******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 5.5.1 (Release date: Sun Jan 29 10:33:12 2023 -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= ./pr7/hk.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ KDALMLAG_00001 1.0000 100 KDALMLAG_00005 1.0000 100 KDALMLAG_00040 1.0000 100 KDALMLAG_00042 1.0000 100 KDALMLAG_00051 1.0000 100 KDALMLAG_00074 1.0000 100 KDALMLAG_00096 1.0000 100 KDALMLAG_00097 1.0000 100 KDALMLAG_00137 1.0000 100 KDALMLAG_00139 1.0000 100 KDALMLAG_00153 1.0000 100 KDALMLAG_00177 1.0000 100 KDALMLAG_00178 1.0000 100 KDALMLAG_00185 1.0000 100 KDALMLAG_00230 1.0000 100 KDALMLAG_00241 1.0000 100 KDALMLAG_00273 1.0000 100 KDALMLAG_00280 1.0000 100 KDALMLAG_00316 1.0000 100 KDALMLAG_00346 1.0000 100 KDALMLAG_00354 1.0000 100 KDALMLAG_00359 1.0000 100 KDALMLAG_00458 1.0000 100 KDALMLAG_00471 1.0000 100 KDALMLAG_00494 1.0000 100 KDALMLAG_00528 1.0000 100 KDALMLAG_00536 1.0000 100 KDALMLAG_00606 1.0000 100 KDALMLAG_00626 1.0000 100 KDALMLAG_00718 1.0000 100 KDALMLAG_00746 1.0000 100 KDALMLAG_00793 1.0000 100 KDALMLAG_00797 1.0000 100 KDALMLAG_00806 1.0000 100 KDALMLAG_00852 1.0000 100 KDALMLAG_00867 1.0000 100 KDALMLAG_00868 1.0000 100 KDALMLAG_00870 1.0000 100 KDALMLAG_00871 1.0000 100 KDALMLAG_00872 1.0000 100 KDALMLAG_00873 1.0000 100 KDALMLAG_00874 1.0000 100 KDALMLAG_00875 1.0000 100 KDALMLAG_00971 1.0000 100 KDALMLAG_01011 1.0000 100 KDALMLAG_01066 1.0000 100 KDALMLAG_01067 1.0000 100 KDALMLAG_01068 1.0000 100 KDALMLAG_01069 1.0000 100 KDALMLAG_01070 1.0000 100 KDALMLAG_01071 1.0000 100 KDALMLAG_01072 1.0000 100 KDALMLAG_01073 1.0000 100 KDALMLAG_01074 1.0000 100 KDALMLAG_01075 1.0000 100 KDALMLAG_01076 1.0000 100 KDALMLAG_01077 1.0000 100 KDALMLAG_01078 1.0000 100 KDALMLAG_01079 1.0000 100 KDALMLAG_01080 1.0000 100 KDALMLAG_01081 1.0000 100 KDALMLAG_01082 1.0000 100 KDALMLAG_01083 1.0000 100 KDALMLAG_01084 1.0000 100 KDALMLAG_01085 1.0000 100 KDALMLAG_01089 1.0000 100 KDALMLAG_01090 1.0000 100 KDALMLAG_01091 1.0000 100 KDALMLAG_01092 1.0000 100 KDALMLAG_01093 1.0000 100 KDALMLAG_01107 1.0000 100 KDALMLAG_01134 1.0000 100 KDALMLAG_01175 1.0000 100 KDALMLAG_01251 1.0000 100 KDALMLAG_01259 1.0000 100 KDALMLAG_01298 1.0000 100 KDALMLAG_01304 1.0000 100 KDALMLAG_01330 1.0000 100 KDALMLAG_01332 1.0000 100 KDALMLAG_01334 1.0000 100 KDALMLAG_01350 1.0000 100 KDALMLAG_01372 1.0000 100 KDALMLAG_01385 1.0000 100 KDALMLAG_01432 1.0000 100 KDALMLAG_01469 1.0000 100 KDALMLAG_01488 1.0000 100 KDALMLAG_01497 1.0000 100 KDALMLAG_01534 1.0000 100 KDALMLAG_01540 1.0000 100 KDALMLAG_01629 1.0000 100 KDALMLAG_01642 1.0000 100 KDALMLAG_01691 1.0000 100 KDALMLAG_01702 1.0000 100 KDALMLAG_01703 1.0000 100 KDALMLAG_01704 1.0000 100 KDALMLAG_01715 1.0000 100 KDALMLAG_01719 1.0000 100 KDALMLAG_01752 1.0000 100 KDALMLAG_01768 1.0000 100 KDALMLAG_01770 1.0000 100 KDALMLAG_01784 1.0000 100 KDALMLAG_01785 1.0000 100 KDALMLAG_01820 1.0000 100 KDALMLAG_01920 1.0000 100 KDALMLAG_01959 1.0000 100 KDALMLAG_01960 1.0000 100 KDALMLAG_02060 1.0000 100 KDALMLAG_02153 1.0000 100 KDALMLAG_02188 1.0000 100 KDALMLAG_02191 1.0000 100 KDALMLAG_02228 1.0000 100 KDALMLAG_02298 1.0000 100 KDALMLAG_02318 1.0000 100 KDALMLAG_02319 1.0000 100 KDALMLAG_02465 1.0000 100 KDALMLAG_02499 1.0000 100 KDALMLAG_02512 1.0000 100 KDALMLAG_02566 1.0000 100 KDALMLAG_02659 1.0000 100 KDALMLAG_02660 1.0000 100 KDALMLAG_02691 1.0000 100 KDALMLAG_02739 1.0000 100 KDALMLAG_02752 1.0000 100 KDALMLAG_02788 1.0000 100 KDALMLAG_02789 1.0000 100 KDALMLAG_02790 1.0000 100 KDALMLAG_02793 1.0000 100 KDALMLAG_02812 1.0000 100 KDALMLAG_02815 1.0000 100 KDALMLAG_02816 1.0000 100 KDALMLAG_02817 1.0000 100 KDALMLAG_02818 1.0000 100 KDALMLAG_02819 1.0000 100 KDALMLAG_02820 1.0000 100 KDALMLAG_02821 1.0000 100 KDALMLAG_02876 1.0000 100 KDALMLAG_02887 1.0000 100 KDALMLAG_02896 1.0000 100 KDALMLAG_02898 1.0000 100 KDALMLAG_02905 1.0000 100 KDALMLAG_02930 1.0000 100 KDALMLAG_02949 1.0000 100 KDALMLAG_03073 1.0000 100 KDALMLAG_03140 1.0000 100 KDALMLAG_03144 1.0000 100 KDALMLAG_03150 1.0000 100 KDALMLAG_03172 1.0000 100 KDALMLAG_03177 1.0000 100 KDALMLAG_03213 1.0000 100 KDALMLAG_03228 1.0000 100 KDALMLAG_03245 1.0000 100 KDALMLAG_03247 1.0000 100 KDALMLAG_03249 1.0000 100 KDALMLAG_03289 1.0000 100 KDALMLAG_03304 1.0000 100 KDALMLAG_03356 1.0000 100 KDALMLAG_03371 1.0000 100 KDALMLAG_03441 1.0000 100 KDALMLAG_03442 1.0000 100 KDALMLAG_03466 1.0000 100 KDALMLAG_03486 1.0000 100 KDALMLAG_03508 1.0000 100 KDALMLAG_03519 1.0000 100 KDALMLAG_03571 1.0000 100 KDALMLAG_03574 1.0000 100 KDALMLAG_03625 1.0000 100 KDALMLAG_03626 1.0000 100 KDALMLAG_03627 1.0000 100 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme ./pr7/hk.fasta -dna -nmotifs 3 -minw 6 model: mod= zoops nmotifs= 3 evt= inf objective function: em= E-value of product of p-values starts= E-value of product of p-values strands: + width: minw= 6 maxw= 50 nsites: minsites= 2 maxsites= 168 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= 16800 N= 168 sample: seed= 0 hsfrac= 0 searchsize= 16800 norand= no csites= 1000 Letter frequencies in dataset: A 0.237 C 0.25 G 0.285 T 0.228 Background letter frequencies (from file dataset with add-one prior applied): A 0.237 C 0.25 G 0.285 T 0.228 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF WWBDSNGAARRNGKHVGYAAARKARCMSRRAHCANHGCRGRRRARSGWG MEME-1 width = 49 sites = 11 llr = 248 E-value = 8.3e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif WWBDSNGAARRNGKHVGYAAARKARCMSRRAHCANHGCRGRRRARSGWG MEME-1 Description -------------------------------------------------------------------------------- Simplified A 5513233a6333:223:178742631515373:7241162655942151 pos.-specific C 1:4:331:22131:433512:111153411159:3317:2:2::24::: probability G :143526::5537515711:353152:555::11417:45433:55919 matrix T 4525:3::2:12244::31:::52222::123:22312:1:121:::4: bits 2.1 * 1.9 * 1.7 * * 1.5 * * * * * Relative 1.3 * * * * * * Entropy 1.1 * * ** * ** * * * * * (32.5 bits) 0.9 * ** * * *** * ** ** * * *** 0.6 ** *** * * **** * *** * ** *** * ** *** 0.4 ** ** **** ** ******* * *** **** *** * ******* 0.2 ***** ***** ********************** ************** 0.0 ------------------------------------------------- Multilevel AACTGAGAAGGAGGCGGCAAAGTAGCAGAGACCAGAGCAGAAAAGGGAG consensus TTGACCA AAC TTACT GAG A CCGA A CC G GGG AC T sequence G T G C T T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WWBDSNGAARRNGKHVGYAAARKARCMSRRAHCANHGCRGRRRARSGWG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------------------------------------------- KDALMLAG_02752 33 4.72e-15 GTGGCCGGGT TAAGGAGAAGGTGGTCGCAAAATAGCCCGGACCAGTGCGCGGTAGCGAG TAGTGTCCTC KDALMLAG_03150 33 3.72e-14 TTGACCCGGA CACAGCGAAGGCGGCCGTAAAGTGGCCCGGACCAGAGCGCGATAGCGAG TAGCGTCCTC KDALMLAG_01083 46 6.32e-12 TGTGATGAGC TTGTAGGAAGCAGGCGGTCCGAGAACAGAAAACACAGCATAAGAGAGAG TGAGCC KDALMLAG_00868 43 1.43e-11 GAAAGCGCGG TTCAGGAAAGGGTACCGCGAACGAATTGGGTCCTCAGCAGAGAAAGGAG ACTGGCTCC KDALMLAG_01332 2 2.41e-11 C ATTGCCGATGAGGTAGGCAAAATTTTACAACTCAGGGTGGAAAACCGTG GCAAGCGCAC KDALMLAG_00139 27 5.10e-11 CGGAGGTTCA AACGCTGAAAGCTGTGCCACAGAAAGCCAGAAGAATTCAGAAAAAGGTA GTTAAGCATA KDALMLAG_00040 4 5.10e-11 GCC ATTTGTGACATCCTGAGGAAAGAAGCAGGAATCACCGCAGACGTGGGTG AATCCGGTCA KDALMLAG_00874 36 7.61e-11 CGGCATATTT AACTGACACCGAGATAGCAAGGTAGCTGAGAACTTCGCAAATAAGAAGG GAAATCGAGG KDALMLAG_02812 41 2.05e-10 GTTGAGTGGA TTGTGTGATCAGGTAACTTAAGTTCGAGGTTCCAGACCAGAGAACGGAG ATTGATCGAG KDALMLAG_02788 46 2.37e-10 CGTGGGGTTA AGGTACAAAAAAGTTGCAAAAAGATCAAAGATCGTCGTGAGAGAACGAG TCCAGC KDALMLAG_01084 3 3.90e-10 AG AAGACAAAAGGTGGCGGCAAGGCCGAAGCCACCAATAAAGGCAAAGGTG GGGAGAAAAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WWBDSNGAARRNGKHVGYAAARKARCMSRRAHCANHGCRGRRRARSGWG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- KDALMLAG_02752 4.7e-15 32_[+1]_19 KDALMLAG_03150 3.7e-14 32_[+1]_19 KDALMLAG_01083 6.3e-12 45_[+1]_6 KDALMLAG_00868 1.4e-11 42_[+1]_9 KDALMLAG_01332 2.4e-11 1_[+1]_50 KDALMLAG_00139 5.1e-11 26_[+1]_25 KDALMLAG_00040 5.1e-11 3_[+1]_48 KDALMLAG_00874 7.6e-11 35_[+1]_16 KDALMLAG_02812 2e-10 40_[+1]_11 KDALMLAG_02788 2.4e-10 45_[+1]_6 KDALMLAG_01084 3.9e-10 2_[+1]_49 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WWBDSNGAARRNGKHVGYAAARKARCMSRRAHCANHGCRGRRRARSGWG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF WWBDSNGAARRNGKHVGYAAARKARCMSRRAHCANHGCRGRRRARSGWG width=49 seqs=11 KDALMLAG_02752 ( 33) TAAGGAGAAGGTGGTCGCAAAATAGCCCGGACCAGTGCGCGGTAGCGAG 1 KDALMLAG_03150 ( 33) CACAGCGAAGGCGGCCGTAAAGTGGCCCGGACCAGAGCGCGATAGCGAG 1 KDALMLAG_01083 ( 46) TTGTAGGAAGCAGGCGGTCCGAGAACAGAAAACACAGCATAAGAGAGAG 1 KDALMLAG_00868 ( 43) TTCAGGAAAGGGTACCGCGAACGAATTGGGTCCTCAGCAGAGAAAGGAG 1 KDALMLAG_01332 ( 2) ATTGCCGATGAGGTAGGCAAAATTTTACAACTCAGGGTGGAAAACCGTG 1 KDALMLAG_00139 ( 27) AACGCTGAAAGCTGTGCCACAGAAAGCCAGAAGAATTCAGAAAAAGGTA 1 KDALMLAG_00040 ( 4) ATTTGTGACATCCTGAGGAAAGAAGCAGGAATCACCGCAGACGTGGGTG 1 KDALMLAG_00874 ( 36) AACTGACACCGAGATAGCAAGGTAGCTGAGAACTTCGCAAATAAGAAGG 1 KDALMLAG_02812 ( 41) TTGTGTGATCAGGTAACTTAAGTTCGAGGTTCCAGACCAGAGAACGGAG 1 KDALMLAG_02788 ( 46) AGGTACAAAAAAGTTGCAAAAAGATCAAAGATCGTCGTGAGAGAACGAG 1 KDALMLAG_01084 ( 3) AAGACAAAAGGTGGCGGCAAGGCCGAAGCCACCAATAAAGGCAAAGGTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WWBDSNGAARRNGKHVGYAAARKARCMSRRAHCANHGCRGRRRARSGWG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 49 n= 8736 bayes= 9.18339 E= 8.3e+000 120 -146 -1010 68 94 -1010 -164 100 -138 54 35 -32 20 -1010 -6 100 -38 12 94 -1010 20 12 -65 26 20 -146 116 -1010 207 -1010 -1010 -1010 142 -46 -1010 -32 20 -46 94 -1010 20 -146 94 -132 20 12 -6 -32 -1010 -146 135 -32 -38 -1010 67 68 -38 54 -164 68 20 12 67 -1010 -1010 12 135 -1010 -138 112 -164 26 161 -146 -164 -132 178 -46 -1010 -1010 161 -1010 -6 -1010 62 -146 94 -1010 -38 -146 -6 100 142 -146 -164 -32 20 -146 67 -32 -138 112 -65 -32 120 12 -1010 -32 -138 54 94 -1010 94 -146 67 -1010 20 -146 94 -132 161 -146 -1010 -32 20 86 -1010 26 -1010 186 -164 -1010 161 -1010 -164 -32 -38 12 35 -32 62 12 -164 26 -138 -146 135 -132 -138 154 -1010 -32 142 -1010 35 -1010 -38 -46 94 -132 142 -1010 35 -1010 94 -46 -6 -132 120 -1010 -6 -32 194 -1010 -1010 -132 62 -46 67 -1010 -38 54 67 -1010 -138 -1010 167 -1010 120 -1010 -164 68 -138 -1010 167 -1010 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WWBDSNGAARRNGKHVGYAAARKARCMSRRAHCANHGCRGRRRARSGWG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 49 nsites= 11 E= 8.3e+000 0.545455 0.090909 0.000000 0.363636 0.454545 0.000000 0.090909 0.454545 0.090909 0.363636 0.363636 0.181818 0.272727 0.000000 0.272727 0.454545 0.181818 0.272727 0.545455 0.000000 0.272727 0.272727 0.181818 0.272727 0.272727 0.090909 0.636364 0.000000 1.000000 0.000000 0.000000 0.000000 0.636364 0.181818 0.000000 0.181818 0.272727 0.181818 0.545455 0.000000 0.272727 0.090909 0.545455 0.090909 0.272727 0.272727 0.272727 0.181818 0.000000 0.090909 0.727273 0.181818 0.181818 0.000000 0.454545 0.363636 0.181818 0.363636 0.090909 0.363636 0.272727 0.272727 0.454545 0.000000 0.000000 0.272727 0.727273 0.000000 0.090909 0.545455 0.090909 0.272727 0.727273 0.090909 0.090909 0.090909 0.818182 0.181818 0.000000 0.000000 0.727273 0.000000 0.272727 0.000000 0.363636 0.090909 0.545455 0.000000 0.181818 0.090909 0.272727 0.454545 0.636364 0.090909 0.090909 0.181818 0.272727 0.090909 0.454545 0.181818 0.090909 0.545455 0.181818 0.181818 0.545455 0.272727 0.000000 0.181818 0.090909 0.363636 0.545455 0.000000 0.454545 0.090909 0.454545 0.000000 0.272727 0.090909 0.545455 0.090909 0.727273 0.090909 0.000000 0.181818 0.272727 0.454545 0.000000 0.272727 0.000000 0.909091 0.090909 0.000000 0.727273 0.000000 0.090909 0.181818 0.181818 0.272727 0.363636 0.181818 0.363636 0.272727 0.090909 0.272727 0.090909 0.090909 0.727273 0.090909 0.090909 0.727273 0.000000 0.181818 0.636364 0.000000 0.363636 0.000000 0.181818 0.181818 0.545455 0.090909 0.636364 0.000000 0.363636 0.000000 0.454545 0.181818 0.272727 0.090909 0.545455 0.000000 0.272727 0.181818 0.909091 0.000000 0.000000 0.090909 0.363636 0.181818 0.454545 0.000000 0.181818 0.363636 0.454545 0.000000 0.090909 0.000000 0.909091 0.000000 0.545455 0.000000 0.090909 0.363636 0.090909 0.000000 0.909091 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WWBDSNGAARRNGKHVGYAAARKARCMSRRAHCANHGCRGRRRARSGWG MEME-1 regular expression -------------------------------------------------------------------------------- [AT][AT][CG][TAG][GC][ACT][GA]AA[GA][GA][ACG]G[GT][CT][GAC][GC][CT]AA[AG][GA][TG]A[GA]C[AC][GC][AG][GA]A[CAT]CA[GC][ACT]GC[AG]G[AG][AG][AG]A[GA][GC]G[AT]G -------------------------------------------------------------------------------- Time 17.62 secs. ******************************************************************************** ******************************************************************************** MOTIF ACNYWWCCACNCYBWCAAGSYWSTATHATBTYNKCYCCMM MEME-2 width = 40 sites = 6 llr = 167 E-value = 1.8e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif ACNYWWCCACNCYBWCAAGSYWSTATHATBTYNKCYCCMM MEME-2 Description -------------------------------------------------------------------------------- Simplified A 8:2:3322822:::3288:2:3228:382:2:22::2:55 pos.-specific C :a35:288:73a33272::55:3:::3::3:33:835a53 probability G 2:32::::222::3::::83225:2::2:3::35::2::: matrix T ::2375::::3:7352:22:35:8:a3:838723272::2 bits 2.1 * 1.9 * * * * 1.7 * * * * 1.5 * * ** * * * * * Relative 1.3 ** * *** * *** *** ** * * * Entropy 1.1 ** * *** ** *** *** ** ** ** ** (40.2 bits) 0.9 ** * *** ** **** *** ** ** ** ** 0.6 ** ******* ** ***** ** *** ** ** ** *** 0.4 ** ******* ********************* *** *** 0.2 ** ***************************** ******* 0.0 ---------------------------------------- Multilevel ACCCTTCCACCCTCTCAAGCCTGTATAATCTTCGCTCCAA consensus GTAA T CGA GTAC C G CGT C CC sequence T T T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACNYWWCCACNCYBWCAAGSYWSTATHATBTYNKCYCCMM MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------------------------------------- KDALMLAG_03466 26 1.61e-15 CTTGACGGCA ACGTTCCCACCCCGTTAAGGCGCTATAATGTTGGCTCCAA CGGGGCGCTG KDALMLAG_01702 31 5.55e-15 TATTCTCATA ACGTATCCACGCTTACAAGCTTGTATTAACTTATCTTCAT GCATAATCGA KDALMLAG_02188 29 2.13e-13 GAGTATCCGG ACTCTACCACCCTTCCCAGACTGTATCATTACTGTTACAA TACTCAGGAA KDALMLAG_02691 46 2.67e-13 GGGTGTCAAC GCCCTTCAACACTGTAAAGCTAATATTATCTTGACCGCCC GCGCTCCGAG KDALMLAG_03249 24 4.78e-13 GGTACTTTGG ACCGTTCCGGTCCCTCAAGCCACAATAGTGTCCGCCCCCA CACCGCTTAC KDALMLAG_02566 53 1.07e-12 GGCCATTGAC ACACAAACAATCTCACATTGGTGTGTCATTTTCTCTCCCC TGGGCTAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACNYWWCCACNCYBWCAAGSYWSTATHATBTYNKCYCCMM MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- KDALMLAG_03466 1.6e-15 25_[+2]_35 KDALMLAG_01702 5.6e-15 30_[+2]_30 KDALMLAG_02188 2.1e-13 28_[+2]_32 KDALMLAG_02691 2.7e-13 45_[+2]_15 KDALMLAG_03249 4.8e-13 23_[+2]_37 KDALMLAG_02566 1.1e-12 52_[+2]_8 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACNYWWCCACNCYBWCAAGSYWSTATHATBTYNKCYCCMM MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF ACNYWWCCACNCYBWCAAGSYWSTATHATBTYNKCYCCMM width=40 seqs=6 KDALMLAG_03466 ( 26) ACGTTCCCACCCCGTTAAGGCGCTATAATGTTGGCTCCAA 1 KDALMLAG_01702 ( 31) ACGTATCCACGCTTACAAGCTTGTATTAACTTATCTTCAT 1 KDALMLAG_02188 ( 29) ACTCTACCACCCTTCCCAGACTGTATCATTACTGTTACAA 1 KDALMLAG_02691 ( 46) GCCCTTCAACACTGTAAAGCTAATATTATCTTGACCGCCC 1 KDALMLAG_03249 ( 24) ACCGTTCCGGTCCCTCAAGCCACAATAGTGTCCGCCCCCA 1 KDALMLAG_02566 ( 53) ACACAAACAATCTCACATTGGTGTGTCATTTTCTCTCCCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACNYWWCCACNCYBWCAAGSYWSTATHATBTYNKCYCCMM MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 40 n= 10248 bayes= 11.1849 E= 1.8e+000 181 -923 -77 -923 -923 200 -923 -923 -51 41 23 -45 -923 100 -77 55 49 -923 -923 155 49 -59 -923 113 -51 173 -923 -923 -51 173 -923 -923 181 -923 -77 -923 -51 141 -77 -923 -51 41 -77 55 -923 200 -923 -923 -923 41 -923 155 -923 41 23 55 49 -59 -923 113 -51 141 -923 -45 181 -59 -923 -923 181 -923 -923 -45 -923 -923 155 -45 -51 100 23 -923 -923 100 -77 55 49 -923 -77 113 -51 41 81 -923 -51 -923 -923 187 181 -923 -77 -923 -923 -923 -923 213 49 41 -923 55 181 -923 -77 -923 -51 -923 -923 187 -923 41 23 55 -51 -923 -923 187 -923 41 -923 155 -51 41 23 -45 -51 -923 81 55 -923 173 -923 -45 -923 41 -923 155 -51 100 -77 -45 -923 200 -923 -923 107 100 -923 -923 107 41 -923 -45 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACNYWWCCACNCYBWCAAGSYWSTATHATBTYNKCYCCMM MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 40 nsites= 6 E= 1.8e+000 0.833333 0.000000 0.166667 0.000000 0.000000 1.000000 0.000000 0.000000 0.166667 0.333333 0.333333 0.166667 0.000000 0.500000 0.166667 0.333333 0.333333 0.000000 0.000000 0.666667 0.333333 0.166667 0.000000 0.500000 0.166667 0.833333 0.000000 0.000000 0.166667 0.833333 0.000000 0.000000 0.833333 0.000000 0.166667 0.000000 0.166667 0.666667 0.166667 0.000000 0.166667 0.333333 0.166667 0.333333 0.000000 1.000000 0.000000 0.000000 0.000000 0.333333 0.000000 0.666667 0.000000 0.333333 0.333333 0.333333 0.333333 0.166667 0.000000 0.500000 0.166667 0.666667 0.000000 0.166667 0.833333 0.166667 0.000000 0.000000 0.833333 0.000000 0.000000 0.166667 0.000000 0.000000 0.833333 0.166667 0.166667 0.500000 0.333333 0.000000 0.000000 0.500000 0.166667 0.333333 0.333333 0.000000 0.166667 0.500000 0.166667 0.333333 0.500000 0.000000 0.166667 0.000000 0.000000 0.833333 0.833333 0.000000 0.166667 0.000000 0.000000 0.000000 0.000000 1.000000 0.333333 0.333333 0.000000 0.333333 0.833333 0.000000 0.166667 0.000000 0.166667 0.000000 0.000000 0.833333 0.000000 0.333333 0.333333 0.333333 0.166667 0.000000 0.000000 0.833333 0.000000 0.333333 0.000000 0.666667 0.166667 0.333333 0.333333 0.166667 0.166667 0.000000 0.500000 0.333333 0.000000 0.833333 0.000000 0.166667 0.000000 0.333333 0.000000 0.666667 0.166667 0.500000 0.166667 0.166667 0.000000 1.000000 0.000000 0.000000 0.500000 0.500000 0.000000 0.000000 0.500000 0.333333 0.000000 0.166667 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACNYWWCCACNCYBWCAAGSYWSTATHATBTYNKCYCCMM MEME-2 regular expression -------------------------------------------------------------------------------- AC[CG][CT][TA][TA]CCAC[CT]C[TC][CGT][TA]CAAG[CG][CT][TA][GC]TAT[ACT]AT[CGT]T[TC][CG][GT]C[TC]CC[AC][AC] -------------------------------------------------------------------------------- Time 33.97 secs. ******************************************************************************** ******************************************************************************** MOTIF AAACBGCCKGRAAANAASTKA MEME-3 width = 21 sites = 10 llr = 151 E-value = 1.4e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif AAACBGCCKGRAAANAASTKA MEME-3 Description -------------------------------------------------------------------------------- Simplified A 7a621:111:6989377::17 pos.-specific C ::264:961::1:12336:12 probability G 3:1:2a:1384:1:3::4:4: matrix T ::123::252::1:2:::a41 bits 2.1 * * 1.9 * * 1.7 * * * 1.5 * ** * * * Relative 1.3 * ** * * * Entropy 1.1 ** ** ***** ** * (21.7 bits) 0.9 ** ** ***** **** * 0.6 ** * ** ***** **** * 0.4 **** ********* **** * 0.2 ************** ****** 0.0 --------------------- Multilevel AAACCGCCTGAAAAAAACTGA consensus G CAT TGTG GCCG TC sequence TG C T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAACBGCCKGRAAANAASTKA MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- KDALMLAG_02566 19 2.10e-12 TTAACGCCAA AAACTGCCTGAAAAGAACTGA AGGGGCCATT KDALMLAG_01251 55 6.56e-09 TCCCACCAAC GACCCGCCTGAAACGAACTTA GCGCTTGTGG KDALMLAG_01078 45 1.73e-08 GGTAGCAAGG GAACTGCGGGAAAAGAACTTC ATGAAGATCG KDALMLAG_02512 19 3.11e-08 TATGACCTCG AAACCGCTTGGAGAACCCTGA CTTTTTCGCT KDALMLAG_02819 19 4.91e-08 TTTCCGGGTG AACTGGCTTGGAAAAACGTGA CTCAGGTTTC KDALMLAG_00280 1 5.85e-08 . AAACTGCCCTAAAAACAGTTT TAAAGCCCTT KDALMLAG_01089 60 9.64e-08 AGGTGATAAA AAATAGCCGGAATATAACTAA GAGGACGGCG KDALMLAG_02905 75 3.53e-07 GTCGAACCTC AAAACGCAAGGAAATCAGTGC TGCCT KDALMLAG_03519 65 3.76e-07 CAGAAAGCGG AAGACGACTGACAACAAGTTA CAGGGGGTCC KDALMLAG_01703 45 4.82e-07 CATGTCACAA GATCGGCCGTGAAACACCTCA GGGCCGTTCG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAACBGCCKGRAAANAASTKA MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- KDALMLAG_02566 2.1e-12 18_[+3]_61 KDALMLAG_01251 6.6e-09 54_[+3]_25 KDALMLAG_01078 1.7e-08 44_[+3]_35 KDALMLAG_02512 3.1e-08 18_[+3]_61 KDALMLAG_02819 4.9e-08 18_[+3]_61 KDALMLAG_00280 5.9e-08 [+3]_79 KDALMLAG_01089 9.6e-08 59_[+3]_20 KDALMLAG_02905 3.5e-07 74_[+3]_5 KDALMLAG_03519 3.8e-07 64_[+3]_15 KDALMLAG_01703 4.8e-07 44_[+3]_35 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAACBGCCKGRAAANAASTKA MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AAACBGCCKGRAAANAASTKA width=21 seqs=10 KDALMLAG_02566 ( 19) AAACTGCCTGAAAAGAACTGA 1 KDALMLAG_01251 ( 55) GACCCGCCTGAAACGAACTTA 1 KDALMLAG_01078 ( 45) GAACTGCGGGAAAAGAACTTC 1 KDALMLAG_02512 ( 19) AAACCGCTTGGAGAACCCTGA 1 KDALMLAG_02819 ( 19) AACTGGCTTGGAAAAACGTGA 1 KDALMLAG_00280 ( 1) AAACTGCCCTAAAAACAGTTT 1 KDALMLAG_01089 ( 60) AAATAGCCGGAATATAACTAA 1 KDALMLAG_02905 ( 75) AAAACGCAAGGAAATCAGTGC 1 KDALMLAG_03519 ( 65) AAGACGACTGACAACAAGTTA 1 KDALMLAG_01703 ( 45) GATCGGCCGTGAAACACCTCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAACBGCCKGRAAANAASTKA MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 13440 bayes= 10.643 E= 1.4e+002 156 -997 7 -997 207 -997 -997 -997 134 -32 -151 -118 -25 126 -997 -19 -124 68 -51 40 -997 -997 181 -997 -124 184 -997 -997 -124 126 -151 -19 -124 -132 7 114 -997 -997 149 -19 134 -997 49 -997 192 -132 -997 -997 175 -997 -151 -118 192 -132 -997 -997 34 -32 7 -19 156 26 -997 -997 156 26 -997 -997 -997 126 49 -997 -997 -997 -997 213 -124 -132 49 81 156 -32 -997 -118 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAACBGCCKGRAAANAASTKA MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 10 E= 1.4e+002 0.700000 0.000000 0.300000 0.000000 1.000000 0.000000 0.000000 0.000000 0.600000 0.200000 0.100000 0.100000 0.200000 0.600000 0.000000 0.200000 0.100000 0.400000 0.200000 0.300000 0.000000 0.000000 1.000000 0.000000 0.100000 0.900000 0.000000 0.000000 0.100000 0.600000 0.100000 0.200000 0.100000 0.100000 0.300000 0.500000 0.000000 0.000000 0.800000 0.200000 0.600000 0.000000 0.400000 0.000000 0.900000 0.100000 0.000000 0.000000 0.800000 0.000000 0.100000 0.100000 0.900000 0.100000 0.000000 0.000000 0.300000 0.200000 0.300000 0.200000 0.700000 0.300000 0.000000 0.000000 0.700000 0.300000 0.000000 0.000000 0.000000 0.600000 0.400000 0.000000 0.000000 0.000000 0.000000 1.000000 0.100000 0.100000 0.400000 0.400000 0.700000 0.200000 0.000000 0.100000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAACBGCCKGRAAANAASTKA MEME-3 regular expression -------------------------------------------------------------------------------- [AG]A[AC][CAT][CTG]GC[CT][TG][GT][AG]AAA[AGCT][AC][AC][CG]T[GT][AC] -------------------------------------------------------------------------------- Time 49.89 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- KDALMLAG_00001 8.90e-01 100 KDALMLAG_00005 3.71e-01 100 KDALMLAG_00040 2.28e-08 3_[+1(5.10e-11)]_48 KDALMLAG_00042 7.71e-01 100 KDALMLAG_00051 6.36e-01 100 KDALMLAG_00074 3.42e-01 100 KDALMLAG_00096 9.52e-01 100 KDALMLAG_00097 7.65e-01 100 KDALMLAG_00137 2.13e-02 38_[+1(3.99e-05)]_13 KDALMLAG_00139 2.42e-07 26_[+1(5.10e-11)]_25 KDALMLAG_00153 4.78e-02 100 KDALMLAG_00177 9.80e-01 100 KDALMLAG_00178 2.43e-01 100 KDALMLAG_00185 2.55e-01 100 KDALMLAG_00230 8.70e-01 100 KDALMLAG_00241 9.43e-01 100 KDALMLAG_00273 5.45e-01 100 KDALMLAG_00280 2.40e-05 [+3(5.85e-08)]_79 KDALMLAG_00316 7.44e-01 100 KDALMLAG_00346 2.96e-01 100 KDALMLAG_00354 9.62e-01 100 KDALMLAG_00359 9.98e-01 100 KDALMLAG_00458 7.79e-01 100 KDALMLAG_00471 3.07e-01 100 KDALMLAG_00494 6.98e-01 100 KDALMLAG_00528 8.80e-01 100 KDALMLAG_00536 8.11e-01 100 KDALMLAG_00606 5.36e-02 100 KDALMLAG_00626 4.05e-01 100 KDALMLAG_00718 8.01e-01 100 KDALMLAG_00746 3.72e-01 100 KDALMLAG_00793 6.41e-01 100 KDALMLAG_00797 1.94e-01 100 KDALMLAG_00806 4.19e-01 100 KDALMLAG_00852 3.18e-01 100 KDALMLAG_00867 9.68e-01 100 KDALMLAG_00868 9.68e-08 42_[+1(1.43e-11)]_9 KDALMLAG_00870 8.97e-01 100 KDALMLAG_00871 1.95e-01 100 KDALMLAG_00872 4.92e-01 100 KDALMLAG_00873 7.39e-01 100 KDALMLAG_00874 7.48e-08 35_[+1(7.61e-11)]_16 KDALMLAG_00875 9.05e-01 100 KDALMLAG_00971 9.61e-01 100 KDALMLAG_01011 6.76e-01 100 KDALMLAG_01066 6.43e-02 100 KDALMLAG_01067 3.68e-01 100 KDALMLAG_01068 3.55e-01 100 KDALMLAG_01069 7.12e-01 100 KDALMLAG_01070 1.18e-01 100 KDALMLAG_01071 7.77e-01 100 KDALMLAG_01072 4.39e-01 100 KDALMLAG_01073 3.30e-02 100 KDALMLAG_01074 8.62e-01 100 KDALMLAG_01075 5.75e-01 100 KDALMLAG_01076 1.48e-01 100 KDALMLAG_01077 4.65e-02 100 KDALMLAG_01078 8.49e-05 44_[+3(1.73e-08)]_35 KDALMLAG_01079 5.54e-02 100 KDALMLAG_01080 1.75e-01 100 KDALMLAG_01081 4.39e-01 100 KDALMLAG_01082 6.79e-01 100 KDALMLAG_01083 1.70e-08 45_[+1(6.32e-12)]_6 KDALMLAG_01084 9.65e-07 2_[+1(3.90e-10)]_49 KDALMLAG_01085 1.29e-01 100 KDALMLAG_01089 3.58e-05 59_[+3(9.64e-08)]_20 KDALMLAG_01090 6.61e-01 100 KDALMLAG_01091 6.98e-02 100 KDALMLAG_01092 8.10e-01 100 KDALMLAG_01093 4.65e-01 100 KDALMLAG_01107 7.96e-01 100 KDALMLAG_01134 7.49e-01 100 KDALMLAG_01175 2.19e-01 100 KDALMLAG_01251 1.87e-05 54_[+3(6.56e-09)]_25 KDALMLAG_01259 5.31e-01 100 KDALMLAG_01298 5.93e-01 100 KDALMLAG_01304 8.76e-01 100 KDALMLAG_01330 6.33e-01 100 KDALMLAG_01332 2.31e-08 1_[+1(2.41e-11)]_50 KDALMLAG_01334 1.01e-01 100 KDALMLAG_01350 8.11e-01 100 KDALMLAG_01372 9.25e-01 100 KDALMLAG_01385 5.83e-01 100 KDALMLAG_01432 5.39e-01 100 KDALMLAG_01469 3.97e-02 100 KDALMLAG_01488 3.96e-01 100 KDALMLAG_01497 4.84e-01 100 KDALMLAG_01534 6.09e-01 100 KDALMLAG_01540 9.32e-01 100 KDALMLAG_01629 1.10e-01 100 KDALMLAG_01642 7.53e-01 100 KDALMLAG_01691 5.71e-02 43_[+3(9.87e-05)]_36 KDALMLAG_01702 7.37e-11 30_[+2(5.55e-15)]_30 KDALMLAG_01703 2.09e-03 44_[+3(4.82e-07)]_35 KDALMLAG_01704 7.46e-01 100 KDALMLAG_01715 3.58e-01 100 KDALMLAG_01719 4.01e-01 100 KDALMLAG_01752 9.90e-01 100 KDALMLAG_01768 4.22e-01 100 KDALMLAG_01770 3.53e-01 100 KDALMLAG_01784 4.63e-01 100 KDALMLAG_01785 8.83e-01 100 KDALMLAG_01820 9.95e-01 100 KDALMLAG_01920 5.17e-01 100 KDALMLAG_01959 2.46e-01 100 KDALMLAG_01960 1.36e-01 100 KDALMLAG_02060 7.47e-01 100 KDALMLAG_02153 9.96e-01 100 KDALMLAG_02188 7.29e-10 28_[+2(2.13e-13)]_32 KDALMLAG_02191 5.00e-01 100 KDALMLAG_02228 1.64e-01 100 KDALMLAG_02298 7.43e-02 100 KDALMLAG_02318 1.56e-01 100 KDALMLAG_02319 3.77e-01 100 KDALMLAG_02465 1.71e-01 100 KDALMLAG_02499 2.06e-01 100 KDALMLAG_02512 9.59e-05 18_[+3(3.11e-08)]_61 KDALMLAG_02566 1.99e-18 18_[+3(2.10e-12)]_13_[+2(1.07e-12)]_\ 8 KDALMLAG_02659 1.86e-01 100 KDALMLAG_02660 6.58e-01 100 KDALMLAG_02691 2.65e-09 45_[+2(2.67e-13)]_15 KDALMLAG_02739 9.46e-01 100 KDALMLAG_02752 7.90e-11 32_[+1(4.72e-15)]_19 KDALMLAG_02788 5.77e-07 45_[+1(2.37e-10)]_6 KDALMLAG_02789 3.44e-01 100 KDALMLAG_02790 8.17e-01 100 KDALMLAG_02793 7.92e-01 100 KDALMLAG_02812 1.37e-06 40_[+1(2.05e-10)]_11 KDALMLAG_02815 2.75e-01 100 KDALMLAG_02816 4.44e-01 100 KDALMLAG_02817 2.04e-01 100 KDALMLAG_02818 9.93e-01 100 KDALMLAG_02819 1.62e-04 18_[+3(4.91e-08)]_61 KDALMLAG_02820 9.47e-01 100 KDALMLAG_02821 9.50e-01 100 KDALMLAG_02876 2.75e-01 100 KDALMLAG_02887 2.67e-01 100 KDALMLAG_02896 3.15e-01 100 KDALMLAG_02898 1.65e-02 100 KDALMLAG_02905 2.36e-06 74_[+3(3.53e-07)]_5 KDALMLAG_02930 4.89e-01 100 KDALMLAG_02949 3.50e-01 100 KDALMLAG_03073 9.23e-01 100 KDALMLAG_03140 2.83e-01 100 KDALMLAG_03144 3.16e-01 100 KDALMLAG_03150 2.26e-10 32_[+1(3.72e-14)]_19 KDALMLAG_03172 5.08e-01 100 KDALMLAG_03177 9.17e-01 100 KDALMLAG_03213 6.08e-01 100 KDALMLAG_03228 3.17e-01 100 KDALMLAG_03245 6.87e-01 100 KDALMLAG_03247 7.19e-01 100 KDALMLAG_03249 8.70e-09 23_[+2(4.78e-13)]_37 KDALMLAG_03289 1.25e-01 100 KDALMLAG_03304 5.48e-02 6_[+3(4.96e-05)]_73 KDALMLAG_03356 1.49e-02 100 KDALMLAG_03371 9.67e-01 100 KDALMLAG_03441 1.55e-01 100 KDALMLAG_03442 5.27e-01 100 KDALMLAG_03466 8.43e-12 25_[+2(1.61e-15)]_35 KDALMLAG_03486 6.32e-01 100 KDALMLAG_03508 8.45e-01 100 KDALMLAG_03519 1.18e-04 64_[+3(3.76e-07)]_15 KDALMLAG_03571 1.41e-02 32_[+1(6.29e-05)]_19 KDALMLAG_03574 5.40e-02 100 KDALMLAG_03625 2.73e-01 100 KDALMLAG_03626 1.99e-01 100 KDALMLAG_03627 8.43e-01 100 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (3) found. ******************************************************************************** CPU: kodomo ********************************************************************************