******************************************************************************** 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/K562/fasta/RankLinear0.6_40/ZNF318.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr8:57119289-57119369 1.0000 80 chr17:80245536-80245616 1.0000 80 chr8:57115240-57115320 1.0000 80 chr1:17057561-17057641 1.0000 80 chr22:23176378-23176458 1.0000 80 chr1:40524867-40524947 1.0000 80 chr16:84763071-84763151 1.0000 80 chr11:3892976-3893056 1.0000 80 chr2:176865880-176865960 1.0000 80 chr6:13989560-13989640 1.0000 80 chr11:85907650-85907730 1.0000 80 chr7:116232172-116232252 1.0000 80 chr2:9692264-9692344 1.0000 80 chr2:172886282-172886362 1.0000 80 chr7:107111921-107112001 1.0000 80 chr1:59528179-59528259 1.0000 80 chr6:27856825-27856905 1.0000 80 chr6:334655-334735 1.0000 80 chr1:144013242-144013322 1.0000 80 chr21:48056598-48056678 1.0000 80 chr20:29616387-29616467 1.0000 80 chr7:135630612-135630692 1.0000 80 chr1:26945793-26945873 1.0000 80 chr3:33834326-33834406 1.0000 80 chr12:49411494-49411574 1.0000 80 chr2:96891418-96891498 1.0000 80 chr6:26686808-26686888 1.0000 80 chr2:185068511-185068591 1.0000 80 chr22:23078397-23078477 1.0000 80 chr1:184023212-184023292 1.0000 80 chr6:31055111-31055191 1.0000 80 chr10:45933256-45933336 1.0000 80 chr3:50687630-50687710 1.0000 80 chr6:150739592-150739672 1.0000 80 chr13:90748842-90748922 1.0000 80 chr12:57909538-57909618 1.0000 80 chr7:138777834-138777914 1.0000 80 chr2:38840429-38840509 1.0000 80 chr7:106296269-106296349 1.0000 80 chr9:125693016-125693096 1.0000 80 chr15:58615732-58615812 1.0000 80 chr6:112407770-112407850 1.0000 80 chr7:152067683-152067763 1.0000 80 chr17:65363143-65363223 1.0000 80 chr15:52135606-52135686 1.0000 80 chr5:10589790-10589870 1.0000 80 chr10:52122734-52122814 1.0000 80 chr6:26774809-26774889 1.0000 80 chr3:150479119-150479199 1.0000 80 chr12:112413242-11241332 1.0000 80 chr8:91180837-91180917 1.0000 80 chr5:10233921-10234001 1.0000 80 chr9:37333508-37333588 1.0000 80 chr22:22483060-22483140 1.0000 80 chr2:171096748-171096828 1.0000 80 chr1:244214362-244214442 1.0000 80 chr7:107098452-107098532 1.0000 80 chr10:74384948-74385028 1.0000 80 chr7:106709080-106709160 1.0000 80 chr10:52343632-52343712 1.0000 80 chr11:85755057-85755137 1.0000 80 chr6:168105052-168105132 1.0000 80 chr6:158280912-158280992 1.0000 80 chr6:49864748-49864828 1.0000 80 chr7:64463977-64464057 1.0000 80 chr6:138132367-138132447 1.0000 80 chr11:85919831-85919911 1.0000 80 chr7:145500581-145500661 1.0000 80 chr20:46169623-46169703 1.0000 80 chr1:52114590-52114670 1.0000 80 chr8:91140068-91140148 1.0000 80 chr1:113161017-113161097 1.0000 80 chr7:130602564-130602644 1.0000 80 chr22:22163496-22163576 1.0000 80 chr7:107385331-107385411 1.0000 80 chr1:36253335-36253415 1.0000 80 chr21:22527674-22527754 1.0000 80 chr8:26244998-26245078 1.0000 80 chr4:140539145-140539225 1.0000 80 chr7:100439269-100439349 1.0000 80 chr6:10839192-10839272 1.0000 80 chr21:30687248-30687328 1.0000 80 chr12:53038952-53039032 1.0000 80 chr1:17009168-17009248 1.0000 80 chr3:32744194-32744274 1.0000 80 chr5:89954946-89955026 1.0000 80 chr18:3494297-3494377 1.0000 80 chr17:58678977-58679057 1.0000 80 chr12:24039827-24039907 1.0000 80 chr2:74115486-74115566 1.0000 80 chr21:45613631-45613711 1.0000 80 chr22:21013588-21013668 1.0000 80 chr2:70471461-70471541 1.0000 80 chr4:29580-29660 1.0000 80 chr6:36634565-36634645 1.0000 80 chr6:26364905-26364985 1.0000 80 chr18:1061494-1061574 1.0000 80 chr15:63518675-63518755 1.0000 80 chr1:173400204-173400284 1.0000 80 chr18:9925391-9925471 1.0000 80 chr10:72994394-72994474 1.0000 80 chr12:49759366-49759446 1.0000 80 chr10:75253378-75253458 1.0000 80 chr22:23178588-23178668 1.0000 80 chr7:106743682-106743762 1.0000 80 chr3:136676362-136676442 1.0000 80 chr18:9743274-9743354 1.0000 80 chr7:106704781-106704861 1.0000 80 chr7:130629924-130630004 1.0000 80 chr1:17059410-17059490 1.0000 80 chr6:27200058-27200138 1.0000 80 chr20:46235642-46235722 1.0000 80 chr2:27232132-27232212 1.0000 80 chr1:204350772-204350852 1.0000 80 chr1:38349714-38349794 1.0000 80 chr3:195752723-195752803 1.0000 80 chr1:40454583-40454663 1.0000 80 chr13:93192492-93192572 1.0000 80 chr7:104909906-104909986 1.0000 80 chr8:74805519-74805599 1.0000 80 chr1:25091776-25091856 1.0000 80 chr5:139565743-139565823 1.0000 80 chr1:144910255-144910335 1.0000 80 chr6:27532805-27532885 1.0000 80 chr1:145113177-145113257 1.0000 80 chr7:106238830-106238910 1.0000 80 chr18:9116624-9116704 1.0000 80 chr22:23174295-23174375 1.0000 80 chr7:104622947-104623027 1.0000 80 chr6:45415214-45415294 1.0000 80 chr1:43283398-43283478 1.0000 80 chr13:93265208-93265288 1.0000 80 chr1:26251132-26251212 1.0000 80 chr11:9010768-9010848 1.0000 80 chr7:116628318-116628398 1.0000 80 chr8:117884475-117884555 1.0000 80 chr2:178160720-178160800 1.0000 80 chr3:196619783-196619863 1.0000 80 chr17:57906278-57906358 1.0000 80 chr3:81793661-81793741 1.0000 80 chr7:135618028-135618108 1.0000 80 chr7:120590130-120590210 1.0000 80 chr9:123578117-123578197 1.0000 80 chr21:45437929-45438009 1.0000 80 chr16:11676532-11676612 1.0000 80 chr12:118558393-11855847 1.0000 80 chr7:138726361-138726441 1.0000 80 chr17:66032764-66032844 1.0000 80 chr5:39176967-39177047 1.0000 80 chr7:130819610-130819690 1.0000 80 chr13:90492662-90492742 1.0000 80 chr22:23175456-23175536 1.0000 80 chr5:89950472-89950552 1.0000 80 chr1:224007762-224007842 1.0000 80 chr1:15841829-15841909 1.0000 80 chr1:234749443-234749523 1.0000 80 chr1:46067162-46067242 1.0000 80 chr7:106506989-106507069 1.0000 80 chr7:105470174-105470254 1.0000 80 chr22:22428007-22428087 1.0000 80 chr1:38571073-38571153 1.0000 80 chr6:34624454-34624534 1.0000 80 chr17:43657712-43657792 1.0000 80 chr3:36966694-36966774 1.0000 80 chr1:93175318-93175398 1.0000 80 chr8:38029497-38029577 1.0000 80 chr7:131013547-131013627 1.0000 80 chr22:23186260-23186340 1.0000 80 chr1:145074181-145074261 1.0000 80 chr1:78143653-78143733 1.0000 80 chr5:89938842-89938922 1.0000 80 chr1:144006270-144006350 1.0000 80 chr22:22523369-22523449 1.0000 80 chr10:63517472-63517552 1.0000 80 chr2:175976051-175976131 1.0000 80 chr1:118277883-118277963 1.0000 80 chr5:77974090-77974170 1.0000 80 chr12:122817763-12281784 1.0000 80 chr21:45445430-45445510 1.0000 80 chr6:26570026-26570106 1.0000 80 chr10:50395748-50395828 1.0000 80 chr1:174941198-174941278 1.0000 80 chr2:10447749-10447829 1.0000 80 chr7:120682675-120682755 1.0000 80 chr2:171945847-171945927 1.0000 80 chr6:27343389-27343469 1.0000 80 chr10:70168725-70168805 1.0000 80 chr16:16067104-16067184 1.0000 80 chr3:15247061-15247141 1.0000 80 chr16:79790908-79790988 1.0000 80 chr22:22568423-22568503 1.0000 80 chr1:113211668-113211748 1.0000 80 chr7:133039992-133040072 1.0000 80 chr6:26053662-26053742 1.0000 80 chr7:106962409-106962489 1.0000 80 chr4:79682087-79682167 1.0000 80 chr1:28462304-28462384 1.0000 80 chr22:22162458-22162538 1.0000 80 chr6:36572890-36572970 1.0000 80 chr5:39115699-39115779 1.0000 80 chr1:40845898-40845978 1.0000 80 chr15:63790137-63790217 1.0000 80 chr7:139899707-139899787 1.0000 80 chr6:26120985-26121065 1.0000 80 chr7:123369425-123369505 1.0000 80 chr1:162532828-162532908 1.0000 80 chr1:78227874-78227954 1.0000 80 chr8:56991948-56992028 1.0000 80 chr1:213244106-213244186 1.0000 80 chr8:124084270-124084350 1.0000 80 chr7:99404608-99404688 1.0000 80 chr6:68590923-68591003 1.0000 80 chr10:17080293-17080373 1.0000 80 chr8:104090957-104091037 1.0000 80 chr4:129482205-129482285 1.0000 80 chr6:17907450-17907530 1.0000 80 chr1:231685858-231685938 1.0000 80 chr13:41246467-41246547 1.0000 80 chr7:115872247-115872327 1.0000 80 chr3:47088773-47088853 1.0000 80 chr1:197632892-197632972 1.0000 80 chr13:91657190-91657270 1.0000 80 chr1:111681662-111681742 1.0000 80 chr3:23982007-23982087 1.0000 80 chr1:145123007-145123087 1.0000 80 chr10:63667281-63667361 1.0000 80 chr2:170428399-170428479 1.0000 80 chr8:29111646-29111726 1.0000 80 chr4:144800813-144800893 1.0000 80 chr2:61111929-61112009 1.0000 80 chr2:174262765-174262845 1.0000 80 chr13:91730684-91730764 1.0000 80 chr3:183724440-183724520 1.0000 80 chr22:22417518-22417598 1.0000 80 chr1:26259130-26259210 1.0000 80 chr1:100231632-100231712 1.0000 80 chr2:47425750-47425830 1.0000 80 chr22:23181314-23181394 1.0000 80 chr3:17772336-17772416 1.0000 80 chr10:75734219-75734299 1.0000 80 chr7:39664566-39664646 1.0000 80 chr12:107335339-10733541 1.0000 80 chr6:157103827-157103907 1.0000 80 chr6:31530948-31531028 1.0000 80 chr6:26678694-26678774 1.0000 80 chr6:147223821-147223901 1.0000 80 chr11:61730829-61730909 1.0000 80 chrX:154564048-154564128 1.0000 80 chr6:26214059-26214139 1.0000 80 chr21:45436109-45436189 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/K562/inference_raw/MEME/RankLinear0.6_40_ZNF318/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/K562/fasta/RankLinear0.6_40/ZNF318.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 0.322 C 0.174 G 0.181 T 0.323 Background letter frequencies (from file dataset with add-one prior applied): A 0.322 C 0.174 G 0.181 T 0.323 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF CCTCCTCC MEME-1 width = 8 sites = 2 llr = 25 E-value = 1.2e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif CCTCCTCC MEME-1 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C aa:aa:aa probability G :::::::: matrix T ::a::a:: bits 2.5 ** ** ** 2.3 ** ** ** 2.0 ** ** ** 1.8 ** ** ** Relative 1.5 ******** Entropy 1.3 ******** (18.4 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel CCTCCTCC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCTCCTCC MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr7:104909906-104909986 39 2.90e-06 TTAATTTTCC CCTCCTCC TTAGCAGTAC chr12:53038952-53039032 8 2.90e-06 GCCATAT CCTCCTCC AGAGATGGAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCTCCTCC MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr7:104909906-104909986 2.9e-06 38_[+1]_34 chr12:53038952-53039032 2.9e-06 7_[+1]_65 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCTCCTCC MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CCTCCTCC width=8 seqs=2 chr7:104909906-104909986 ( 39) CCTCCTCC 1 chr12:53038952-53039032 ( 8) CCTCCTCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCTCCTCC MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 13.1555 E= 1.2e+004 -765 251 -765 -765 -765 251 -765 -765 -765 -765 -765 163 -765 251 -765 -765 -765 251 -765 -765 -765 -765 -765 163 -765 251 -765 -765 -765 251 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCTCCTCC MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 1.2e+004 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCTCCTCC MEME-1 regular expression -------------------------------------------------------------------------------- CCTCCTCC -------------------------------------------------------------------------------- Time 5.18 secs. ******************************************************************************** ******************************************************************************** MOTIF CCAGCTGC MEME-2 width = 8 sites = 2 llr = 25 E-value = 3.3e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif CCAGCTGC MEME-2 Description -------------------------------------------------------------------------------- Simplified A ::a::::: pos.-specific C aa::a::a probability G :::a::a: matrix T :::::a:: bits 2.5 ** ** ** 2.3 ** ** ** 2.0 ** ** ** 1.8 ** ** ** Relative 1.5 ******** Entropy 1.3 ******** (18.3 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel CCAGCTGC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAGCTGC MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr16:11676532-11676612 53 3.12e-06 AGAAAGAGAA CCAGCTGC GAGGGTCAAA chr2:38840429-38840509 22 3.12e-06 aatcatgagg ccagctgc tctctgactg -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAGCTGC MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr16:11676532-11676612 3.1e-06 52_[+2]_20 chr2:38840429-38840509 3.1e-06 21_[+2]_51 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAGCTGC MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CCAGCTGC width=8 seqs=2 chr16:11676532-11676612 ( 53) CCAGCTGC 1 chr2:38840429-38840509 ( 22) CCAGCTGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAGCTGC MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.3895 E= 3.3e+004 -765 251 -765 -765 -765 251 -765 -765 163 -765 -765 -765 -765 -765 246 -765 -765 251 -765 -765 -765 -765 -765 163 -765 -765 246 -765 -765 251 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAGCTGC MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 3.3e+004 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAGCTGC MEME-2 regular expression -------------------------------------------------------------------------------- CCAGCTGC -------------------------------------------------------------------------------- Time 9.04 secs. ******************************************************************************** ******************************************************************************** MOTIF GCAGCCAC MEME-3 width = 8 sites = 2 llr = 25 E-value = 3.2e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCAGCCAC MEME-3 Description -------------------------------------------------------------------------------- Simplified A ::a:::a: pos.-specific C :a::aa:a probability G a::a:::: matrix T :::::::: bits 2.5 ** *** * 2.3 ** *** * 2.0 ** *** * 1.8 ** *** * Relative 1.5 ******** Entropy 1.3 ******** (18.3 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel GCAGCCAC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAGCCAC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr1:234749443-234749523 48 3.11e-06 GAGAAAAAAT GCAGCCAC ATTTCATCTG chr3:81793661-81793741 42 3.11e-06 ACTCAGGAAT GCAGCCAC TTAGCTTACT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAGCCAC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:234749443-234749523 3.1e-06 47_[+3]_25 chr3:81793661-81793741 3.1e-06 41_[+3]_31 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAGCCAC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCAGCCAC width=8 seqs=2 chr1:234749443-234749523 ( 48) GCAGCCAC 1 chr3:81793661-81793741 ( 42) GCAGCCAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAGCCAC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.3895 E= 3.2e+004 -765 -765 246 -765 -765 251 -765 -765 163 -765 -765 -765 -765 -765 246 -765 -765 251 -765 -765 -765 251 -765 -765 163 -765 -765 -765 -765 251 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAGCCAC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 3.2e+004 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAGCCAC MEME-3 regular expression -------------------------------------------------------------------------------- GCAGCCAC -------------------------------------------------------------------------------- Time 12.93 secs. ******************************************************************************** ******************************************************************************** MOTIF TKCCTGGG MEME-4 width = 8 sites = 5 llr = 58 E-value = 2.3e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif TKCCTGGG MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C ::aa:::: probability G :6:::aaa matrix T a4::a::: bits 2.5 ** *** 2.3 ** *** 2.0 ** *** 1.8 ** *** Relative 1.5 * ****** Entropy 1.3 ******** (16.9 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel TGCCTGGG consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TKCCTGGG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr11:61730829-61730909 73 3.39e-06 ATTTTCTCAC TGCCTGGG chr6:26774809-26774889 33 3.39e-06 catactcagt tgcctggg accatttgtt chr12:49411494-49411574 12 3.39e-06 TTGGCTCCCT TGCCTGGG AGACCAACTG chr1:40454583-40454663 43 9.44e-06 ggaagtggtg ttcctggg aaacccagtg chr20:46169623-46169703 9 9.44e-06 TAAATGAA TTCCTGGG AGATATTTTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TKCCTGGG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr11:61730829-61730909 3.4e-06 72_[+4] chr6:26774809-26774889 3.4e-06 32_[+4]_40 chr12:49411494-49411574 3.4e-06 11_[+4]_61 chr1:40454583-40454663 9.4e-06 42_[+4]_30 chr20:46169623-46169703 9.4e-06 8_[+4]_64 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TKCCTGGG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TKCCTGGG width=8 seqs=5 chr11:61730829-61730909 ( 73) TGCCTGGG 1 chr6:26774809-26774889 ( 33) TGCCTGGG 1 chr12:49411494-49411574 ( 12) TGCCTGGG 1 chr1:40454583-40454663 ( 43) TTCCTGGG 1 chr20:46169623-46169703 ( 9) TTCCTGGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TKCCTGGG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.2675 E= 2.3e+004 -897 -897 -897 163 -897 -897 172 31 -897 252 -897 -897 -897 252 -897 -897 -897 -897 -897 163 -897 -897 246 -897 -897 -897 246 -897 -897 -897 246 -897 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TKCCTGGG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 2.3e+004 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.600000 0.400000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TKCCTGGG MEME-4 regular expression -------------------------------------------------------------------------------- T[GT]CCTGGG -------------------------------------------------------------------------------- Time 16.77 secs. ******************************************************************************** ******************************************************************************** MOTIF TCCCTGCC MEME-5 width = 8 sites = 2 llr = 25 E-value = 2.0e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif TCCCTGCC MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C :aaa::aa probability G :::::a:: matrix T a:::a::: bits 2.5 *** *** 2.3 *** *** 2.0 *** *** 1.8 *** *** Relative 1.5 ******** Entropy 1.3 ******** (18.3 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel TCCCTGCC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCCCTGCC MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr6:138132367-138132447 27 3.01e-06 CATGTGACCG TCCCTGCC AAGACCCCAG chr2:176865880-176865960 56 3.01e-06 AAATGAGCAT TCCCTGCC AGTTTGAACA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCCCTGCC MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr6:138132367-138132447 3e-06 26_[+5]_46 chr2:176865880-176865960 3e-06 55_[+5]_17 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCCCTGCC MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TCCCTGCC width=8 seqs=2 chr6:138132367-138132447 ( 27) TCCCTGCC 1 chr2:176865880-176865960 ( 56) TCCCTGCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCCCTGCC MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.3895 E= 2.0e+004 -765 -765 -765 163 -765 251 -765 -765 -765 251 -765 -765 -765 251 -765 -765 -765 -765 -765 163 -765 -765 246 -765 -765 251 -765 -765 -765 251 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCCCTGCC MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 2.0e+004 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCCCTGCC MEME-5 regular expression -------------------------------------------------------------------------------- TCCCTGCC -------------------------------------------------------------------------------- Time 20.57 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr8:57119289-57119369 9.84e-01 80 chr17:80245536-80245616 1.77e-02 33_[+1(9.75e-05)]_39 chr8:57115240-57115320 3.54e-01 80 chr1:17057561-17057641 4.49e-01 80 chr22:23176378-23176458 9.98e-01 80 chr1:40524867-40524947 2.25e-03 80 chr16:84763071-84763151 3.69e-01 80 chr11:3892976-3893056 5.67e-03 24_[+4(2.37e-05)]_34_[+1(9.75e-05)]_\ 6 chr2:176865880-176865960 4.09e-03 55_[+5(3.01e-06)]_17 chr6:13989560-13989640 9.49e-01 80 chr11:85907650-85907730 8.56e-01 80 chr7:116232172-116232252 8.17e-03 80 chr2:9692264-9692344 1.08e-01 80 chr2:172886282-172886362 5.18e-01 80 chr7:107111921-107112001 9.47e-01 80 chr1:59528179-59528259 5.54e-03 80 chr6:27856825-27856905 9.54e-02 80 chr6:334655-334735 9.85e-01 80 chr1:144013242-144013322 2.06e-02 80 chr21:48056598-48056678 9.80e-01 80 chr20:29616387-29616467 9.35e-01 80 chr7:135630612-135630692 9.84e-01 80 chr1:26945793-26945873 7.83e-01 80 chr3:33834326-33834406 9.86e-01 80 chr12:49411494-49411574 8.68e-05 11_[+4(3.39e-06)]_61 chr2:96891418-96891498 8.51e-01 80 chr6:26686808-26686888 9.26e-01 80 chr2:185068511-185068591 9.08e-01 80 chr22:23078397-23078477 2.28e-01 80 chr1:184023212-184023292 2.71e-01 80 chr6:31055111-31055191 3.64e-01 80 chr10:45933256-45933336 4.24e-02 80 chr3:50687630-50687710 5.82e-03 7_[+3(1.62e-05)]_65 chr6:150739592-150739672 9.49e-01 80 chr13:90748842-90748922 5.23e-01 80 chr12:57909538-57909618 9.14e-01 80 chr7:138777834-138777914 6.91e-01 80 chr2:38840429-38840509 1.17e-04 21_[+2(3.12e-06)]_51 chr7:106296269-106296349 6.43e-02 80 chr9:125693016-125693096 4.14e-01 80 chr15:58615732-58615812 1.54e-01 80 chr6:112407770-112407850 2.02e-01 80 chr7:152067683-152067763 9.91e-01 80 chr17:65363143-65363223 9.95e-01 80 chr15:52135606-52135686 9.76e-01 80 chr5:10589790-10589870 4.22e-01 80 chr10:52122734-52122814 6.29e-02 80 chr6:26774809-26774889 7.89e-03 32_[+4(3.39e-06)]_40 chr3:150479119-150479199 9.39e-02 80 chr12:112413242-11241332 1.37e-02 80 chr8:91180837-91180917 9.86e-01 80 chr5:10233921-10234001 9.98e-01 80 chr9:37333508-37333588 9.99e-01 80 chr22:22483060-22483140 9.78e-01 80 chr2:171096748-171096828 1.16e-01 80 chr1:244214362-244214442 9.96e-01 80 chr7:107098452-107098532 9.30e-01 80 chr10:74384948-74385028 7.81e-01 80 chr7:106709080-106709160 9.99e-01 80 chr10:52343632-52343712 2.94e-01 80 chr11:85755057-85755137 9.76e-01 80 chr6:168105052-168105132 3.32e-04 9_[+1(9.75e-05)]_13_[+1(9.75e-05)]_\ 13_[+1(9.75e-05)]_13_[+1(9.75e-05)] chr6:158280912-158280992 7.01e-01 80 chr6:49864748-49864828 4.68e-01 80 chr7:64463977-64464057 1.00e+00 80 chr6:138132367-138132447 1.04e-02 26_[+5(3.01e-06)]_46 chr11:85919831-85919911 9.96e-01 80 chr7:145500581-145500661 9.35e-01 80 chr20:46169623-46169703 1.08e-01 8_[+4(9.44e-06)]_64 chr1:52114590-52114670 9.99e-01 80 chr8:91140068-91140148 9.06e-01 80 chr1:113161017-113161097 7.68e-01 80 chr7:130602564-130602644 8.31e-01 80 chr22:22163496-22163576 6.97e-01 80 chr7:107385331-107385411 7.00e-01 80 chr1:36253335-36253415 5.38e-01 80 chr21:22527674-22527754 8.36e-01 80 chr8:26244998-26245078 7.28e-01 80 chr4:140539145-140539225 5.00e-01 80 chr7:100439269-100439349 1.00e+00 80 chr6:10839192-10839272 2.38e-03 80 chr21:30687248-30687328 1.42e-01 80 chr12:53038952-53039032 4.12e-05 7_[+1(2.90e-06)]_40_[+1(9.75e-05)]_\ 17 chr1:17009168-17009248 8.80e-01 80 chr3:32744194-32744274 2.83e-01 80 chr5:89954946-89955026 8.89e-01 80 chr18:3494297-3494377 6.10e-02 80 chr17:58678977-58679057 1.87e-01 80 chr12:24039827-24039907 9.71e-01 80 chr2:74115486-74115566 2.12e-01 80 chr21:45613631-45613711 2.91e-01 80 chr22:21013588-21013668 3.56e-01 80 chr2:70471461-70471541 4.82e-01 80 chr4:29580-29660 1.00e+00 80 chr6:36634565-36634645 8.75e-01 80 chr6:26364905-26364985 5.76e-03 80 chr18:1061494-1061574 6.03e-01 80 chr15:63518675-63518755 7.03e-01 80 chr1:173400204-173400284 3.53e-01 80 chr18:9925391-9925471 9.94e-01 80 chr10:72994394-72994474 3.36e-01 80 chr12:49759366-49759446 3.90e-01 80 chr10:75253378-75253458 8.32e-01 80 chr22:23178588-23178668 3.30e-01 80 chr7:106743682-106743762 9.99e-01 80 chr3:136676362-136676442 9.44e-01 80 chr18:9743274-9743354 7.39e-01 80 chr7:106704781-106704861 9.76e-01 80 chr7:130629924-130630004 7.39e-02 80 chr1:17059410-17059490 6.55e-02 80 chr6:27200058-27200138 9.11e-01 80 chr20:46235642-46235722 4.70e-02 80 chr2:27232132-27232212 4.52e-01 80 chr1:204350772-204350852 4.41e-01 80 chr1:38349714-38349794 7.47e-01 80 chr3:195752723-195752803 7.41e-01 80 chr1:40454583-40454663 4.35e-02 42_[+4(9.44e-06)]_30 chr13:93192492-93192572 4.81e-02 80 chr7:104909906-104909986 5.81e-04 38_[+1(2.90e-06)]_34 chr8:74805519-74805599 9.41e-02 80 chr1:25091776-25091856 7.79e-01 80 chr5:139565743-139565823 8.63e-01 80 chr1:144910255-144910335 9.96e-01 80 chr6:27532805-27532885 4.74e-01 80 chr1:145113177-145113257 7.59e-01 80 chr7:106238830-106238910 6.97e-01 80 chr18:9116624-9116704 9.55e-01 80 chr22:23174295-23174375 9.65e-01 80 chr7:104622947-104623027 6.15e-01 80 chr6:45415214-45415294 9.96e-01 80 chr1:43283398-43283478 7.50e-01 80 chr13:93265208-93265288 4.91e-01 80 chr1:26251132-26251212 8.03e-01 80 chr11:9010768-9010848 2.57e-01 80 chr7:116628318-116628398 9.97e-01 80 chr8:117884475-117884555 7.01e-01 80 chr2:178160720-178160800 1.00e+00 80 chr3:196619783-196619863 9.03e-02 80 chr17:57906278-57906358 2.05e-01 80 chr3:81793661-81793741 2.53e-03 41_[+3(3.11e-06)]_31 chr7:135618028-135618108 3.92e-03 80 chr7:120590130-120590210 9.68e-01 80 chr9:123578117-123578197 7.95e-01 80 chr21:45437929-45438009 8.47e-01 80 chr16:11676532-11676612 2.29e-03 52_[+2(3.12e-06)]_20 chr12:118558393-11855847 8.57e-01 80 chr7:138726361-138726441 6.21e-01 80 chr17:66032764-66032844 9.99e-01 80 chr5:39176967-39177047 3.97e-01 80 chr7:130819610-130819690 1.58e-01 80 chr13:90492662-90492742 5.83e-01 80 chr22:23175456-23175536 6.43e-01 80 chr5:89950472-89950552 5.92e-01 80 chr1:224007762-224007842 3.36e-01 80 chr1:15841829-15841909 3.70e-01 80 chr1:234749443-234749523 9.87e-03 47_[+3(3.11e-06)]_25 chr1:46067162-46067242 9.94e-01 80 chr7:106506989-106507069 7.21e-03 37_[+1(9.75e-05)]_35 chr7:105470174-105470254 8.21e-01 80 chr22:22428007-22428087 9.74e-01 80 chr1:38571073-38571153 1.50e-02 34_[+1(9.75e-05)]_38 chr6:34624454-34624534 3.40e-05 41_[+1(9.75e-05)]_31 chr17:43657712-43657792 7.11e-01 80 chr3:36966694-36966774 2.95e-01 80 chr1:93175318-93175398 9.98e-01 80 chr8:38029497-38029577 4.68e-02 80 chr7:131013547-131013627 6.59e-01 80 chr22:23186260-23186340 4.17e-01 80 chr1:145074181-145074261 8.33e-01 80 chr1:78143653-78143733 8.84e-01 80 chr5:89938842-89938922 8.38e-01 80 chr1:144006270-144006350 1.00e+00 80 chr22:22523369-22523449 3.79e-01 80 chr10:63517472-63517552 6.73e-01 80 chr2:175976051-175976131 3.61e-01 80 chr1:118277883-118277963 4.23e-01 80 chr5:77974090-77974170 6.04e-01 80 chr12:122817763-12281784 6.41e-01 80 chr21:45445430-45445510 3.78e-01 80 chr6:26570026-26570106 4.67e-01 80 chr10:50395748-50395828 3.46e-01 80 chr1:174941198-174941278 4.35e-01 80 chr2:10447749-10447829 7.11e-01 80 chr7:120682675-120682755 6.75e-02 80 chr2:171945847-171945927 1.67e-01 80 chr6:27343389-27343469 2.74e-01 80 chr10:70168725-70168805 8.49e-01 80 chr16:16067104-16067184 6.51e-01 80 chr3:15247061-15247141 8.67e-01 80 chr16:79790908-79790988 6.43e-01 80 chr22:22568423-22568503 8.24e-01 80 chr1:113211668-113211748 9.95e-01 80 chr7:133039992-133040072 9.10e-01 80 chr6:26053662-26053742 3.94e-02 80 chr7:106962409-106962489 3.97e-01 80 chr4:79682087-79682167 2.01e-01 80 chr1:28462304-28462384 6.68e-01 80 chr22:22162458-22162538 3.81e-01 80 chr6:36572890-36572970 3.80e-01 80 chr5:39115699-39115779 9.72e-01 80 chr1:40845898-40845978 9.05e-01 80 chr15:63790137-63790217 3.62e-01 80 chr7:139899707-139899787 9.79e-01 80 chr6:26120985-26121065 1.24e-01 80 chr7:123369425-123369505 9.98e-01 80 chr1:162532828-162532908 9.56e-01 80 chr1:78227874-78227954 6.31e-02 80 chr8:56991948-56992028 1.20e-01 80 chr1:213244106-213244186 9.34e-01 80 chr8:124084270-124084350 5.29e-02 80 chr7:99404608-99404688 1.00e+00 80 chr6:68590923-68591003 4.65e-01 80 chr10:17080293-17080373 2.20e-01 80 chr8:104090957-104091037 5.73e-02 80 chr4:129482205-129482285 2.97e-01 80 chr6:17907450-17907530 2.25e-01 80 chr1:231685858-231685938 6.11e-01 80 chr13:41246467-41246547 9.68e-01 80 chr7:115872247-115872327 8.51e-01 80 chr3:47088773-47088853 1.06e-02 13_[+4(7.90e-05)]_59 chr1:197632892-197632972 4.06e-02 80 chr13:91657190-91657270 9.64e-01 80 chr1:111681662-111681742 3.79e-01 80 chr3:23982007-23982087 9.89e-01 80 chr1:145123007-145123087 8.41e-01 80 chr10:63667281-63667361 9.30e-01 80 chr2:170428399-170428479 8.51e-01 80 chr8:29111646-29111726 1.44e-02 80 chr4:144800813-144800893 9.94e-01 80 chr2:61111929-61112009 9.57e-01 80 chr2:174262765-174262845 7.86e-01 80 chr13:91730684-91730764 7.07e-01 80 chr3:183724440-183724520 7.09e-01 80 chr22:22417518-22417598 9.99e-01 80 chr1:26259130-26259210 3.28e-01 80 chr1:100231632-100231712 2.16e-01 80 chr2:47425750-47425830 2.02e-01 80 chr22:23181314-23181394 9.31e-01 80 chr3:17772336-17772416 1.35e-01 80 chr10:75734219-75734299 4.19e-01 80 chr7:39664566-39664646 9.23e-01 80 chr12:107335339-10733541 4.02e-01 80 chr6:157103827-157103907 9.52e-01 80 chr6:31530948-31531028 1.00e+00 80 chr6:26678694-26678774 9.97e-01 80 chr6:147223821-147223901 9.55e-01 80 chr11:61730829-61730909 9.43e-06 72_[+4(3.39e-06)] chrX:154564048-154564128 5.47e-01 80 chr6:26214059-26214139 1.20e-01 80 chr21:45436109-45436189 4.11e-02 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c22n07.farnam.hpc.yale.internal ********************************************************************************