******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 5.5.3 (Release date: Sat Jun 10 16:19:38 2023 -0700) 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= lex0.fna CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ cloacin-df13 1.0000 200 colicin-e1 1.0000 200 colicin-ia 1.0000 200 colicin-ib 1.0000 200 reca 1.0000 200 recn 1.0000 200 sula 1.0000 200 umu-operon 1.0000 200 uvra 1.0000 200 uvrb 1.0000 200 uvrd 1.0000 200 colicin-a 1.0000 136 lexA 1.0000 173 muc-operon 1.0000 158 hima 1.0000 200 uvrc 1.0000 200 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme lex0.fna -oc meme_example_output_files -p 4 -dna -mod zoops -nmotifs 3 -revcomp 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= 8 maxw= 50 nsites: minsites= 2 maxsites= 16 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= 3067 N= 16 sample: seed= 0 hsfrac= 0 searchsize= 3067 norand= no csites= 1000 Letter frequencies in dataset: A 0.29 C 0.21 G 0.21 T 0.29 Background letter frequencies (from file dataset with add-one prior applied): A 0.29 C 0.21 G 0.21 T 0.29 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TACTGTATATAHAHMCAG MEME-1 width = 18 sites = 14 llr = 241 E-value = 3.7e-033 ******************************************************************************** -------------------------------------------------------------------------------- Motif TACTGTATATAHAHMCAG MEME-1 Description -------------------------------------------------------------------------------- Simplified A 19::::a:9264a45:a: pos.-specific C ::a::::1::13:34a:: probability G :1::a1::1:2::::::8 matrix T 91:a:9:9:814:41::2 bits 2.3 * * * 2.0 * * * 1.8 *** * * ** 1.6 *** * * ** Relative 1.4 ******* * *** Entropy 1.1 ********** * *** (24.8 bits) 0.9 ********** * *** 0.7 ********** * **** 0.5 ****************** 0.2 ****************** 0.0 ------------------ Multilevel TACTGTATATAAAAACAG consensus AGT TC T sequence C C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TACTGTATATAHAHMCAG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ------------------ recn + 71 5.09e-10 ccagcctctt tactgtatataaaaccag tttatactgt cloacin-df13 - 99 5.09e-10 AAAACCAAAA TACTGTATATATACACAG TATGATTATT umu-operon + 91 7.40e-10 aagaacagac tactgtatataaaaacag tataacttca muc-operon + 49 2.05e-09 ataacagcga tactgtataaataaacag ttatttggaa colicin-a + 34 2.72e-09 agtatcattt tactgtatataaacacat gtgaatatat lexA + 76 3.08e-09 ctcacagcat aactgtatatacacccag ggggcggaat colicin-e1 + 97 6.71e-09 gtagctttta tgctgtatataaaaccag tggttatatg colicin-ib + 99 8.17e-09 aataaattag tactgtatatgtatccat atacgtaagc colicin-ia + 99 8.17e-09 aataaattaa tactgtatatgtatccat atgcgtaagc uvrb - 73 2.22e-08 CAACAAATTA TACTGGATAAAAAAACAG TTCATCACCA sula + 85 3.31e-08 tcactggatg tactgtacatccatacag taactcacag uvra + 60 3.54e-08 tgcattccaa tactgtatattcattcag gtcaatttgt uvrd + 102 3.74e-08 taatcagcaa atctgtatatatacccag ctttttggcg reca + 71 3.74e-08 aaacacttga tactgtatgagcatacag tataattgct -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TACTGTATATAHAHMCAG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- recn 5.1e-10 70_[+1]_112 cloacin-df13 5.1e-10 98_[-1]_84 umu-operon 7.4e-10 90_[+1]_92 muc-operon 2e-09 48_[+1]_92 colicin-a 2.7e-09 33_[+1]_85 lexA 3.1e-09 75_[+1]_80 colicin-e1 6.7e-09 96_[+1]_86 colicin-ib 8.2e-09 98_[+1]_84 colicin-ia 8.2e-09 98_[+1]_84 uvrb 2.2e-08 72_[-1]_110 sula 3.3e-08 84_[+1]_98 uvra 3.5e-08 59_[+1]_123 uvrd 3.7e-08 101_[+1]_81 reca 3.7e-08 70_[+1]_112 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TACTGTATATAHAHMCAG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TACTGTATATAHAHMCAG width=18 seqs=14 recn ( 71) TACTGTATATAAAACCAG 1 cloacin-df13 ( 99) TACTGTATATATACACAG 1 umu-operon ( 91) TACTGTATATAAAAACAG 1 muc-operon ( 49) TACTGTATAAATAAACAG 1 colicin-a ( 34) TACTGTATATAAACACAT 1 lexA ( 76) AACTGTATATACACCCAG 1 colicin-e1 ( 97) TGCTGTATATAAAACCAG 1 colicin-ib ( 99) TACTGTATATGTATCCAT 1 colicin-ia ( 99) TACTGTATATGTATCCAT 1 uvrb ( 73) TACTGGATAAAAAAACAG 1 sula ( 85) TACTGTACATCCATACAG 1 uvra ( 60) TACTGTATATTCATTCAG 1 uvrd ( 102) ATCTGTATATATACCCAG 1 reca ( 71) TACTGTATGAGCATACAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TACTGTATATAHAHMCAG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 18 n= 2795 bayes= 8.86057 E= 3.7e-033 -102 -1045 -1045 156 156 -1045 -156 -202 -1045 225 -1045 -1045 -1045 -1045 -1045 179 -1045 -1045 225 -1045 -1045 -1045 -156 168 179 -1045 -1045 -1045 -1045 -156 -1045 168 168 -1045 -156 -1045 -44 -1045 -1045 144 115 -156 3 -202 30 44 -1045 30 179 -1045 -1045 -1045 30 44 -1045 30 79 103 -1045 -202 -1045 225 -1045 -1045 179 -1045 -1045 -1045 -1045 -1045 190 -44 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TACTGTATATAHAHMCAG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 18 nsites= 14 E= 3.7e-033 0.142857 0.000000 0.000000 0.857143 0.857143 0.000000 0.071429 0.071429 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 0.071429 0.928571 1.000000 0.000000 0.000000 0.000000 0.000000 0.071429 0.000000 0.928571 0.928571 0.000000 0.071429 0.000000 0.214286 0.000000 0.000000 0.785714 0.642857 0.071429 0.214286 0.071429 0.357143 0.285714 0.000000 0.357143 1.000000 0.000000 0.000000 0.000000 0.357143 0.285714 0.000000 0.357143 0.500000 0.428571 0.000000 0.071429 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.785714 0.214286 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TACTGTATATAHAHMCAG MEME-1 regular expression -------------------------------------------------------------------------------- TACTGTATA[TA][AG][ATC]A[ATC][AC]CA[GT] -------------------------------------------------------------------------------- Time 0.48 secs. ******************************************************************************** ******************************************************************************** MOTIF TTKCCDCAGRGKATGAARGMVWHVCCRDAWGYCTGACCCTGYACG MEME-2 width = 45 sites = 4 llr = 169 E-value = 7.1e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTKCCDCAGRGKATGAARGMVWHVCCRDAWGYCTGACCCTGYACG MEME-2 Description -------------------------------------------------------------------------------- Simplified A :::::33835::8:3885:53535::5585:::::a::3:::a3: pos.-specific C :::a8:8:::::3::3:::53:338a:::::5a:::8883:5:83 probability G ::5:33:385a5::8:35a:5::33:53::a:::a::3::a:::8 matrix T aa5::5:::::5:a:::::::55::::335:5:a::3::8:5::: bits 2.3 * * * * * * * * 2.0 * * * * * * * * 1.8 ** * * * * * * **** * * 1.6 ** * * * * * * **** * * Relative 1.4 ** ** * * * ** * ** * ******* * *** Entropy 1.1 ***** ************** *** *************** (60.9 bits) 0.9 ***** ************** *** * *************** 0.7 ***** **************** *** ***************** 0.5 ********************************************* 0.2 ********************************************* 0.0 --------------------------------------------- Multilevel TTGCCTCAGAGGATGAAAGAGATACCAAAAGCCTGACCCTGCACG consensus T GAAGAG TC ACGG CATACG GGTT T TGAC T AC sequence G C CG T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCCDCAGRGKATGAARGMVWHVCCRDAWGYCTGACCCTGYACG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- --------------------------------------------- colicin-ib + 142 1.19e-24 attcatttgt tttcctcagaggatgaaggagataccgaatgtctgaccctgtacg tattacaaat colicin-ia + 142 1.19e-24 attcatttgt tttcctcagaggatgaaggagataccgaatgtctgaccctgtacg tattacaaat hima + 36 2.60e-18 ggtaagggtg ttgcggaggggtataagagcctcgccataagcctgatcctgcaag ataccagccg reca - 5 7.37e-18 GTAGAAATTG TTGCCACAAGGTCTGCAAGCATACGCAGTAGCCTGACGACGCACC GCAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCCDCAGRGKATGAARGMVWHVCCRDAWGYCTGACCCTGYACG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- colicin-ib 1.2e-24 141_[+2]_14 colicin-ia 1.2e-24 141_[+2]_14 hima 2.6e-18 35_[+2]_120 reca 7.4e-18 4_[-2]_151 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCCDCAGRGKATGAARGMVWHVCCRDAWGYCTGACCCTGYACG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTKCCDCAGRGKATGAARGMVWHVCCRDAWGYCTGACCCTGYACG width=45 seqs=4 colicin-ib ( 142) TTTCCTCAGAGGATGAAGGAGATACCGAATGTCTGACCCTGTACG 1 colicin-ia ( 142) TTTCCTCAGAGGATGAAGGAGATACCGAATGTCTGACCCTGTACG 1 hima ( 36) TTGCGGAGGGGTATAAGAGCCTCGCCATAAGCCTGATCCTGCAAG 1 reca ( 5) TTGCCACAAGGTCTGCAAGCATACGCAGTAGCCTGACGACGCACC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCCDCAGRGKATGAARGMVWHVCCRDAWGYCTGACCCTGYACG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 45 n= 2363 bayes= 9.9419 E= 7.1e-003 -865 -865 -865 178 -865 -865 -865 178 -865 -865 125 79 -865 225 -865 -865 -865 183 25 -865 -21 -865 25 79 -21 183 -865 -865 137 -865 25 -865 -21 -865 183 -865 79 -865 125 -865 -865 -865 225 -865 -865 -865 125 79 137 25 -865 -865 -865 -865 -865 178 -21 -865 183 -865 137 25 -865 -865 137 -865 25 -865 79 -865 125 -865 -865 -865 225 -865 79 125 -865 -865 -21 25 125 -865 79 -865 -865 79 -21 25 -865 79 79 25 25 -865 -865 183 25 -865 -865 225 -865 -865 79 -865 125 -865 79 -865 25 -21 137 -865 -865 -21 79 -865 -865 79 -865 -865 225 -865 -865 125 -865 79 -865 225 -865 -865 -865 -865 -865 178 -865 -865 225 -865 178 -865 -865 -865 -865 183 -865 -21 -865 183 25 -865 -21 183 -865 -865 -865 25 -865 137 -865 -865 225 -865 -865 125 -865 79 178 -865 -865 -865 -21 183 -865 -865 -865 25 183 -865 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCCDCAGRGKATGAARGMVWHVCCRDAWGYCTGACCCTGYACG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 45 nsites= 4 E= 7.1e-003 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.500000 0.500000 0.000000 1.000000 0.000000 0.000000 0.000000 0.750000 0.250000 0.000000 0.250000 0.000000 0.250000 0.500000 0.250000 0.750000 0.000000 0.000000 0.750000 0.000000 0.250000 0.000000 0.250000 0.000000 0.750000 0.000000 0.500000 0.000000 0.500000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.500000 0.500000 0.750000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.250000 0.000000 0.750000 0.000000 0.750000 0.250000 0.000000 0.000000 0.750000 0.000000 0.250000 0.000000 0.500000 0.000000 0.500000 0.000000 0.000000 0.000000 1.000000 0.000000 0.500000 0.500000 0.000000 0.000000 0.250000 0.250000 0.500000 0.000000 0.500000 0.000000 0.000000 0.500000 0.250000 0.250000 0.000000 0.500000 0.500000 0.250000 0.250000 0.000000 0.000000 0.750000 0.250000 0.000000 0.000000 1.000000 0.000000 0.000000 0.500000 0.000000 0.500000 0.000000 0.500000 0.000000 0.250000 0.250000 0.750000 0.000000 0.000000 0.250000 0.500000 0.000000 0.000000 0.500000 0.000000 0.000000 1.000000 0.000000 0.000000 0.500000 0.000000 0.500000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.750000 0.000000 0.250000 0.000000 0.750000 0.250000 0.000000 0.250000 0.750000 0.000000 0.000000 0.000000 0.250000 0.000000 0.750000 0.000000 0.000000 1.000000 0.000000 0.000000 0.500000 0.000000 0.500000 1.000000 0.000000 0.000000 0.000000 0.250000 0.750000 0.000000 0.000000 0.000000 0.250000 0.750000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKCCDCAGRGKATGAARGMVWHVCCRDAWGYCTGACCCTGYACG MEME-2 regular expression -------------------------------------------------------------------------------- TT[GT]C[CG][TAG][CA][AG][GA][AG]G[GT][AC]T[GA][AC][AG][AG]G[AC][GAC][AT][TAC][ACG][CG]C[AG][AGT][AT][AT]G[CT]CTGA[CT][CG][CA][TC]G[CT]A[CA][GC] -------------------------------------------------------------------------------- Time 0.98 secs. ******************************************************************************** ******************************************************************************** MOTIF YTTSNTSYTRMTGATRAKMACTAWCATYWAMTMTTGACAY MEME-3 width = 40 sites = 6 llr = 166 E-value = 7.4e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif YTTSNTSYTRMTGATRAKMACTAWCATYWAMTMTTGACAY MEME-3 Description -------------------------------------------------------------------------------- Simplified A :22:3::::552:8:3a:3a:2a3272:777252::8:8: pos.-specific C 7::52235::32::22::5:82:252:5::3:3::2:a:3 probability G ::25227::522a2:5:3::22::2222:2:2::272:2: matrix T 387:37:5a::5::8::72::5:52:7332:72882:::7 bits 2.3 * * 2.0 * * 1.8 * * * * * * 1.6 * * * ** * * Relative 1.4 * * * * * ** * * Entropy 1.1 ** * **** *** ** ** * * ** **** (40.0 bits) 0.9 ** * **** *** ** ** * * * ******* 0.7 **** ***** ****** ** * ******* ******* 0.5 **** ****** ********* ** *************** 0.2 **** *********************************** 0.0 ---------------------------------------- Multilevel CTTCATGCTAATGATGATCACTATCATCAAATATTGACAT consensus T GT CT GC A GA A TT C C C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTTSNTSYTRMTGATRAKMACTAWCATYWAMTMTTGACAY MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ---------------------------------------- colicin-ia + 35 1.64e-20 tgtaacatca cttcatgttaatgataatcactatcatcaaatcttgacat gccattttct colicin-ib + 35 6.80e-18 tataacacca cttcatgttaatgataattactatcattaaatcttgacat gccattttct cloacin-df13 + 27 1.22e-13 cgggcgcttt tttgtgcctgaagatgagaactaatctcatatattgacac ctgaaaactg uvra - 86 4.09e-12 TGCCCGGTGG CATGGTGCTACCGGCGATCACAAACGGTTAATTATGACAC AAATTGACCT sula - 143 8.36e-12 ACGCGCAATT TTACTTGCTGCGGATGAGAACGACGAAGAACGATGTGCAT AGCCTGAAGT uvrc - 76 8.73e-12 CATTGACCTT CTGGCCCTTGGTGATCATCAGCATAATCTGCAATTCACGT TCAGACAAAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTTSNTSYTRMTGATRAKMACTAWCATYWAMTMTTGACAY MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- colicin-ia 1.6e-20 34_[+3]_126 colicin-ib 6.8e-18 34_[+3]_126 cloacin-df13 1.2e-13 26_[+3]_134 uvra 4.1e-12 85_[-3]_75 sula 8.4e-12 142_[-3]_18 uvrc 8.7e-12 75_[-3]_85 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTTSNTSYTRMTGATRAKMACTAWCATYWAMTMTTGACAY MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF YTTSNTSYTRMTGATRAKMACTAWCATYWAMTMTTGACAY width=40 seqs=6 colicin-ia ( 35) CTTCATGTTAATGATAATCACTATCATCAAATCTTGACAT 1 colicin-ib ( 35) CTTCATGTTAATGATAATTACTATCATTAAATCTTGACAT 1 cloacin-df13 ( 27) TTTGTGCCTGAAGATGAGAACTAATCTCATATATTGACAC 1 uvra ( 86) CATGGTGCTACCGGCGATCACAAACGGTTAATTATGACAC 1 sula ( 143) TTACTTGCTGCGGATGAGAACGACGAAGAACGATGTGCAT 1 uvrc ( 76) CTGGCCCTTGGTGATCATCAGCATAATCTGCAATTCACGT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTTSNTSYTRMTGATRAKMACTAWCATYWAMTMTTGACAY MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 40 n= 2443 bayes= 8.32394 E= 7.4e+000 -923 166 -923 20 -80 -923 -923 152 -80 -923 -33 120 -923 125 125 -923 20 -33 -33 20 -923 -33 -33 120 -923 66 166 -923 -923 125 -923 79 -923 -923 -923 179 79 -923 125 -923 79 66 -33 -923 -80 -33 -33 79 -923 -923 225 -923 152 -923 -33 -923 -923 -33 -923 152 20 -33 125 -923 179 -923 -923 -923 -923 -923 66 120 20 125 -923 -80 179 -923 -923 -923 -923 199 -33 -923 -80 -33 -33 79 179 -923 -923 -923 20 -33 -923 79 -80 125 -33 -80 120 -33 -33 -923 -80 -923 -33 120 -923 125 -33 20 120 -923 -923 20 120 -923 -33 -80 120 66 -923 -923 -80 -923 -33 120 79 66 -923 -80 -80 -923 -923 152 -923 -923 -33 152 -923 -33 166 -80 152 -923 -33 -923 -923 225 -923 -923 152 -923 -33 -923 -923 66 -923 120 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTTSNTSYTRMTGATRAKMACTAWCATYWAMTMTTGACAY MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 40 nsites= 6 E= 7.4e+000 0.000000 0.666667 0.000000 0.333333 0.166667 0.000000 0.000000 0.833333 0.166667 0.000000 0.166667 0.666667 0.000000 0.500000 0.500000 0.000000 0.333333 0.166667 0.166667 0.333333 0.000000 0.166667 0.166667 0.666667 0.000000 0.333333 0.666667 0.000000 0.000000 0.500000 0.000000 0.500000 0.000000 0.000000 0.000000 1.000000 0.500000 0.000000 0.500000 0.000000 0.500000 0.333333 0.166667 0.000000 0.166667 0.166667 0.166667 0.500000 0.000000 0.000000 1.000000 0.000000 0.833333 0.000000 0.166667 0.000000 0.000000 0.166667 0.000000 0.833333 0.333333 0.166667 0.500000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.333333 0.666667 0.333333 0.500000 0.000000 0.166667 1.000000 0.000000 0.000000 0.000000 0.000000 0.833333 0.166667 0.000000 0.166667 0.166667 0.166667 0.500000 1.000000 0.000000 0.000000 0.000000 0.333333 0.166667 0.000000 0.500000 0.166667 0.500000 0.166667 0.166667 0.666667 0.166667 0.166667 0.000000 0.166667 0.000000 0.166667 0.666667 0.000000 0.500000 0.166667 0.333333 0.666667 0.000000 0.000000 0.333333 0.666667 0.000000 0.166667 0.166667 0.666667 0.333333 0.000000 0.000000 0.166667 0.000000 0.166667 0.666667 0.500000 0.333333 0.000000 0.166667 0.166667 0.000000 0.000000 0.833333 0.000000 0.000000 0.166667 0.833333 0.000000 0.166667 0.666667 0.166667 0.833333 0.000000 0.166667 0.000000 0.000000 1.000000 0.000000 0.000000 0.833333 0.000000 0.166667 0.000000 0.000000 0.333333 0.000000 0.666667 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTTSNTSYTRMTGATRAKMACTAWCATYWAMTMTTGACAY MEME-3 regular expression -------------------------------------------------------------------------------- [CT]TT[CG][AT]T[GC][CT]T[AG][AC]TGAT[GA]A[TG][CA]ACTA[TA]CAT[CT][AT]A[AC]T[AC]TTGACA[TC] -------------------------------------------------------------------------------- Time 1.43 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- cloacin-df13 2.14e-15 26_[+3(1.22e-13)]_32_[-1(5.09e-10)]_\ 84 colicin-e1 1.31e-05 96_[+1(6.71e-09)]_86 colicin-ia 3.11e-41 34_[+3(1.64e-20)]_24_[+1(8.17e-09)]_\ 25_[+2(1.19e-24)]_14 colicin-ib 1.14e-38 34_[+3(6.80e-18)]_24_[+1(8.17e-09)]_\ 25_[+2(1.19e-24)]_14 reca 1.43e-17 4_[-2(7.37e-18)]_21_[+1(3.74e-08)]_\ 112 recn 1.28e-06 70_[+1(5.09e-10)]_4_[+1(1.41e-05)]_\ 2_[-1(2.23e-06)]_70 sula 4.56e-12 84_[+1(3.31e-08)]_40_[-3(8.36e-12)]_\ 18 umu-operon 4.95e-06 90_[+1(7.40e-10)]_92 uvra 3.02e-12 59_[+1(3.54e-08)]_8_[-3(4.09e-12)]_\ 75 uvrb 4.75e-05 72_[-1(2.22e-08)]_110 uvrd 3.06e-04 101_[+1(3.74e-08)]_81 colicin-a 2.46e-05 33_[+1(2.72e-09)]_85 lexA 5.19e-06 15_[-1(5.87e-06)]_21_[+1(5.56e-07)]_\ 3_[+1(3.08e-09)]_80 muc-operon 2.97e-05 48_[+1(2.05e-09)]_92 hima 1.95e-13 35_[+2(2.60e-18)]_120 uvrc 9.70e-08 75_[-3(8.73e-12)]_85 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (3) found. ******************************************************************************** CPU: Timothys-iMac.local ********************************************************************************