7774340 1.0000 80 chrIV:12403580-12403660 1.0000 80 chrX:2303459-2303539 1.0000 80 chrIII:2633118-2633198 1.0000 80 chrV:12199647-12199727 1.0000 80 chrV:8040823-8040903 1.0000 80 chrIII:6145470-6145550 1.0000 80 chrI:6206734-6206814 1.0000 80 chrII:12053703-12053783 1.0000 80 chrX:6664231-6664311 1.0000 80 chrV:16779077-16779157 1.0000 80 chrX:17421306-17421386 1.0000 80 chrV:11795480-11795560 1.0000 80 chrIV:11897843-11897923 1.0000 80 chrIV:6655914-6655994 1.0000 80 chrI:13064054-13064134 1.0000 80 chrX:5340293-5340373 1.0000 80 chrI:5874109-5874189 1.0000 80 chrX:7536283-7536363 1.0000 80 chrV:1789643-1789723 1.0000 80 chrV:11147877-11147957 1.0000 80 chrIV:10682339-10682419 1.0000 80 chrIII:5089639-5089719 1.0000 80 chrI:5010046-5010126 1.0000 80 chrV:13606965-13607045 1.0000 80 chrIII:5465005-5465085 1.0000 80 chrX:11059850-11059930 1.0000 80 chrII:4562647-4562727 1.0000 80 chrX:5645808-5645888 1.0000 80 chrII:8820787-8820867 1.0000 80 chrII:12622329-12622409 1.0000 80 chrX:8485528-8485608 1.0000 80 chrII:7977673-7977753 1.0000 80 chrIV:10784271-10784351 1.0000 80 chrII:8822853-8822933 1.0000 80 chrX:13941384-13941464 1.0000 80 chrX:5387771-5387851 1.0000 80 chrX:2144419-2144499 1.0000 80 chrV:13993589-13993669 1.0000 80 chrII:8338301-8338381 1.0000 80 chrV:18003998-18004078 1.0000 80 chrIV:14869986-14870066 1.0000 80 chrX:10594196-10594276 1.0000 80 chrI:12500592-12500672 1.0000 80 chrX:9547291-9547371 1.0000 80 chrV:13243390-13243470 1.0000 80 chrIV:13682901-13682981 1.0000 80 chrV:12537659-12537739 1.0000 80 chrIII:5921460-5921540 1.0000 80 chrX:12793234-12793314 1.0000 80 chrII:7278076-7278156 1.0000 80 chrII:8820588-8820668 1.0000 80 chrII:13618035-13618115 1.0000 80 chrII:8440991-8441071 1.0000 80 chrII:14825532-14825612 1.0000 80 chrX:11057226-11057306 1.0000 80 chrIV:10689132-10689212 1.0000 80 chrII:8345828-8345908 1.0000 80 chrV:11801530-11801610 1.0000 80 chrV:13389573-13389653 1.0000 80 chrV:3870514-3870594 1.0000 80 chrV:11859223-11859303 1.0000 80 chrI:4328948-4329028 1.0000 80 chrII:10925941-10926021 1.0000 80 chrII:14844394-14844474 1.0000 80 chrII:13148383-13148463 1.0000 80 chrX:6515398-6515478 1.0000 80 chrII:5853390-5853470 1.0000 80 chrX:9938232-9938312 1.0000 80 chrIV:13109918-13109998 1.0000 80 chrII:11852343-11852423 1.0000 80 chrIII:9698727-9698807 1.0000 80 chrV:3606560-3606640 1.0000 80 chrX:7587928-7588008 1.0000 80 chrV:4524490-4524570 1.0000 80 chrIV:8254372-8254452 1.0000 80 chrX:11062034-11062114 1.0000 80 chrIII:7273868-7273948 1.0000 80 chrII:13680041-13680121 1.0000 80 chrV:8661392-8661472 1.0000 80 chrV:6354326-6354406 1.0000 80 chrII:9115816-9115896 1.0000 80 chrX:5628557-5628637 1.0000 80 chrII:542662-542742 1.0000 80 chrII:7531635-7531715 1.0000 80 chrIV:10779034-10779114 1.0000 80 chrI:3724777-3724857 1.0000 80 chrX:5835270-5835350 1.0000 80 chrX:16556912-16556992 1.0000 80 chrX:5630124-5630204 1.0000 80 chrI:13055037-13055117 1.0000 80 chrX:6876431-6876511 1.0000 80 chrIII:7199628-7199708 1.0000 80 chrII:8817445-8817525 1.0000 80 chrII:12053016-12053096 1.0000 80 chrV:4523523-4523603 1.0000 80 chrX:17211673-17211753 1.0000 80 chrX:11533778-11533858 1.0000 80 chrIV:10261211-10261291 1.0000 80 chrI:13061240-13061320 1.0000 80 chrII:7631323-7631403 1.0000 80 chrIII:8122066-8122146 1.0000 80 chrX:9403804-9403884 1.0000 80 chrX:9402169-9402249 1.0000 80 chrI:12501460-12501540 1.0000 80 chrX:13325186-13325266 1.0000 80 chrX:504211-504291 1.0000 80 chrI:5433029-5433109 1.0000 80 chrX:15079515-15079595 1.0000 80 chrIII:8504389-8504469 1.0000 80 chrV:8039365-8039445 1.0000 80 chrX:2031536-2031616 1.0000 80 chrII:13150163-13150243 1.0000 80 chrIV:13077857-13077937 1.0000 80 chrV:3856073-3856153 1.0000 80 chrX:12781936-12782016 1.0000 80 chrII:8751108-8751188 1.0000 80 chrIII:6993307-6993387 1.0000 80 chrII:13675393-13675473 1.0000 80 chrV:12551990-12552070 1.0000 80 chrIV:9535245-9535325 1.0000 80 chrII:12625827-12625907 1.0000 80 chrII:6713941-6714021 1.0000 80 chrIII:3435312-3435392 1.0000 80 chrV:13413560-13413640 1.0000 80 chrV:14660769-14660849 1.0000 80 chrII:8818472-8818552 1.0000 80 chrIV:1859530-1859610 1.0000 80 chrI:6075085-6075165 1.0000 80 chrIII:6216121-6216201 1.0000 80 chrV:12549035-12549115 1.0000 80 chrI:12497128-12497208 1.0000 80 chrX:10668071-10668151 1.0000 80 chrX:11534622-11534702 1.0000 80 chrII:7287870-7287950 1.0000 80 chrIV:14096607-14096687 1.0000 80 chrII:3437089-3437169 1.0000 80 chrII:13293075-13293155 1.0000 80 chrX:15380631-15380711 1.0000 80 chrII:6716041-6716121 1.0000 80 chrX:12425545-12425625 1.0000 80 chrII:14838748-14838828 1.0000 80 chrIII:12849393-12849473 1.0000 80 chrX:3837828-3837908 1.0000 80 chrII:12050757-12050837 1.0000 80 chrX:4520138-4520218 1.0000 80 chrX:13541548-13541628 1.0000 80 chrX:6201652-6201732 1.0000 80 chrV:12556984-12557064 1.0000 80 chrI:7212122-7212202 1.0000 80 chrI:8801975-8802055 1.0000 80 chrX:15374956-15375036 1.0000 80 chrX:17212862-17212942 1.0000 80 chrV:16213453-16213533 1.0000 80 chrIV:11883592-11883672 1.0000 80 chrIV:14677293-14677373 1.0000 80 chrIII:482920-483000 1.0000 80 chrII:13681216-13681296 1.0000 80 chrIV:10782147-10782227 1.0000 80 chrI:8983951-8984031 1.0000 80 chrIV:5764503-5764583 1.0000 80 chrIV:9672601-9672681 1.0000 80 chrIV:9510594-9510674 1.0000 80 chrIII:7897905-7897985 1.0000 80 chrX:9536204-9536284 1.0000 80 chrII:8813777-8813857 1.0000 80 chrV:12298714-12298794 1.0000 80 chrX:2893260-2893340 1.0000 80 chrV:5823145-5823225 1.0000 80 chrX:10431103-10431183 1.0000 80 chrX:11502424-11502504 1.0000 80 chrIV:8864801-8864881 1.0000 80 chrX:12835027-12835107 1.0000 80 chrII:4821928-4822008 1.0000 80 chrX:15375485-15375565 1.0000 80 chrX:14503459-14503539 1.0000 80 chrX:13544756-13544836 1.0000 80 chrX:11061018-11061098 1.0000 80 chrX:9409325-9409405 1.0000 80 chrV:9085923-9086003 1.0000 80 chrV:6514153-6514233 1.0000 80 chrIV:4235750-4235830 1.0000 80 chrX:5631193-5631273 1.0000 80 chrIV:11899593-11899673 1.0000 80 chrIII:5948568-5948648 1.0000 80 chrX:11478877-11478957 1.0000 80 chrI:9332604-9332684 1.0000 80 chrIII:7201516-7201596 1.0000 80 chrII:11372145-11372225 1.0000 80 chrX:4138949-4139029 1.0000 80 chrIII:5468130-5468210 1.0000 80 chrII:12051792-12051872 1.0000 80 chrII:5335489-5335569 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-21/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/nhr-21.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 0.3 C 0.208 G 0.203 T 0.29 Background letter frequencies (from file dataset with add-one prior applied): A 0.3 C 0.208 G 0.203 T 0.29 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GCGYGCGC MEME-1 width = 8 sites = 10 llr = 106 E-value = 1.8e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCGYGCGC MEME-1 Description -------------------------------------------------------------------------------- Simplified A ::2::::: pos.-specific C :8:5:a:a probability G a18:a:a: matrix T :1:5:::: bits 2.3 * **** 2.1 * **** 1.8 * **** 1.6 * **** Relative 1.4 *** **** Entropy 1.2 *** **** (15.2 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GCGCGCGC consensus AT sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGYGCGC MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrI:8983951-8984031 39 3.18e-06 GGTCAGTAGT GCGCGCGC ATGACGGTCT chrV:1789643-1789723 69 3.18e-06 ATATGTTGAC GCGCGCGC ATGC chrIV:6655914-6655994 22 3.18e-06 ATCCGCCCGC GCGCGCGC ATGATGACGC chrI:529568-529648 24 3.18e-06 ATGAAAAATC GCGCGCGC CCGCCCGCGC chrIV:11883592-11883672 35 7.61e-06 TCGATCGGTT GCGTGCGC AATACTGTCC chrIII:6145470-6145550 41 7.61e-06 TGTGTCCGAG GCGTGCGC GATATTGATT chrX:5645808-5645888 45 1.23e-05 TGAAGAAAAT GCACGCGC CTGGACAGTG chrX:9402169-9402249 9 2.20e-05 CCTCCGAC GCATGCGC GTTCGGTGCG chrX:9547291-9547371 9 3.07e-05 TTCTGATT GGGTGCGC TGATGATGTG chrI:3724777-3724857 38 3.69e-05 CCCGAAGGTG GTGTGCGC ATGAATCTGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGYGCGC MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:8983951-8984031 3.2e-06 38_[+1]_34 chrV:1789643-1789723 3.2e-06 68_[+1]_4 chrIV:6655914-6655994 3.2e-06 21_[+1]_51 chrI:529568-529648 3.2e-06 23_[+1]_49 chrIV:11883592-11883672 7.6e-06 34_[+1]_38 chrIII:6145470-6145550 7.6e-06 40_[+1]_32 chrX:5645808-5645888 1.2e-05 44_[+1]_28 chrX:9402169-9402249 2.2e-05 8_[+1]_64 chrX:9547291-9547371 3.1e-05 8_[+1]_64 chrI:3724777-3724857 3.7e-05 37_[+1]_35 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGYGCGC MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCGYGCGC width=8 seqs=10 chrI:8983951-8984031 ( 39) GCGCGCGC 1 chrV:1789643-1789723 ( 69) GCGCGCGC 1 chrIV:6655914-6655994 ( 22) GCGCGCGC 1 chrI:529568-529648 ( 24) GCGCGCGC 1 chrIV:11883592-11883672 ( 35) GCGTGCGC 1 chrIII:6145470-6145550 ( 41) GCGTGCGC 1 chrX:5645808-5645888 ( 45) GCACGCGC 1 chrX:9402169-9402249 ( 9) GCATGCGC 1 chrX:9547291-9547371 ( 9) GGGTGCGC 1 chrI:3724777-3724857 ( 38) GTGTGCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGYGCGC MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.7767 E= 1.8e+002 -997 -997 230 -997 -997 194 -102 -153 -58 -997 198 -997 -997 127 -997 79 -997 -997 230 -997 -997 227 -997 -997 -997 -997 230 -997 -997 227 -997 -997 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGYGCGC MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 1.8e+002 0.000000 0.000000 1.000000 0.000000 0.000000 0.800000 0.100000 0.100000 0.200000 0.000000 0.800000 0.000000 0.000000 0.500000 0.000000 0.500000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGYGCGC MEME-1 regular expression -------------------------------------------------------------------------------- GC[GA][CT]GCGC -------------------------------------------------------------------------------- Time 8.62 secs. ******************************************************************************** ******************************************************************************** MOTIF GARAARAR MEME-2 width = 8 sites = 55 llr = 417 E-value = 2.7e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GARAARAR MEME-2 Description -------------------------------------------------------------------------------- Simplified A :a4a8577 pos.-specific C :::::::: probability G a:6:2533 matrix T :::::::: bits 2.3 * 2.1 * 1.8 ** * 1.6 ** * Relative 1.4 ** * Entropy 1.2 ***** (10.9 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GAGAAAAA consensus A GGGG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARAARAR MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:15375485-15375565 64 2.03e-05 AGATACAGAA GAGAAGAA AACGGATAA chrII:6713941-6714021 51 2.03e-05 TCCTTTTCAG GAGAAGAA CCTTTCTTAT chrI:13061240-13061320 46 2.03e-05 GAAAGAAAAA GAGAAGAA TGACAGCGAT chrX:5340293-5340373 1 2.03e-05 . GAGAAGAA GCTGATAAAC chrX:13544756-13544836 33 6.41e-05 GAGAAGAGTA GAGAAAAA CATTGAAAAA chrX:15380631-15380711 37 6.41e-05 GCCTTTGTGA GAGAAGAG TTCATGATCT chrV:12551990-12552070 27 6.41e-05 CATTTGTTCG GAGAAAAA AGTATCTGAG chrIV:13109918-13109998 44 6.41e-05 GTGATTGAGA GAGAAAAA GACACGTGAT chrII:14825532-14825612 20 6.41e-05 TGTTCAAAAA GAGAAAAA ACGAACAGAA chrV:13243390-13243470 33 6.41e-05 TCCGAGGGGC GAGAAGAG TGCAAACGCA chrV:3874507-3874587 60 6.41e-05 CAACTATTCC GAGAAAAA AGAATTCAAT chrII:8731130-8731210 52 6.41e-05 AATTGAAAAC GAGAAGAG TCCGGTGTGA chrII:13150163-13150243 65 7.79e-05 GATGATAATC GAGAAGGA CAAGCTAG chrX:6515398-6515478 34 7.79e-05 GGGAATACGA GAGAAGGA AAAGGCCACC chrV:13606965-13607045 59 7.79e-05 CGGAAGGAAC gagaagga ggaggaggag chrI:5433029-5433109 45 9.82e-05 CAGAGACTTT GAGAAAAG TTTTAAAGAT chrV:7774260-7774340 47 9.82e-05 CGACGGCATC GAGAAAAG AATCGCCAAG chrX:8504370-8504450 46 9.82e-05 TCCTAATGTT GAGAAAAG ACAGAGGGTA chrV:16213453-16213533 57 1.28e-04 GAGAGATATT GAGAAAGA TCGGTTCGGT chrII:12050757-12050837 71 1.28e-04 GAAAATAGAA GAGAAAGA GA chrV:3856073-3856153 58 1.28e-04 TTGTACTTCT GAGAAAGA CATAAATCAC chrII:13148383-13148463 68 1.28e-04 ATTGCAAAGA GAGAAGGG AATAA chrV:8040823-8040903 55 1.28e-04 AGATGGATCA GAGAAAGA TCTCGATCTT chrX:13325186-13325266 34 1.58e-04 AATCAAACGC GAAAAGAA CAGATAGACT chrII:7278076-7278156 18 1.58e-04 TCTTGATAGT GAAAAGAA AAAGACGTAA chrII:8854138-8854218 26 1.58e-04 AAGAAGCAGG GAAAAGAA GATTCATTCA chrI:7213715-7213795 21 1.58e-04 CTATTTCTCG GAAAAGAA TCGGATGACA chrII:7545548-7545628 6 1.72e-04 TAAAG GAGAAAGG ATGGGGAAAG chrIII:5468130-5468210 32 2.50e-04 AGATAAAAAA GAAAAGAG ATGGCGTCGT chrIV:14096607-14096687 73 2.50e-04 TTGCTCAATT GAAAAAAA chrIV:9535245-9535325 46 2.50e-04 TTAGAGATAT GAGAGGAA ATCTAGATGA chrI:12501460-12501540 16 2.50e-04 AATTGAAGAA GAAAAGAG ATTTTCAAAG chrIV:10689132-10689212 47 2.50e-04 TGTGATTTCT GAAAAAAA GAAGCATGAA chrV:18003998-18004078 70 2.50e-04 ACCGAACCAA GAAAAAAA AAC chrIII:7115147-7115227 7 2.50e-04 TTCTTG GAAAAAAA TCGTTGATTA chrII:13293075-13293155 16 3.30e-04 GACCAAAAAA GAAAAAAG AAAAAAGAGA chrX:9403804-9403884 70 3.30e-04 CAACTTTAGC GAAAAAAG GGT chrIV:10261211-10261291 63 3.30e-04 AAAAATAGGT GAAAAAAG ATAAGGAAAG chrX:15159112-15159192 49 3.30e-04 GATATCAAAC GAAAAAAG AACGAAAACT chrV:3980717-3980797 43 3.30e-04 TGGCATTTTA GAGAGGAG TATGATCTGA chrII:4821928-4822008 58 3.83e-04 ATGAAAGAGA GAGAGGGA TGGATAAGAA chrII:3437089-3437169 43 3.83e-04 CTGAGAGAGA GAGAGGGA TGCTTCTTGT chrIII:9698727-9698807 13 3.83e-04 AACACGCGAA GAAAAAGA TGTTCTCGTG chrIII:5465005-5465085 69 3.83e-04 GAAGATATAA GAGAGGGA AGTC chrI:6206734-6206814 21 3.83e-04 AAACGACCTG GAAAAAGA ACGTTGAATT chrX:6179124-6179204 25 3.83e-04 GTGAAGATAT GAAAAAGA ATCAACAAAA chrIV:13682901-13682981 66 3.97e-04 ATCTCTCACC GAGAGAAG ATATTAT chrII:8731893-8731973 73 3.97e-04 ATCATCCGAA GAGAGAAG chrX:8485528-8485608 4 4.37e-04 GCA GAAAAAGG ACACGTATCA chrII:6716041-6716121 45 4.58e-04 AAACGAGATA GAAAGGAA AATAGCAATT chrII:8751108-8751188 51 4.58e-04 gcatgaaagc gaaaggaa agtgaaaACA chrII:14844394-14844474 30 5.11e-04 AGAGATTCAT GAAAGAAA AATTTGATAA chrI:7212122-7212202 32 5.25e-04 CTGATCGCCG GAAAGGGA AAACTGCCGT chrIV:14089914-14089994 52 5.45e-04 CTAAGATATC GAAAGAAG GTAAGTCGGT chrIII:7199628-7199708 44 5.75e-04 ATGATAACGT GAAAGAGA CTTTCAAAAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARAARAR MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:15375485-15375565 2e-05 63_[+2]_9 chrII:6713941-6714021 2e-05 50_[+2]_22 chrI:13061240-13061320 2e-05 45_[+2]_27 chrX:5340293-5340373 2e-05 [+2]_72 chrX:13544756-13544836 6.4e-05 32_[+2]_40 chrX:15380631-15380711 6.4e-05 36_[+2]_36 chrV:12551990-12552070 6.4e-05 26_[+2]_46 chrIV:13109918-13109998 6.4e-05 43_[+2]_29 chrII:14825532-14825612 6.4e-05 19_[+2]_53 chrV:13243390-13243470 6.4e-05 32_[+2]_40 chrV:3874507-3874587 6.4e-05 59_[+2]_13 chrII:8731130-8731210 6.4e-05 51_[+2]_21 chrII:13150163-13150243 7.8e-05 64_[+2]_8 chrX:6515398-6515478 7.8e-05 33_[+2]_39 chrV:13606965-13607045 7.8e-05 58_[+2]_14 chrI:5433029-5433109 9.8e-05 44_[+2]_28 chrV:7774260-7774340 9.8e-05 46_[+2]_26 chrX:8504370-8504450 9.8e-05 45_[+2]_27 chrV:16213453-16213533 0.00013 56_[+2]_16 chrII:12050757-12050837 0.00013 70_[+2]_2 chrV:3856073-3856153 0.00013 57_[+2]_15 chrII:13148383-13148463 0.00013 67_[+2]_5 chrV:8040823-8040903 0.00013 54_[+2]_18 chrX:13325186-13325266 0.00016 33_[+2]_39 chrII:7278076-7278156 0.00016 17_[+2]_55 chrII:8854138-8854218 0.00016 25_[+2]_47 chrI:7213715-7213795 0.00016 20_[+2]_52 chrII:7545548-7545628 0.00017 5_[+2]_67 chrIII:5468130-5468210 0.00025 31_[+2]_41 chrIV:14096607-14096687 0.00025 72_[+2] chrIV:9535245-9535325 0.00025 45_[+2]_27 chrI:12501460-12501540 0.00025 15_[+2]_57 chrIV:10689132-10689212 0.00025 46_[+2]_26 chrV:18003998-18004078 0.00025 69_[+2]_3 chrIII:7115147-7115227 0.00025 6_[+2]_66 chrII:13293075-13293155 0.00033 15_[+2]_57 chrX:9403804-9403884 0.00033 69_[+2]_3 chrIV:10261211-10261291 0.00033 62_[+2]_10 chrX:15159112-15159192 0.00033 48_[+2]_24 chrV:3980717-3980797 0.00033 42_[+2]_30 chrII:4821928-4822008 0.00038 57_[+2]_15 chrII:3437089-3437169 0.00038 42_[+2]_30 chrIII:9698727-9698807 0.00038 12_[+2]_60 chrIII:5465005-5465085 0.00038 68_[+2]_4 chrI:6206734-6206814 0.00038 20_[+2]_52 chrX:6179124-6179204 0.00038 24_[+2]_48 chrIV:13682901-13682981 0.0004 65_[+2]_7 chrII:8731893-8731973 0.0004 72_[+2] chrX:8485528-8485608 0.00044 3_[+2]_69 chrII:6716041-6716121 0.00046 44_[+2]_28 chrII:8751108-8751188 0.00046 50_[+2]_22 chrII:14844394-14844474 0.00051 29_[+2]_43 chrI:7212122-7212202 0.00052 31_[+2]_41 chrIV:14089914-14089994 0.00054 51_[+2]_21 chrIII:7199628-7199708 0.00057 43_[+2]_29 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARAARAR MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GARAARAR width=8 seqs=55 chrX:15375485-15375565 ( 64) GAGAAGAA 1 chrII:6713941-6714021 ( 51) GAGAAGAA 1 chrI:13061240-13061320 ( 46) GAGAAGAA 1 chrX:5340293-5340373 ( 1) GAGAAGAA 1 chrX:13544756-13544836 ( 33) GAGAAAAA 1 chrX:15380631-15380711 ( 37) GAGAAGAG 1 chrV:12551990-12552070 ( 27) GAGAAAAA 1 chrIV:13109918-13109998 ( 44) GAGAAAAA 1 chrII:14825532-14825612 ( 20) GAGAAAAA 1 chrV:13243390-13243470 ( 33) GAGAAGAG 1 chrV:3874507-3874587 ( 60) GAGAAAAA 1 chrII:8731130-8731210 ( 52) GAGAAGAG 1 chrII:13150163-13150243 ( 65) GAGAAGGA 1 chrX:6515398-6515478 ( 34) GAGAAGGA 1 chrV:13606965-13607045 ( 59) GAGAAGGA 1 chrI:5433029-5433109 ( 45) GAGAAAAG 1 chrV:7774260-7774340 ( 47) GAGAAAAG 1 chrX:8504370-8504450 ( 46) GAGAAAAG 1 chrV:16213453-16213533 ( 57) GAGAAAGA 1 chrII:12050757-12050837 ( 71) GAGAAAGA 1 chrV:3856073-3856153 ( 58) GAGAAAGA 1 chrII:13148383-13148463 ( 68) GAGAAGGG 1 chrV:8040823-8040903 ( 55) GAGAAAGA 1 chrX:13325186-13325266 ( 34) GAAAAGAA 1 chrII:7278076-7278156 ( 18) GAAAAGAA 1 chrII:8854138-8854218 ( 26) GAAAAGAA 1 chrI:7213715-7213795 ( 21) GAAAAGAA 1 chrII:7545548-7545628 ( 6) GAGAAAGG 1 chrIII:5468130-5468210 ( 32) GAAAAGAG 1 chrIV:14096607-14096687 ( 73) GAAAAAAA 1 chrIV:9535245-9535325 ( 46) GAGAGGAA 1 chrI:12501460-12501540 ( 16) GAAAAGAG 1 chrIV:10689132-10689212 ( 47) GAAAAAAA 1 chrV:18003998-18004078 ( 70) GAAAAAAA 1 chrIII:7115147-7115227 ( 7) GAAAAAAA 1 chrII:13293075-13293155 ( 16) GAAAAAAG 1 chrX:9403804-9403884 ( 70) GAAAAAAG 1 chrIV:10261211-10261291 ( 63) GAAAAAAG 1 chrX:15159112-15159192 ( 49) GAAAAAAG 1 chrV:3980717-3980797 ( 43) GAGAGGAG 1 chrII:4821928-4822008 ( 58) GAGAGGGA 1 chrII:3437089-3437169 ( 43) GAGAGGGA 1 chrIII:9698727-9698807 ( 13) GAAAAAGA 1 chrIII:5465005-5465085 ( 69) GAGAGGGA 1 chrI:6206734-6206814 ( 21) GAAAAAGA 1 chrX:6179124-6179204 ( 25) GAAAAAGA 1 chrIV:13682901-13682981 ( 66) GAGAGAAG 1 chrII:8731893-8731973 ( 73) GAGAGAAG 1 chrX:8485528-8485608 ( 4) GAAAAAGG 1 chrII:6716041-6716121 ( 45) GAAAGGAA 1 chrII:8751108-8751188 ( 51) GAAAGGAA 1 chrII:14844394-14844474 ( 30) GAAAGAAA 1 chrI:7212122-7212202 ( 32) GAAAGGGA 1 chrIV:14089914-14089994 ( 52) GAAAGAAG 1 chrIII:7199628-7199708 ( 44) GAAAGAGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARAARAR MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.3267 E= 2.7e-003 -1243 -1243 230 -1243 174 -1243 -1243 -1243 54 -1243 147 -1243 174 -1243 -1243 -1243 135 -1243 22 -1243 86 -1243 116 -1243 117 -1243 69 -1243 113 -1243 77 -1243 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARAARAR MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 55 E= 2.7e-003 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.436364 0.000000 0.563636 0.000000 1.000000 0.000000 0.000000 0.000000 0.763636 0.000000 0.236364 0.000000 0.545455 0.000000 0.454545 0.000000 0.672727 0.000000 0.327273 0.000000 0.654545 0.000000 0.345455 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GARAARAR MEME-2 regular expression -------------------------------------------------------------------------------- GA[GA]A[AG][AG][AG][AG] -------------------------------------------------------------------------------- Time 12.40 secs. ******************************************************************************** ******************************************************************************** MOTIF TCACGTGA MEME-3 width = 8 sites = 31 llr = 255 E-value = 4.5e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif TCACGTGA MEME-3 Description -------------------------------------------------------------------------------- Simplified A 1:9:2::7 pos.-specific C 29:8:::: probability G :11:8:a3 matrix T 7::2:a:: bits 2.3 * 2.1 * 1.8 * * 1.6 * *** Relative 1.4 ****** Entropy 1.2 ****** (11.9 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TCACGTGA consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCACGTGA MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:5835270-5835350 42 1.35e-05 TGGTCTCATA TCACGTGA AGGATCACTT chrV:11859223-11859303 25 1.35e-05 ATTCCATTGA TCACGTGA TATCCGTTCA chrX:5645808-5645888 25 1.35e-05 GTATCAGTCT TCACGTGA AATGAAGAAA chrV:11795480-11795560 23 1.35e-05 GTGTTTTGTT TCACGTGA ATATGGTATT chrI:8987287-8987367 55 1.35e-05 TTTTTGCAGT TCACGTGA TTCTCTAATG chrX:5628557-5628637 20 2.26e-05 TCCCCATACG TCACGTGG CCTCAGAAGG chrII:12622329-12622409 49 2.26e-05 AAGGATCCGG TCACGTGG TGGATGTCAA chrII:13145380-13145460 59 2.26e-05 TGTGTTCATA TCACGTGG AATGCGCATT chrII:7287870-7287950 65 3.23e-05 GATAGTGTTT CCACGTGA TGGACAAT chrII:12625827-12625907 60 3.23e-05 TGTTTGGTCG CCACGTGA TCTTGCAAAA chrI:9332604-9332684 17 3.89e-05 CAGGTCAAAT CCACGTGG AGTTATCTCA chrX:2893260-2893340 13 5.77e-05 TCGACGACTA TCATGTGA AATATATGTG chrIII:12849393-12849473 56 5.77e-05 CCTTTTAGTT TCATGTGA CAGTGAAGAC chrII:13680041-13680121 55 7.76e-05 CACGTGTCGT TCACATGA GATGTCCTTT chrII:7977673-7977753 24 7.76e-05 TCATTCTCTA TCACATGA TATATTTAGA chrV:5693744-5693824 46 7.76e-05 ATAATGCCCA TCACATGA CAACATGTTT chrV:10940190-10940270 9 7.76e-05 CGTGTTGT TCACATGA TTATATTGCC chrII:7279899-7279979 15 7.76e-05 TCTTTTCTGG TCACATGA GACCCTAGAT chrX:3837828-3837908 17 9.99e-05 TAGACCGGTT TCGCgtga gtgtgtgtgt chrI:13061240-13061320 26 9.99e-05 AGAGAAGATA TGACGTGA TTGAAAGAAA chrX:11502424-11502504 14 1.13e-04 TCAATCGTCT TCATGTGG AACACCGCCA chrX:9938232-9938312 10 1.13e-04 AAGACTCAG TCATGTGG CCGGTCGGCC chrIV:13109918-13109998 53 1.27e-04 AGAGAAAAAG ACACGTGA TAAGGATTAT chrIV:5764503-5764583 53 1.55e-04 AACCCTCTCT TCGCGTGG TATATTCCCC chrI:13064054-13064134 39 1.55e-04 CACCTTTCGG TGACGTGG CAGAACTGCC chrV:3606560-3606640 48 1.69e-04 AGCATGACGG CCATGTGA TCATTTTGCA chrII:8731893-8731973 44 1.69e-04 CTTCCAGCAA CCATGTGA TGCTGATTTC chrIII:5096882-5096962 30 1.78e-04 CAATTCATCA ACACGTGG TAGATGTCGA chrII:12051792-12051872 13 2.05e-04 ACGAATTTTG TCACGTGT GCCACGTCTT chrX:2031536-2031616 22 2.15e-04 GAAATGGGGG TCACGGGA AGGCGGAGGA chrII:12050757-12050837 25 2.31e-04 AGGAAACCGT CGACGTGA CATTCTTGAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCACGTGA MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:5835270-5835350 1.3e-05 41_[+3]_31 chrV:11859223-11859303 1.3e-05 24_[+3]_48 chrX:5645808-5645888 1.3e-05 24_[+3]_48 chrV:11795480-11795560 1.3e-05 22_[+3]_50 chrI:8987287-8987367 1.3e-05 54_[+3]_18 chrX:5628557-5628637 2.3e-05 19_[+3]_53 chrII:12622329-12622409 2.3e-05 48_[+3]_24 chrII:13145380-13145460 2.3e-05 58_[+3]_14 chrII:7287870-7287950 3.2e-05 64_[+3]_8 chrII:12625827-12625907 3.2e-05 59_[+3]_13 chrI:9332604-9332684 3.9e-05 16_[+3]_56 chrX:2893260-2893340 5.8e-05 12_[+3]_60 chrIII:12849393-12849473 5.8e-05 55_[+3]_17 chrII:13680041-13680121 7.8e-05 54_[+3]_18 chrII:7977673-7977753 7.8e-05 23_[+3]_49 chrV:5693744-5693824 7.8e-05 45_[+3]_27 chrV:10940190-10940270 7.8e-05 8_[+3]_64 chrII:7279899-7279979 7.8e-05 14_[+3]_58 chrX:3837828-3837908 0.0001 16_[+3]_56 chrI:13061240-13061320 0.0001 25_[+3]_47 chrX:11502424-11502504 0.00011 13_[+3]_59 chrX:9938232-9938312 0.00011 9_[+3]_63 chrIV:13109918-13109998 0.00013 52_[+3]_20 chrIV:5764503-5764583 0.00016 52_[+3]_20 chrI:13064054-13064134 0.00016 38_[+3]_34 chrV:3606560-3606640 0.00017 47_[+3]_25 chrII:8731893-8731973 0.00017 43_[+3]_29 chrIII:5096882-5096962 0.00018 29_[+3]_43 chrII:12051792-12051872 0.00021 12_[+3]_60 chrX:2031536-2031616 0.00021 21_[+3]_51 chrII:12050757-12050837 0.00023 24_[+3]_48 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCACGTGA MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TCACGTGA width=8 seqs=31 chrX:5835270-5835350 ( 42) TCACGTGA 1 chrV:11859223-11859303 ( 25) TCACGTGA 1 chrX:5645808-5645888 ( 25) TCACGTGA 1 chrV:11795480-11795560 ( 23) TCACGTGA 1 chrI:8987287-8987367 ( 55) TCACGTGA 1 chrX:5628557-5628637 ( 20) TCACGTGG 1 chrII:12622329-12622409 ( 49) TCACGTGG 1 chrII:13145380-13145460 ( 59) TCACGTGG 1 chrII:7287870-7287950 ( 65) CCACGTGA 1 chrII:12625827-12625907 ( 60) CCACGTGA 1 chrI:9332604-9332684 ( 17) CCACGTGG 1 chrX:2893260-2893340 ( 13) TCATGTGA 1 chrIII:12849393-12849473 ( 56) TCATGTGA 1 chrII:13680041-13680121 ( 55) TCACATGA 1 chrII:7977673-7977753 ( 24) TCACATGA 1 chrV:5693744-5693824 ( 46) TCACATGA 1 chrV:10940190-10940270 ( 9) TCACATGA 1 chrII:7279899-7279979 ( 15) TCACATGA 1 chrX:3837828-3837908 ( 17) TCGCGTGA 1 chrI:13061240-13061320 ( 26) TGACGTGA 1 chrX:11502424-11502504 ( 14) TCATGTGG 1 chrX:9938232-9938312 ( 10) TCATGTGG 1 chrIV:13109918-13109998 ( 53) ACACGTGA 1 chrIV:5764503-5764583 ( 53) TCGCGTGG 1 chrI:13064054-13064134 ( 39) TGACGTGG 1 chrV:3606560-3606640 ( 48) CCATGTGA 1 chrII:8731893-8731973 ( 44) CCATGTGA 1 chrIII:5096882-5096962 ( 30) ACACGTGG 1 chrII:12051792-12051872 ( 13) TCACGTGT 1 chrX:2031536-2031616 ( 22) TCACGGGA 1 chrII:12050757-12050837 ( 25) CGACGTGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCACGTGA MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 8.30809 E= 4.5e+002 -221 -10 -1160 136 -1160 212 -107 -1160 164 -1160 -165 -1160 -1160 196 -1160 -58 -89 -1160 205 -1160 -1160 -1160 -265 174 -1160 -1160 230 -1160 118 -1160 52 -316 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCACGTGA MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 31 E= 4.5e+002 0.064516 0.193548 0.000000 0.741935 0.000000 0.903226 0.096774 0.000000 0.935484 0.000000 0.064516 0.000000 0.000000 0.806452 0.000000 0.193548 0.161290 0.000000 0.838710 0.000000 0.000000 0.000000 0.032258 0.967742 0.000000 0.000000 1.000000 0.000000 0.677419 0.000000 0.290323 0.032258 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCACGTGA MEME-3 regular expression -------------------------------------------------------------------------------- TCACGTG[AG] -------------------------------------------------------------------------------- Time 16.02 secs. ******************************************************************************** ******************************************************************************** MOTIF GCGRGGGG MEME-4 width = 8 sites = 3 llr = 36 E-value = 3.1e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCGRGGGG MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::7:::: pos.-specific C :a:::::: probability G a:a3aaaa matrix T :::::::: bits 2.3 *** **** 2.1 *** **** 1.8 *** **** 1.6 *** **** Relative 1.4 *** **** Entropy 1.2 *** **** (17.1 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GCGAGGGG consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGRGGGG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:5823145-5823225 19 4.37e-06 GAAGTTTAGT GCGAGGGG GTAGCTAGAG chrV:12295144-12295224 71 4.37e-06 TAGAACGCAT GCGAGGGG TC chrII:6712485-6712565 61 7.32e-06 TTCAAAGTGA GCGGGGGG CATAGGGTGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGRGGGG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:5823145-5823225 4.4e-06 18_[+4]_54 chrV:12295144-12295224 4.4e-06 70_[+4]_2 chrII:6712485-6712565 7.3e-06 60_[+4]_12 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGRGGGG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCGRGGGG width=8 seqs=3 chrV:5823145-5823225 ( 19) GCGAGGGG 1 chrV:12295144-12295224 ( 71) GCGAGGGG 1 chrII:6712485-6712565 ( 61) GCGGGGGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGRGGGG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 13.0179 E= 3.1e+004 -823 -823 230 -823 -823 226 -823 -823 -823 -823 230 -823 115 -823 71 -823 -823 -823 230 -823 -823 -823 230 -823 -823 -823 230 -823 -823 -823 230 -823 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGRGGGG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 3 E= 3.1e+004 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.666667 0.000000 0.333333 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGRGGGG MEME-4 regular expression -------------------------------------------------------------------------------- GCG[AG]GGGG -------------------------------------------------------------------------------- Time 19.60 secs. ******************************************************************************** ******************************************************************************** MOTIF GGGGGTGG MEME-5 width = 8 sites = 2 llr = 25 E-value = 9.8e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGGGGTGG MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C :::::::: probability G aaaaa:aa matrix T :::::a:: bits 2.3 ***** ** 2.1 ***** ** 1.8 ******** 1.6 ******** Relative 1.4 ******** Entropy 1.2 ******** (17.9 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GGGGGTGG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGTGG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:14677293-14677373 24 4.12e-06 GGTTTGATTG GGGGGTGG CCAACACCTT chrX:7594319-7594399 73 4.12e-06 CCTCTGGTGT GGGGGTGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGTGG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:14677293-14677373 4.1e-06 23_[+5]_49 chrX:7594319-7594399 4.1e-06 72_[+5] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGTGG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGGGGTGG width=8 seqs=2 chrIV:14677293-14677373 ( 24) GGGGGTGG 1 chrX:7594319-7594399 ( 73) GGGGGTGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGTGG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 13.1555 E= 9.8e+003 -765 -765 230 -765 -765 -765 230 -765 -765 -765 230 -765 -765 -765 230 -765 -765 -765 230 -765 -765 -765 -765 178 -765 -765 230 -765 -765 -765 230 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGTGG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 9.8e+003 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGGTGG MEME-5 regular expression -------------------------------------------------------------------------------- GGGGGTGG -------------------------------------------------------------------------------- Time 23.15 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrII:9033122-9033202 1.00e+00 80 chrII:13145380-13145460 5.51e-03 58_[+3(2.26e-05)]_14 chrII:2399920-2400000 5.55e-02 80 chrII:11843587-11843667 9.15e-01 80 chrV:3610853-3610933 3.65e-02 80 chrV:3980717-3980797 1.60e-01 80 chrI:9084225-9084305 9.99e-01 80 chrI:7213715-7213795 8.61e-02 80 chrII:7545548-7545628 1.32e-01 80 chrI:8987287-8987367 1.25e-01 54_[+3(1.35e-05)]_18 chrII:7279899-7279979 2.73e-01 14_[+3(7.76e-05)]_58 chrI:529568-529648 3.82e-04 23_[+1(3.18e-06)]_2_[+1(8.36e-05)]_\ 39 chrIII:7305720-7305800 9.26e-01 80 chrIV:11702004-11702084 9.56e-01 80 chrII:8731130-8731210 2.97e-02 51_[+2(6.41e-05)]_21 chrIV:14613556-14613636 9.55e-01 80 chrX:5148581-5148661 9.34e-01 80 chrI:9330890-9330970 5.34e-01 80 chrI:429237-429317 9.97e-01 80 chrIII:7115147-7115227 3.26e-01 80 chrII:3241961-3242041 8.41e-01 80 chrII:4866231-4866311 8.75e-01 80 chrII:11502165-11502245 9.45e-01 80 chrII:14004899-14004979 2.91e-01 80 chrX:5787835-5787915 9.22e-01 80 chrII:6379222-6379302 3.01e-01 80 chrV:7543889-7543969 9.63e-01 80 chrX:15159112-15159192 5.57e-01 80 chrX:4102385-4102465 8.12e-01 80 chrIII:5096882-5096962 3.12e-01 80 chrX:7594319-7594399 3.12e-04 72_[+5(4.12e-06)] chrV:16211854-16211934 9.85e-01 80 chrV:8238422-8238502 9.35e-01 80 chrX:8504370-8504450 2.60e-01 45_[+2(9.82e-05)]_27 chrII:6712485-6712565 2.13e-04 60_[+4(7.32e-06)]_12 chrIV:4216290-4216370 3.75e-02 80 chrV:5701319-5701399 1.01e-01 80 chrV:3874507-3874587 2.77e-01 59_[+2(6.41e-05)]_13 chrX:11064873-11064953 9.97e-01 80 chrI:10174859-10174939 9.98e-01 80 chrX:6179124-6179204 2.70e-01 80 chrV:12550173-12550253 2.91e-01 80 chrII:8731893-8731973 2.40e-02 80 chrIII:9646596-9646676 6.17e-01 80 chrII:8854138-8854218 8.60e-02 80 chrIV:5706854-5706934 7.21e-01 80 chrI:7756827-7756907 9.15e-01 80 chrIV:8027444-8027524 4.16e-01 80 chrIV:12711136-12711216 9.99e-01 80 chrV:10940190-10940270 4.01e-01 8_[+3(7.76e-05)]_64 chrX:17417757-17417837 5.07e-01 80 chrV:12295144-12295224 5.22e-04 70_[+4(4.37e-06)]_2 chrIV:14089914-14089994 7.26e-01 80 chrV:5693744-5693824 1.82e-01 45_[+3(7.76e-05)]_27 chrIV:13111030-13111110 4.14e-01 80 chrII:9344123-9344203 1.67e-01 80 chrX:13357816-13357896 6.68e-01 80 chrV:7774260-7774340 1.04e-01 46_[+2(9.82e-05)]_26 chrIV:12403580-12403660 4.73e-01 80 chrX:2303459-2303539 1.26e-01 80 chrIII:2633118-2633198 9.79e-01 80 chrV:12199647-12199727 2.24e-01 80 chrV:8040823-8040903 2.94e-01 80 chrIII:6145470-6145550 1.48e-03 40_[+1(7.61e-06)]_32 chrI:6206734-6206814 4.09e-01 80 chrII:12053703-12053783 6.87e-01 80 chrX:6664231-6664311 9.87e-01 80 chrV:16779077-16779157 2.63e-01 80 chrX:17421306-17421386 4.81e-01 80 chrV:11795480-11795560 7.84e-02 22_[+3(1.35e-05)]_50 chrIV:11897843-11897923 9.52e-02 80 chrIV:6655914-6655994 8.73e-03 19_[+1(3.18e-06)]_53 chrI:13064054-13064134 8.94e-02 80 chrX:5340293-5340373 2.00e-02 [+2(2.03e-05)]_72 chrI:5874109-5874189 1.00e+00 80 chrX:7536283-7536363 9.99e-01 80 chrV:1789643-1789723 6.62e-03 68_[+1(3.18e-06)]_4 chrV:11147877-11147957 7.96e-01 80 chrIV:10682339-10682419 5.75e-01 80 chrIII:5089639-5089719 1.00e+00 80 chrI:5010046-5010126 8.83e-01 80 chrV:13606965-13607045 6.42e-04 58_[+2(7.79e-05)]_14 chrIII:5465005-5465085 1.54e-01 80 chrX:11059850-11059930 3.81e-01 80 chrII:4562647-4562727 7.59e-01 80 chrX:5645808-5645888 1.45e-04 24_[+3(1.35e-05)]_12_[+1(1.23e-05)]_\ 28 chrII:8820787-8820867 8.35e-01 80 chrII:12622329-12622409 9.92e-03 48_[+3(2.26e-05)]_24 chrX:8485528-8485608 5.49e-02 80 chrII:7977673-7977753 1.64e-01 23_[+3(7.76e-05)]_49 chrIV:10784271-10784351 8.98e-02 80 chrII:8822853-8822933 3.42e-01 80 chrX:13941384-13941464 5.14e-01 80 chrX:5387771-5387851 1.00e+00 80 chrX:2144419-2144499 3.35e-01 80 chrV:13993589-13993669 9.92e-01 80 chrII:8338301-8338381 9.90e-01 80 chrV:18003998-18004078 1.35e-03 80 chrIV:14869986-14870066 7.16e-01 80 chrX:10594196-10594276 2.67e-03 24_[+1(6.36e-05)]_48 chrI:12500592-12500672 6.25e-02 80 chrX:9547291-9547371 4.27e-03 8_[+1(3.07e-05)]_64 chrV:13243390-13243470 2.69e-03 12_[+2(6.41e-05)]_12_[+2(6.41e-05)]_\ 40 chrIV:13682901-13682981 2.63e-01 80 chrV:12537659-12537739 8.71e-01 80 chrIII:5921460-5921540 4.31e-01 80 chrX:12793234-12793314 9.85e-01 80 chrII:7278076-7278156 2.45e-01 80 chrII:8820588-8820668 3.09e-01 80 chrII:13618035-13618115 7.73e-01 80 chrII:8440991-8441071 5.03e-01 80 chrII:14825532-14825612 1.82e-01 19_[+2(6.41e-05)]_53 chrX:11057226-11057306 9.05e-01 80 chrIV:10689132-10689212 1.30e-01 80 chrII:8345828-8345908 1.00e+00 80 chrV:11801530-11801610 8.02e-01 80 chrV:13389573-13389653 9.60e-03 80 chrV:3870514-3870594 7.79e-01 80 chrV:11859223-11859303 4.50e-02 24_[+3(1.35e-05)]_48 chrI:4328948-4329028 7.69e-01 80 chrII:10925941-10926021 3.50e-01 80 chrII:14844394-14844474 3.49e-01 80 chrII:13148383-13148463 1.25e-01 80 chrX:6515398-6515478 1.47e-01 33_[+2(7.79e-05)]_39 chrII:5853390-5853470 7.86e-01 80 chrX:9938232-9938312 2.30e-01 80 chrIV:13109918-13109998 1.49e-02 43_[+2(6.41e-05)]_29 chrII:11852343-11852423 4.57e-01 80 chrIII:9698727-9698807 1.37e-01 80 chrV:3606560-3606640 3.13e-01 80 chrX:7587928-7588008 1.87e-01 80 chrV:4524490-4524570 5.53e-02 80 chrIV:8254372-8254452 6.62e-01 80 chrX:11062034-11062114 6.88e-01 80 chrIII:7273868-7273948 9.75e-01 80 chrII:13680041-13680121 3.67e-01 54_[+3(7.76e-05)]_18 chrV:8661392-8661472 5.49e-01 80 chrV:6354326-6354406 2.97e-02 80 chrII:9115816-9115896 9.61e-01 80 chrX:5628557-5628637 9.16e-02 19_[+3(2.26e-05)]_53 chrII:542662-542742 1.00e+00 80 chrII:7531635-7531715 9.87e-01 80 chrIV:10779034-10779114 7.90e-01 80 chrI:3724777-3724857 2.42e-02 37_[+1(3.69e-05)]_35 chrX:5835270-5835350 4.10e-02 41_[+3(1.35e-05)]_31 chrX:16556912-16556992 9.76e-01 80 chrX:5630124-5630204 9.67e-01 80 chrI:13055037-13055117 8.09e-01 80 chrX:6876431-6876511 1.28e-01 80 chrIII:7199628-7199708 4.42e-01 80 chrII:8817445-8817525 1.00e+00 80 chrII:12053016-12053096 7.69e-01 80 chrV:4523523-4523603 1.29e-01 80 chrX:17211673-17211753 9.24e-01 80 chrX:11533778-11533858 9.99e-01 80 chrIV:10261211-10261291 4.90e-01 80 chrI:13061240-13061320 1.40e-03 25_[+3(9.99e-05)]_12_[+2(2.03e-05)]_\ 27 chrII:7631323-7631403 5.36e-01 80 chrIII:8122066-8122146 1.92e-01 80 chrX:9403804-9403884 3.92e-01 80 chrX:9402169-9402249 5.19e-02 8_[+1(2.20e-05)]_64 chrI:12501460-12501540 5.86e-02 80 chrX:13325186-13325266 3.85e-01 80 chrX:504211-504291 6.59e-01 80 chrI:5433029-5433109 3.16e-01 44_[+2(9.82e-05)]_28 chrX:15079515-15079595 2.75e-01 80 chrIII:8504389-8504469 9.54e-01 80 chrV:8039365-8039445 9.95e-01 80 chrX:2031536-2031616 1.17e-02 80 chrII:13150163-13150243 2.42e-01 64_[+2(7.79e-05)]_8 chrIV:13077857-13077937 7.21e-01 80 chrV:3856073-3856153 4.06e-01 80 chrX:12781936-12782016 2.20e-03 38_[+5(1.42e-05)]_34 chrII:8751108-8751188 2.78e-01 80 chrIII:6993307-6993387 1.00e+00 80 chrII:13675393-13675473 3.71e-01 80 chrV:12551990-12552070 2.27e-01 26_[+2(6.41e-05)]_46 chrIV:9535245-9535325 2.18e-01 80 chrII:12625827-12625907 1.25e-01 59_[+3(3.23e-05)]_13 chrII:6713941-6714021 8.15e-02 50_[+2(2.03e-05)]_22 chrIII:3435312-3435392 8.52e-01 80 chrV:13413560-13413640 9.82e-01 80 chrV:14660769-14660849 7.51e-02 80 chrII:8818472-8818552 2.47e-01 80 chrIV:1859530-1859610 4.33e-01 80 chrI:6075085-6075165 6.45e-01 80 chrIII:6216121-6216201 6.68e-01 80 chrV:12549035-12549115 9.25e-01 80 chrI:12497128-12497208 3.60e-01 80 chrX:10668071-10668151 3.63e-01 80 chrX:11534622-11534702 6.14e-01 80 chrII:7287870-7287950 1.42e-01 64_[+3(3.23e-05)]_8 chrIV:14096607-14096687 5.70e-01 80 chrII:3437089-3437169 1.34e-01 80 chrII:13293075-13293155 1.44e-01 80 chrX:15380631-15380711 3.18e-02 36_[+2(6.41e-05)]_36 chrII:6716041-6716121 1.91e-01 80 chrX:12425545-12425625 5.87e-01 80 chrII:14838748-14838828 4.32e-01 80 chrIII:12849393-12849473 9.85e-02 55_[+3(5.77e-05)]_17 chrX:3837828-3837908 9.62e-02 16_[+3(9.99e-05)]_56 chrII:12050757-12050837 4.81e-02 80 chrX:4520138-4520218 3.71e-01 80 chrX:13541548-13541628 7.77e-01 80 chrX:6201652-6201732 3.31e-01 80 chrV:12556984-12557064 9.50e-01 80 chrI:7212122-7212202 1.75e-01 80 chrI:8801975-8802055 9.99e-01 80 chrX:15374956-15375036 2.78e-01 80 chrX:17212862-17212942 8.75e-01 80 chrV:16213453-16213533 1.55e-01 80 chrIV:11883592-11883672 1.74e-02 34_[+1(7.61e-06)]_38 chrIV:14677293-14677373 1.48e-02 23_[+5(4.12e-06)]_49 chrIII:482920-483000 3.22e-01 80 chrII:13681216-13681296 9.06e-01 80 chrIV:10782147-10782227 1.48e-02 80 chrI:8983951-8984031 1.59e-03 38_[+1(3.18e-06)]_34 chrIV:5764503-5764583 9.35e-02 80 chrIV:9672601-9672681 7.27e-01 80 chrIV:9510594-9510674 7.77e-01 80 chrIII:7897905-7897985 7.91e-01 80 chrX:9536204-9536284 8.90e-01 80 chrII:8813777-8813857 7.42e-01 80 chrV:12298714-12298794 1.00e+00 80 chrX:2893260-2893340 6.40e-02 12_[+3(5.77e-05)]_60 chrV:5823145-5823225 2.44e-04 18_[+4(4.37e-06)]_54 chrX:10431103-10431183 6.43e-01 80 chrX:11502424-11502504 2.70e-01 80 chrIV:8864801-8864881 7.83e-01 80 chrX:12835027-12835107 7.28e-01 80 chrII:4821928-4822008 1.03e-01 80 chrX:15375485-15375565 6.82e-02 63_[+2(2.03e-05)]_9 chrX:14503459-14503539 9.88e-01 80 chrX:13544756-13544836 2.93e-01 22_[+2(6.41e-05)]_2_[+2(6.41e-05)]_\ 40 chrX:11061018-11061098 8.03e-02 80 chrX:9409325-9409405 9.77e-01 80 chrV:9085923-9086003 9.70e-01 80 chrV:6514153-6514233 8.14e-01 80 chrIV:4235750-4235830 9.78e-01 80 chrX:5631193-5631273 8.60e-01 80 chrIV:11899593-11899673 6.83e-01 80 chrIII:5948568-5948648 4.52e-01 80 chrX:11478877-11478957 8.67e-01 80 chrI:9332604-9332684 1.73e-02 16_[+3(3.89e-05)]_56 chrIII:7201516-7201596 1.00e+00 80 chrII:11372145-11372225 2.77e-01 80 chrX:4138949-4139029 1.28e-02 80 chrIII:5468130-5468210 2.94e-01 80 chrII:12051792-12051872 8.89e-02 80 chrII:5335489-5335569 5.47e-02 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n06.farnam.hpc.yale.internal ********************************************************************************