******************************************************************************** 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= learn.fa CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 1 1.0000 100 2 1.0000 100 3 1.0000 100 4 1.0000 100 5 1.0000 100 6 1.0000 100 7 1.0000 100 8 1.0000 100 9 1.0000 100 10 1.0000 100 11 1.0000 100 12 1.0000 100 13 1.0000 100 14 1.0000 100 15 1.0000 100 16 1.0000 100 17 1.0000 100 18 1.0000 100 19 1.0000 100 20 1.0000 100 21 1.0000 100 22 1.0000 100 23 1.0000 100 24 1.0000 100 25 1.0000 100 26 1.0000 100 27 1.0000 100 28 1.0000 100 29 1.0000 100 30 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 learn.fa -dna -nmotifs 3 -minw 6 -text 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= 30 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= 3000 N= 30 sample: seed= 0 hsfrac= 0 searchsize= 3000 norand= no csites= 1000 Letter frequencies in dataset: A 0.28 C 0.213 G 0.229 T 0.278 Background letter frequencies (from file dataset with add-one prior applied): A 0.28 C 0.213 G 0.229 T 0.278 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF KWSKYCVMWGGTTCGAATCCKTCABSVCSCACCACTTTWYT MEME-1 width = 41 sites = 16 llr = 421 E-value = 5.5e-069 ******************************************************************************** -------------------------------------------------------------------------------- Motif KWSKYCVMWGGTTCGAATCCKTCABSVCSCACCACTTTWYT MEME-1 Description -------------------------------------------------------------------------------- Simplified A :4:11:3451:::2:a6:2:1116::312281:812:3612 pos.-specific C 213:38341::::8::11881171433757:8a:721:14: probability G 5165:24118a:2:8:3::2331:36413::2:21:1::11 matrix T 351461:132:a8:2:19:166133111:13:::1698357 bits 2.2 * * 2.0 * * 1.8 ** * * 1.6 ** * * ** * Relative 1.3 ** *** ** * Entropy 1.1 * ******* *** **** ** (38.0 bits) 0.9 * * ******* *** * ***** ** 0.7 * **** ******* *** ** * *********** * 0.4 ******* ***************** ************** 0.2 ***************************************** 0.0 ----------------------------------------- Multilevel GTGGTCGAAGGTTCGAATCCTTCACGGCCCACCACTTTATT consensus TACTC CCT G GG TTCA G T ATC sequence A G C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KWSKYCVMWGGTTCGAATCCKTCABSVCSCACCACTTTWYT MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ----------------------------------------- 22 28 5.00e-23 TTTTAACCAA TTGGTCGAAGGTTCGAATCCTTCACGACCCACCACTTTACT GAAAGTGCAT 21 29 5.00e-23 TTTTAACCAA TTGGTCGAAGGTTCGAATCCTTCACGACCCACCACTTTACT GAAAGTGCAT 19 6 2.68e-19 ACCAA TTGGTCGAAGGTTCGAATCCTTCACGACCCACCACTTATTA TCAGCATGAT 6 28 6.73e-17 TGACGGCTCA GCCTTCGAAGGTTCGAATCCTTCTCCCTCCACCACTTTTTT CTAGGTAGTT 18 28 6.40e-15 TTTAACCAAT CAGTCGAATGGTTCTAATCCTCCACGACACTCCACTTTACT GAAAGTGCAT 20 29 1.00e-14 TTTAACCAAT CAGTCGAATGGTTCTAATCCTTCACGAAACACCACTTTACT GAAAGTGCAT 15 57 6.65e-14 TTCTAAGCGG GTGGTCGCAGGTTCGAATCCTGCCGGGCGTACCAGTTTCAG TGG 17 29 2.12e-13 TTTAACCAAT CAGTTGAATGGTTCTAATCCTTAATGGCACAACACTTTACT GAAAGTGCAT 11 29 1.99e-11 GTAGTGTGGG GTCTCCCCATGTGAGAGTAGGTCATCGCCAAGCGCCTAATT TAAATAATCT 8 31 1.99e-11 GTAGTGTGGG GTCTCCCCATGTGAGAGTAGGTCATCGCCAAGCGCCTAATT TAGGTTAACG 1 31 1.99e-11 GTAGTGTGGG GTCTCCCCATGTGAGAGTAGGTCATCGCCAAGCGCCTAATT TAGCTTAATG 29 19 5.78e-11 TGACATGGTA GGGGTCGGTGGTTCGAGTCCACTCGGGTGTACCACTCTTCT CAAAGAGTCT 26 42 8.98e-11 TGCCAAGGTA TAGGTCATCGGTTCGAACCCGATATGTCGCTCCAAATTTTA ATTAATTTGG 5 58 1.22e-10 TTGTAATCAG TAGGTCCCGAGTTCGACTCTTGGTGCCGGCACCATTTTCTG TG 27 17 5.84e-10 TTGCAAATCC GTCGATCTCGGTTCGACTCCGGGTCGCGCCTCCATAGTTTA AAGTATTAAT 7 58 6.16e-10 CTTCCAAGCT GATAACGCGGGTTCGATTCCCGCTGTCCGCTCCAAATTAGT TG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KWSKYCVMWGGTTCGAATCCKTCABSVCSCACCACTTTWYT MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 22 5e-23 27_[+1]_32 21 5e-23 28_[+1]_31 19 2.7e-19 5_[+1]_54 6 6.7e-17 27_[+1]_32 18 6.4e-15 27_[+1]_32 20 1e-14 28_[+1]_31 15 6.6e-14 56_[+1]_3 17 2.1e-13 28_[+1]_31 11 2e-11 28_[+1]_31 8 2e-11 30_[+1]_29 1 2e-11 30_[+1]_29 29 5.8e-11 18_[+1]_41 26 9e-11 41_[+1]_18 5 1.2e-10 57_[+1]_2 27 5.8e-10 16_[+1]_43 7 6.2e-10 57_[+1]_2 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KWSKYCVMWGGTTCGAATCCKTCABSVCSCACCACTTTWYT MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF KWSKYCVMWGGTTCGAATCCKTCABSVCSCACCACTTTWYT width=41 seqs=16 22 ( 28) TTGGTCGAAGGTTCGAATCCTTCACGACCCACCACTTTACT 1 21 ( 29) TTGGTCGAAGGTTCGAATCCTTCACGACCCACCACTTTACT 1 19 ( 6) TTGGTCGAAGGTTCGAATCCTTCACGACCCACCACTTATTA 1 6 ( 28) GCCTTCGAAGGTTCGAATCCTTCTCCCTCCACCACTTTTTT 1 18 ( 28) CAGTCGAATGGTTCTAATCCTCCACGACACTCCACTTTACT 1 20 ( 29) CAGTCGAATGGTTCTAATCCTTCACGAAACACCACTTTACT 1 15 ( 57) GTGGTCGCAGGTTCGAATCCTGCCGGGCGTACCAGTTTCAG 1 17 ( 29) CAGTTGAATGGTTCTAATCCTTAATGGCACAACACTTTACT 1 11 ( 29) GTCTCCCCATGTGAGAGTAGGTCATCGCCAAGCGCCTAATT 1 8 ( 31) GTCTCCCCATGTGAGAGTAGGTCATCGCCAAGCGCCTAATT 1 1 ( 31) GTCTCCCCATGTGAGAGTAGGTCATCGCCAAGCGCCTAATT 1 29 ( 19) GGGGTCGGTGGTTCGAGTCCACTCGGGTGTACCACTCTTCT 1 26 ( 42) TAGGTCATCGGTTCGAACCCGATATGTCGCTCCAAATTTTA 1 5 ( 58) TAGGTCCCGAGTTCGACTCTTGGTGCCGGCACCATTTTCTG 1 27 ( 17) GTCGATCTCGGTTCGACTCCGGGTCGCGCCTCCATAGTTTA 1 7 ( 58) GATAACGCGGGTTCGATTCCCGCTGTCCGCTCCAAATTAGT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KWSKYCVMWGGTTCGAATCCKTCABSVCSCACCACTTTWYT MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 41 n= 1800 bayes= 6.8009 E= 5.5e-069 -1064 -19 112 17 42 -177 -187 85 -1064 55 145 -215 -216 -1064 112 66 -116 55 -1064 102 -1064 181 -29 -215 -16 55 93 -1064 65 81 -187 -115 84 -77 -87 -15 -216 -1064 171 -57 -1064 -1064 212 -1064 -1064 -1064 -1064 185 -1064 -1064 -29 155 -58 193 -1064 -1064 -1064 -1064 182 -57 184 -1064 -1064 -1064 101 -77 12 -215 -1064 -177 -1064 176 -58 193 -1064 -1064 -1064 181 -29 -215 -216 -177 45 102 -216 -77 12 102 -216 169 -87 -115 116 -77 -1064 -15 -1064 104 12 17 -1064 55 145 -215 16 23 71 -215 -216 169 -87 -115 -58 123 45 -1064 -58 169 -1064 -115 142 -1064 -1064 -15 -216 181 -29 -1064 -1064 223 -1064 -1064 154 -1064 -29 -1064 -116 169 -187 -115 -58 -19 -1064 117 -1064 -177 -187 166 -16 -1064 -1064 143 101 -77 -1064 17 -216 81 -187 85 -58 -1064 -87 131 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KWSKYCVMWGGTTCGAATCCKTCABSVCSCACCACTTTWYT MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 41 nsites= 16 E= 5.5e-069 0.000000 0.187500 0.500000 0.312500 0.375000 0.062500 0.062500 0.500000 0.000000 0.312500 0.625000 0.062500 0.062500 0.000000 0.500000 0.437500 0.125000 0.312500 0.000000 0.562500 0.000000 0.750000 0.187500 0.062500 0.250000 0.312500 0.437500 0.000000 0.437500 0.375000 0.062500 0.125000 0.500000 0.125000 0.125000 0.250000 0.062500 0.000000 0.750000 0.187500 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.187500 0.812500 0.187500 0.812500 0.000000 0.000000 0.000000 0.000000 0.812500 0.187500 1.000000 0.000000 0.000000 0.000000 0.562500 0.125000 0.250000 0.062500 0.000000 0.062500 0.000000 0.937500 0.187500 0.812500 0.000000 0.000000 0.000000 0.750000 0.187500 0.062500 0.062500 0.062500 0.312500 0.562500 0.062500 0.125000 0.250000 0.562500 0.062500 0.687500 0.125000 0.125000 0.625000 0.125000 0.000000 0.250000 0.000000 0.437500 0.250000 0.312500 0.000000 0.312500 0.625000 0.062500 0.312500 0.250000 0.375000 0.062500 0.062500 0.687500 0.125000 0.125000 0.187500 0.500000 0.312500 0.000000 0.187500 0.687500 0.000000 0.125000 0.750000 0.000000 0.000000 0.250000 0.062500 0.750000 0.187500 0.000000 0.000000 1.000000 0.000000 0.000000 0.812500 0.000000 0.187500 0.000000 0.125000 0.687500 0.062500 0.125000 0.187500 0.187500 0.000000 0.625000 0.000000 0.062500 0.062500 0.875000 0.250000 0.000000 0.000000 0.750000 0.562500 0.125000 0.000000 0.312500 0.062500 0.375000 0.062500 0.500000 0.187500 0.000000 0.125000 0.687500 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KWSKYCVMWGGTTCGAATCCKTCABSVCSCACCACTTTWYT MEME-1 regular expression -------------------------------------------------------------------------------- [GT][TA][GC][GT][TC]C[GCA][AC][AT]GGTTCGA[AG]TCC[TG][TG]C[AT][CTG][GC][GAC]C[CG]C[AT]CCACTT[TA][AT][TC]T -------------------------------------------------------------------------------- Time 0.70 secs. ******************************************************************************** ******************************************************************************** MOTIF GAAAGTGCATAAATCAGCGCAAYACC MEME-2 width = 26 sites = 5 llr = 168 E-value = 8.5e-023 ******************************************************************************** -------------------------------------------------------------------------------- Motif GAAAGTGCATAAATCAGCGCAAYACC MEME-2 Description -------------------------------------------------------------------------------- Simplified A :aaa::::a:aa8::a::::aa:a:: pos.-specific C :::::::a::::::a::8:8::6:aa probability G a:::a:a:::::::::a:a::::::: matrix T :::::a:::a::2a:::2:2::4::: bits 2.2 * * ** * * * ** 2.0 * * ** * * * ** 1.8 ************ **** * ** *** 1.6 ************ **** * ** *** Relative 1.3 ************ ********* *** Entropy 1.1 ************************** (48.6 bits) 0.9 ************************** 0.7 ************************** 0.4 ************************** 0.2 ************************** 0.0 -------------------------- Multilevel GAAAGTGCATAAATCAGCGCAACACC consensus T T T T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAAAGTGCATAAATCAGCGCAAYACC MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------------------------- 21 70 2.23e-16 CCACTTTACT GAAAGTGCATAAATCAGCGCAACACC AGATG 22 69 5.15e-16 CCACTTTACT GAAAGTGCATAAATCAGCGCAATACC TAGATG 20 70 7.36e-16 CCACTTTACT GAAAGTGCATAATTCAGCGCAACACC AGATG 17 70 1.32e-15 ACACTTTACT GAAAGTGCATAAATCAGTGCAACACC AGATG 18 69 2.37e-15 CCACTTTACT GAAAGTGCATAAATCAGCGTAATACC TAGATG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAAAGTGCATAAATCAGCGCAAYACC MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 21 2.2e-16 69_[+2]_5 22 5.1e-16 68_[+2]_6 20 7.4e-16 69_[+2]_5 17 1.3e-15 69_[+2]_5 18 2.4e-15 68_[+2]_6 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAAAGTGCATAAATCAGCGCAAYACC MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GAAAGTGCATAAATCAGCGCAAYACC width=26 seqs=5 21 ( 70) GAAAGTGCATAAATCAGCGCAACACC 1 22 ( 69) GAAAGTGCATAAATCAGCGCAATACC 1 20 ( 70) GAAAGTGCATAATTCAGCGCAACACC 1 17 ( 70) GAAAGTGCATAAATCAGTGCAACACC 1 18 ( 69) GAAAGTGCATAAATCAGCGTAATACC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAAAGTGCATAAATCAGCGCAAYACC MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 26 n= 2250 bayes= 9.06262 E= 8.5e-023 -897 -897 212 -897 184 -897 -897 -897 184 -897 -897 -897 184 -897 -897 -897 -897 -897 212 -897 -897 -897 -897 185 -897 -897 212 -897 -897 223 -897 -897 184 -897 -897 -897 -897 -897 -897 185 184 -897 -897 -897 184 -897 -897 -897 151 -897 -897 -47 -897 -897 -897 185 -897 223 -897 -897 184 -897 -897 -897 -897 -897 212 -897 -897 190 -897 -47 -897 -897 212 -897 -897 190 -897 -47 184 -897 -897 -897 184 -897 -897 -897 -897 149 -897 53 184 -897 -897 -897 -897 223 -897 -897 -897 223 -897 -897 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAAAGTGCATAAATCAGCGCAAYACC MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 26 nsites= 5 E= 8.5e-023 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 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.800000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 1.000000 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 0.800000 0.000000 0.200000 0.000000 0.000000 1.000000 0.000000 0.000000 0.800000 0.000000 0.200000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.600000 0.000000 0.400000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAAAGTGCATAAATCAGCGCAAYACC MEME-2 regular expression -------------------------------------------------------------------------------- GAAAGTGCATAA[AT]TCAG[CT]G[CT]AA[CT]ACC -------------------------------------------------------------------------------- Time 1.19 secs. ******************************************************************************** ******************************************************************************** MOTIF TAGRGCAGTTGGCTTTTAACC MEME-3 width = 21 sites = 7 llr = 169 E-value = 1.1e-022 ******************************************************************************** -------------------------------------------------------------------------------- Motif TAGRGCAGTTGGCTTTTAACC MEME-3 Description -------------------------------------------------------------------------------- Simplified A :a:6::a1:::1:::::aa:: pos.-specific C :::::a:131:1a::1:::7a probability G ::a4a::7::a7:::1:::1: matrix T a:::::::79:::aa7a::1: bits 2.2 * ** * * * 2.0 * ** * * * 1.8 *** *** * *** *** * 1.6 *** *** * *** *** * Relative 1.3 *** *** ** *** *** * Entropy 1.1 *** *** *** *** ***** (34.9 bits) 0.9 ********************* 0.7 ********************* 0.4 ********************* 0.2 ********************* 0.0 --------------------- Multilevel TAGAGCAGTTGGCTTTTAACC consensus G C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGRGCAGTTGGCTTTTAACC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 22 5 2.86e-13 TCGG TAGAGCAGTTGGCTTTTAACC AATTGGTCGA 21 6 2.86e-13 GTCGG TAGAGCAGTTGGCTTTTAACC AATTGGTCGA 20 5 5.20e-13 AAGC TAGGGCAGTTGGCTTTTAACC AATCAGTCGA 18 4 5.20e-13 AGC TAGGGCAGTTGGCTTTTAACC AATCAGTCGA 17 5 5.20e-13 AAGC TAGGGCAGTTGGCTTTTAACC AATCAGTTGA 5 35 1.29e-10 GCTCAGTTGG TAGAGCAACTGACTTGTAATC AGTAGGTCCC 15 34 1.64e-10 CTCAGTTGGA TAGAGCACCCGCCTTCTAAGC GGGTGGTCGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGRGCAGTTGGCTTTTAACC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 22 2.9e-13 4_[+3]_75 21 2.9e-13 5_[+3]_74 20 5.2e-13 4_[+3]_75 18 5.2e-13 3_[+3]_76 17 5.2e-13 4_[+3]_75 5 1.3e-10 34_[+3]_45 15 1.6e-10 33_[+3]_46 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGRGCAGTTGGCTTTTAACC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TAGRGCAGTTGGCTTTTAACC width=21 seqs=7 22 ( 5) TAGAGCAGTTGGCTTTTAACC 1 21 ( 6) TAGAGCAGTTGGCTTTTAACC 1 20 ( 5) TAGGGCAGTTGGCTTTTAACC 1 18 ( 4) TAGGGCAGTTGGCTTTTAACC 1 17 ( 5) TAGGGCAGTTGGCTTTTAACC 1 5 ( 35) TAGAGCAACTGACTTGTAATC 1 15 ( 34) TAGAGCACCCGCCTTCTAAGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGRGCAGTTGGCTTTTAACC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 2400 bayes= 9.02442 E= 1.1e-022 -945 -945 -945 185 184 -945 -945 -945 -945 -945 212 -945 103 -945 90 -945 -945 -945 212 -945 -945 223 -945 -945 184 -945 -945 -945 -97 -58 164 -945 -945 42 -945 136 -945 -58 -945 162 -945 -945 212 -945 -97 -58 164 -945 -945 223 -945 -945 -945 -945 -945 185 -945 -945 -945 185 -945 -58 -68 136 -945 -945 -945 185 184 -945 -945 -945 184 -945 -945 -945 -945 174 -68 -96 -945 223 -945 -945 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGRGCAGTTGGCTTTTAACC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 7 E= 1.1e-022 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.571429 0.000000 0.428571 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 0.142857 0.142857 0.714286 0.000000 0.000000 0.285714 0.000000 0.714286 0.000000 0.142857 0.000000 0.857143 0.000000 0.000000 1.000000 0.000000 0.142857 0.142857 0.714286 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.142857 0.142857 0.714286 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.714286 0.142857 0.142857 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGRGCAGTTGGCTTTTAACC MEME-3 regular expression -------------------------------------------------------------------------------- TAG[AG]GCAG[TC]TGGCTTTTAACC -------------------------------------------------------------------------------- Time 1.68 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 1 1.81e-09 30_[+1(1.99e-11)]_29 2 1.45e-01 100 3 2.35e-01 100 4 2.94e-01 100 5 4.51e-14 34_[+3(1.29e-10)]_2_[+1(1.22e-10)]_\ 2 6 1.71e-12 27_[+1(6.73e-17)]_32 7 3.19e-07 57_[+1(6.16e-10)]_2 8 6.45e-09 30_[+1(1.99e-11)]_29 9 6.39e-01 100 10 2.35e-01 100 11 9.76e-08 28_[+1(1.99e-11)]_31 12 3.04e-01 100 13 6.85e-01 100 14 6.88e-01 100 15 4.67e-17 33_[+3(1.64e-10)]_2_[+1(6.65e-14)]_\ 3 16 8.64e-01 100 17 1.68e-31 4_[+3(5.20e-13)]_3_[+1(2.12e-13)]_\ [+2(1.32e-15)]_5 18 9.75e-33 3_[+3(5.20e-13)]_3_[+1(6.40e-15)]_\ [+2(2.37e-15)]_6 19 2.32e-15 5_[+1(2.68e-19)]_54 20 4.82e-33 4_[+3(5.20e-13)]_3_[+1(1.00e-14)]_\ [+2(7.36e-16)]_5 21 6.28e-42 5_[+3(2.86e-13)]_2_[+1(5.00e-23)]_\ [+2(2.23e-16)]_5 22 1.42e-41 4_[+3(2.86e-13)]_2_[+1(5.00e-23)]_\ [+2(5.15e-16)]_6 23 3.72e-01 100 24 5.58e-01 100 25 4.31e-01 100 26 6.99e-08 41_[+1(8.98e-11)]_18 27 2.36e-06 16_[+1(5.84e-10)]_43 28 4.12e-01 100 29 2.60e-07 18_[+1(5.78e-11)]_41 30 2.04e-01 100 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (3) found. ******************************************************************************** CPU: kodomo ********************************************************************************