******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 4.1.1 (Release date: Tue Apr 21 15:00:06 PDT 2009) For further information on how to interpret these results or to get a copy of the MEME software please access http://meme.nbcr.net. This file may be used as input to the MAST algorithm for searching sequence databases for matches to groups of motifs. MAST is available for interactive use and downloading at http://meme.nbcr.net. ******************************************************************************** ******************************************************************************** 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 ******************************************************************************** DATAFILE= temp.fasta ALPHABET= ACDEFGHIKLMNPQRSTVWY Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ ESTA_BACSU 1.0000 212 ESTB_BACSU 1.0000 210 LIP_BURGL 1.0000 358 LIP_VIBCH 1.0000 312 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme temp.fasta -mod zoops -nmotifs 3 -prior dirichlet -nostatus -protein -text model: mod= zoops nmotifs= 3 evt= inf object function= E-value of product of p-values width: minw= 8 maxw= 50 minic= 0.00 width: wg= 11 ws= 1 endgaps= yes nsites: minsites= 2 maxsites= 4 wnsites= 0.8 theta: prob= 1 spmap= pam spfuzz= 120 global: substring= yes branching= no wbranch= no em: prior= dirichlet b= 0.01 maxiter= 50 distance= 1e-05 data: n= 1092 N= 4 sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.102 C 0.005 D 0.042 E 0.019 F 0.023 G 0.109 H 0.027 I 0.053 K 0.038 L 0.106 M 0.016 N 0.059 P 0.032 Q 0.044 R 0.034 S 0.083 T 0.069 V 0.092 W 0.008 Y 0.039 Background letter frequencies (from dataset with add-one prior applied): A 0.101 C 0.005 D 0.042 E 0.020 F 0.023 G 0.108 H 0.027 I 0.053 K 0.038 L 0.105 M 0.017 N 0.058 P 0.032 Q 0.044 R 0.034 S 0.083 T 0.068 V 0.092 W 0.009 Y 0.040 ******************************************************************************** ******************************************************************************** MOTIF 1 width = 47 sites = 4 llr = 403 E-value = 1.1e-017 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A :::3:::::::::::35::::::53::a::::::5:::::5:::::5 pos.-specific C ::::::::::::::::::::::::::::::::::::::::::::::: probability D ::5:33:::::::::::::3:::3:::::::5::::::::::::::: matrix E ::::::::3:::5::::::3::::5:::::::::::::::::::::: F 53:::::::::::::::3::::::::::::::::::::::::::::: G 3::::53::3:a::::::::::::::a:::::::5:::aa::::::: H :::::::::::::::::::::::::::::::::::a:3::::::::: I ::::::::::::::::::::::::::::::::55::::::::3:::5 K :::5:::::::::::::::33::3::::8a::::::::::::::::: L ::::::::3:::::a5:::::3a:::::::::5:::::::3::5::: M :::::::::::::::::::::::::::::::::::::5::::::::: N :::::335355::::::::::::::::::::5:::::::::5::::: P :::::::3::::5:::::::::::::::::::::::::::3:::::: Q 3:3::::::::::8:::3:33::::::::::::::::3::::::::: R :::::::::35:::::3:::3::::::::::::::::::::::5::: S ::33::33:::::::33:::3:::::::::::::::a:::::3:::: T ::::8:3::::::::::::::::::a::3::::::::::::55:::: V :3:::::::::::3::::a::8::3:::::a::5:::::::::::5: W :3::::::::::::::::::::::::::::::::::::::::::::: Y :3::::::3::::::::5::::::::::::::::::::::::::a5: bits 7.5 6.8 6.0 5.3 * Relative 4.5 * * * * Entropy 3.8 * ** * * *** *** * (145.3 bits) 3.0 *** * * ***** *** * ********** ***** * **** 2.3 ****** ******** ******************************* 1.5 *********************************************** 0.8 *********************************************** 0.0 ----------------------------------------------- Multilevel FFDKTGGNENNGEQLLAYVDKVLAETGAKKVDIIAHSMGGANTLYVA consensus GVQADDNPLGR PV ARF EQL DA T NLVG H LTIR YI sequence QWSS NSSNR SSQ KR KV Q P S Y T Y QS -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ----------------------------------------------- ESTA_BACSU 72 1.76e-49 WSRDKLYAVD FWDKTGTNYNNGPVLSRFVQKVLDETGAKKVDIVAHSMGGANTLYYI KNLDGGNKVA ESTB_BACSU 70 1.46e-48 WQSNKLYAID FYDKTGNNLNNGPQLASYVDRVLKETGAKKVDIVAHSMGGANTLYYI KYLGGGNKIQ LIP_VIBCH 74 1.30e-43 TRDGAQVYVA QVSATNSSERRGEQLLAQVESLLAVTGAKKVNLIGHSHGGPTIRYVA SVRPDLVASV LIP_BURGL 90 7.42e-43 GAKVYVANLS GFQSDDGPNGRGEQLLAYVKQVLAATGATKVNLIGHSQGGLTSRYVA AVAPQLVASV -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- ESTA_BACSU 1.8e-49 71_[1]_94 ESTB_BACSU 1.5e-48 69_[1]_94 LIP_VIBCH 1.3e-43 73_[1]_192 LIP_BURGL 7.4e-43 89_[1]_222 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=47 seqs=4 ESTA_BACSU ( 72) FWDKTGTNYNNGPVLSRFVQKVLDETGAKKVDIVAHSMGGANTLYYI 1 ESTB_BACSU ( 70) FYDKTGNNLNNGPQLASYVDRVLKETGAKKVDIVAHSMGGANTLYYI 1 LIP_VIBCH ( 74) QVSATNSSERRGEQLLAQVESLLAVTGAKKVNLIGHSHGGPTIRYVA 1 LIP_BURGL ( 90) GFQSDDGPNGRGEQLLAYVKQVLAATGATKVNLIGHSQGGLTSRYVA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 47 n= 908 bayes= 7.82018 E= 1.1e-017 -865 -865 -865 -865 442 121 -865 -865 -865 -865 -865 -865 -865 250 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 342 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 144 479 266 -865 -865 356 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 250 -865 159 -865 -865 -865 -865 131 -865 -865 -865 -865 -865 -865 -865 372 -865 -865 -865 -865 -865 -865 159 -865 -865 -865 -865 -865 -865 256 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 345 -865 -865 -865 -865 -865 256 -865 -865 221 -865 -865 -865 -865 -865 209 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 121 -865 -865 -865 -865 -865 209 -865 -865 -865 159 187 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 309 295 -865 -865 159 -865 -865 -865 -865 -865 -865 -865 366 -865 -865 -865 -865 -865 125 -865 209 -865 -865 -865 -865 -865 -865 -865 266 -865 -865 -865 -865 -865 121 -865 -865 -865 -865 -865 309 -865 -865 287 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 309 -865 -865 387 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 321 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 466 -865 -865 -865 -865 -865 -865 -865 -865 395 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 409 -865 -865 -865 144 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 325 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 131 -865 -865 -865 -865 -865 -865 -865 -865 225 -865 -865 -865 -865 -865 159 -865 -865 -865 -865 231 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 287 159 -865 -865 -865 -865 -865 -865 -865 -865 342 -865 -865 -865 -865 -865 -865 -865 -865 250 -865 -865 -865 -865 -865 366 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 344 -865 -865 -865 -865 256 366 -865 -865 -865 -865 272 -865 -865 -865 -865 250 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 272 -865 -865 -865 -865 250 287 159 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 125 -865 -865 -865 -865 -865 -865 -865 303 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 325 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 231 -865 256 -865 -865 -865 -865 -865 272 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 131 -865 -865 466 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 144 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 387 -865 -865 -865 -865 -865 -865 -865 -865 321 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 331 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 431 -865 -865 -865 -865 -865 -865 -865 187 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 472 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 344 -865 -865 -865 -865 356 -865 -865 -865 -865 -865 -865 -865 -865 309 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 323 -865 225 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 323 -865 -865 -865 -865 -865 -865 -865 -865 -865 244 -865 -865 231 -865 -865 -865 -865 221 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 521 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 359 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 321 -865 -865 -865 487 -865 -865 250 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 321 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 321 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 231 -865 -865 -865 -865 -865 -865 -865 -865 125 -865 -865 295 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 309 -865 -865 -865 -865 287 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 223 -865 -865 -865 -865 -865 -865 -865 159 287 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 225 -865 -865 -865 -865 387 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 466 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 244 -865 366 231 -865 -865 -865 -865 -865 -865 323 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 47 nsites= 4 E= 1.1e-017 0.000000 0.000000 0.000000 0.000000 0.500000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.250000 0.250000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.750000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.250000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.250000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.750000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.250000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.250000 0.250000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.750000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.750000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.500000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- [FGQ][FVWY][DQS][KAS][TD][GDN][GNST][NPS][ELNY][NGR][NR]G[EP][QV]L[LAS][ARS][YFQ]V[DEKQ][KQRS][VL]L[ADK][EAV]TGA[KT]KV[DN][IL][IV][AG]HS[MHQ]GG[ALP][NT][TIS][LR]Y[VY][AI] -------------------------------------------------------------------------------- Time 0.66 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 width = 47 sites = 2 llr = 248 E-value = 4.0e-006 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A :::::::::::::::::::::::::::::5:5::::5:::::5:::: pos.-specific C a:::::::::::::::::::::::::::::::::::::::::::::: probability D ::::::::::55::::::a::::::::::::::a::::::::::::: matrix E :::::::::::::::::::a:::::::::::55:::::::::::::: F ::::5:::::::::::::::::::::::::5:::::::::::::::: G :::::a::::::::::::::::5::a::5:::::::::::::::::: H :::5:::::::::5::a::::::::::5:::::::::::::a::::: I ::::::::a:::::::::::a:::::5:::::::::::5:::::::: K ::::::5:::::::::::::::::::::::::::::::::::::::a L :::55::::::::::::a:::::aa::::5:::::::5:::::::a: M ::::::::::::::5:::::::::::::::::::::::::::::::: N :::::::::::::::a:::::a::::::::5::::::::::::a::: P ::::::::::::::::::::::::::::::::::a:::::::::::: Q ::::::5:::::::::::::::5:::::::::::::::::5:::::: R :::::::::5:::5:::::::::::::5:::::::::::a::::a:: S :a5::::::5:5::::::::::::::::5:::::::::::::::::: T ::5:::::::5:::::::::::::::::::::5:::5:::5:::::: V :::::::a::::::::::::::::::5::::::::a:5::::5:::: W ::::::::::::::5:::::::::::::::::::::::::::::::: Y ::::::::::::a:::::::::::::::::::::::::5:::::::: bits 7.5 * 6.8 * 6.0 * * 5.3 * * * * * * Relative 4.5 * * * * * *** ** * * * * Entropy 3.8 ** *** ***** **** * ****** ** * ** * (178.7 bits) 3.0 **************************** ****** **** **** 2.3 *********************************************** 1.5 *********************************************** 0.8 *********************************************** 0.0 ----------------------------------------------- Multilevel CSSHFGKVIRDDYHMNHLDEINGLLGIHGAFAEDPVALIRQHANRLK consensus TLL Q STS RW Q VRSLNET TVY T V sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ----------------------------------------------- LIP_VIBCH 262 2.24e-56 NEPNDGLVAT CSTHLGKVIRDDYRMNHLDEINGLLGIHSLFETDPVTLYRQHANRLK QAGL LIP_BURGL 308 1.88e-54 SGQNDGLVSR CSSLFGQVISTSYHWNHLDEINQLLGVRGANAEDPVAVIRTHVNRLK LQGV -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- LIP_VIBCH 2.2e-56 261_[2]_4 LIP_BURGL 1.9e-54 307_[2]_4 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=47 seqs=2 LIP_VIBCH ( 262) CSTHLGKVIRDDYRMNHLDEINGLLGIHSLFETDPVTLYRQHANRLK 1 LIP_BURGL ( 308) CSSLFGQVISTSYHWNHLDEINQLLGVRGANAEDPVAVIRTHVNRLK 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 47 n= 908 bayes= 8.82337 E= 4.0e-006 -765 753 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 359 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 259 286 -765 -765 -765 -765 -765 -765 -765 -765 -765 421 -765 -765 224 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 441 -765 -765 -765 -765 224 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 321 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 372 -765 -765 -765 -765 350 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 344 -765 -765 -765 -765 -765 -765 -765 -765 -765 423 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 386 259 -765 -765 -765 -765 -765 -765 356 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 286 -765 -765 -765 -765 -765 356 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 259 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 465 -765 -765 -765 -765 -765 -765 421 -765 -765 -765 -765 -765 -765 -765 386 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 486 -765 -765 -765 -765 -765 -765 -765 579 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 409 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 521 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 324 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 456 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 565 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 423 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 409 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 221 -765 -765 -765 -765 -765 -765 -765 350 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 324 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 324 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 321 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 323 -765 -765 -765 -765 -765 -765 -765 -765 -765 244 -765 -765 -765 -765 -765 -765 -765 -765 421 -765 -765 -765 -765 -765 -765 -765 386 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 221 -765 -765 -765 -765 -765 -765 -765 -765 -765 259 -765 -765 -765 -765 231 -765 -765 -765 -765 -765 -765 -765 -765 224 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 441 -765 -765 -765 -765 -765 -765 309 -765 -765 -765 -765 -765 -765 -765 -765 231 -765 -765 465 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 465 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 286 -765 -765 -765 -765 -765 456 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 494 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 344 -765 -765 231 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 286 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 224 -765 -765 -765 -765 -765 -765 -765 244 -765 -765 -765 -765 -765 -765 -765 -765 -765 323 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 365 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 486 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 350 -765 -765 286 -765 -765 -765 -765 -765 -765 -765 -765 -765 521 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 231 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 244 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 409 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 486 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 324 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 472 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 47 nsites= 2 E= 4.0e-006 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- CS[ST][HL][FL]G[KQ]VI[RS][DT][DS]Y[HR][MW]NHLDEIN[GQ]LLG[IV][HR][GS][AL][FN][AE][ET]DPV[AT][LV][IY]R[QT]H[AV]NRLK -------------------------------------------------------------------------------- Time 1.11 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 width = 43 sites = 2 llr = 231 E-value = 1.1e-005 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A :::::::::::::::::5:::::::::::::a::::::::::: pos.-specific C ::::::::::::::::::::::::::::::::::::::::::: probability D :::a::::::::::::::a::::::::::5::::::::::::: matrix E ::::::::::::::::::::::::::::::::::::::::::: F ::::::::::::::::::::::::::::::::::::::::::: G :a::::::::::::::::::::::::::::a:::::::a:a:: H :::::::::::::::::::::::::::::::::::::5:::a: I ::::::::a::::a::::::a:5:::::::::::5:5::5::a K :::::::a::::::::::::::::::::::::::::::::::: L :::::::::a::::::5::::::::a::a:::::::5:::::: M :::::::::::::::::::5::5:::::::::::::::::::: N :::::a:::::::::::5:::::a:::::::::a::::::::: P a:::a:::::::::::::::::::::::::::::::::::::: Q ::::::a::::::::::::5:::::::::5:::::a::::::: R :::::::::::::::::::::::::::a::::a:::::::::: S ::::::::::::a::a5:::::::5:a:::::::::::::::: T ::a::::::::a::::::::::::::::::::::::::::::: V :::::::::::::::::::::a::::::::::::5::::5::: W ::::::::::::::::::::::::::::::::::::::::::: Y ::::::::::a:::a:::::::::5::::::::::::5::::: bits 7.5 6.8 6.0 5.3 * * * Relative 4.5 * ** *** * ** *** * * * ** Entropy 3.8 * ******* ****** ****** ** * ** * * ** (166.5 bits) 3.0 **************** ************************** 2.3 ******************************************* 1.5 ******************************************* 0.8 ******************************************* 0.0 ------------------------------------------- Multilevel PGTDPNQKILYTSIYSLADMIVINSLSRLDGARNIQIHGIGHI consensus SN Q M Y Q V LY V sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------------------------------------- ESTA_BACSU 146 2.79e-52 ANRLTTGKAL PGTDPNQKILYTSIYSSADMIVMNYLSRLDGARNVQIHGVGHI GLLYSSQVNS ESTB_BACSU 144 6.57e-51 ANGLVSSTAL PGTDPNQKILYTSIYSLNDQIVINSLSRLQGARNIQLYGIGHI GLLSNSQVNG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- ESTA_BACSU 2.8e-52 145_[3]_24 ESTB_BACSU 6.6e-51 143_[3]_24 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=43 seqs=2 ESTA_BACSU ( 146) PGTDPNQKILYTSIYSSADMIVMNYLSRLDGARNVQIHGVGHI 1 ESTB_BACSU ( 144) PGTDPNQKILYTSIYSLNDQIVINSLSRLQGARNIQLYGIGHI 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 43 n= 924 bayes= 8.84862 E= 1.1e-005 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 494 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 321 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 386 -765 -765 -765 -765 -765 456 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 494 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 409 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 450 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 472 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 423 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 324 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 465 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 386 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 359 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 423 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 465 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 359 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 224 -765 -765 -765 -765 -765 259 -765 -765 -765 -765 231 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 309 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 456 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 486 -765 -765 350 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 423 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 344 -765 -765 -765 -765 -765 -765 -765 -765 -765 323 -765 -765 486 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 409 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 259 -765 -765 -765 365 -765 -765 -765 -765 -765 -765 -765 -765 -765 324 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 359 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 486 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 324 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 356 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 350 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 321 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 331 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 486 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 409 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 323 -765 -765 -765 -765 -765 -765 -765 -765 -765 244 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 450 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 323 -765 224 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 421 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 365 -765 -765 -765 -765 -765 321 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 323 -765 -765 -765 -765 -765 -765 -765 -765 -765 244 -765 -765 -765 -765 -765 -765 -765 321 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 521 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 423 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 43 nsites= 2 E= 1.1e-005 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 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 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- PGTDPNQKILYTSIYS[LS][AN]D[MQ]IV[IM]N[SY]LSRL[DQ]GARN[IV]Q[IL][HY]G[IV]GHI -------------------------------------------------------------------------------- Time 1.49 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- ESTA_BACSU 4.61e-93 71_[1(1.76e-49)]_27_[3(2.79e-52)]_24 ESTB_BACSU 4.19e-90 69_[1(1.46e-48)]_27_[3(6.57e-51)]_24 LIP_BURGL 1.49e-87 89_[1(7.42e-43)]_171_[2(1.88e-54)]_4 LIP_VIBCH 4.06e-90 73_[1(1.30e-43)]_141_[2(2.24e-56)]_4 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: kodomo-count ********************************************************************************