******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 4.3.0 (Release date: Sat Sep 26 01:51:56 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 ------------- ------ ------ ------------- ------ ------ HUTP_BACSU 1.0000 148 HUTP_BACHD 1.0000 147 HUTP_BACCZ 1.0000 146 HUTP_BACC2 1.0000 146 HUTP_GEOSW 1.0000 149 HUTP_GEOTN 1.0000 149 HUTP_BACCE 1.0000 132 ******************************************************************************** ******************************************************************************** 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= 7 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= 1017 N= 7 sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.105 C 0.007 D 0.024 E 0.088 F 0.011 G 0.111 H 0.037 I 0.069 K 0.051 L 0.095 M 0.031 N 0.027 P 0.023 Q 0.032 R 0.060 S 0.042 T 0.049 V 0.088 W 0.013 Y 0.036 Background letter frequencies (from dataset with add-one prior applied): A 0.104 C 0.008 D 0.024 E 0.088 F 0.012 G 0.110 H 0.038 I 0.068 K 0.051 L 0.095 M 0.032 N 0.027 P 0.023 Q 0.033 R 0.060 S 0.042 T 0.049 V 0.087 W 0.014 Y 0.037 ******************************************************************************** ******************************************************************************** MOTIF 1 width = 50 sites = 7 llr = 857 E-value = 2.0e-154 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A :::::::::4:::::1::::a::::::::::3:::::a:9::::::a::: pos.-specific C :::::::::::::::::::::::::::::::::::::::::::::::::: probability D ::::::::::7:::::::::::::::::4:::::1::::::::::::::: matrix E :::::1:3::::::::::::::::::::413:a:9::::::::::::::: F :::::::::::1:::::::a:::::::::::::::::::::::::::::: G a:::a::::6::::::a:::::::a::::4:::a::::::::a::a:::: H :::::::::::::::::::::::::::::::::::::::::::::::::: I ::::::4::::::::::::::6::::::::::::::6:::::::a:::4: K :::::::::::::::::::::::::1::1:47:::::::::::::::::7 L :::::::1a::47::::a::::1:::::::::::::::::a::::::::: M ::::::1:::::1::::::::::::::::::::::::::::::::::::: N :::::::::::::::::::::::::3:::1:::::::::::::::::::: P ::::::::::::::::::::::::::a:::1::::::::::::::::a:: Q :::::9:6::::1::::::::::::::::1:::::::::::::::::::: R :::a:::::::::a::::a::::a:1:::::::::::::::::::::::3 S ::::::::::3::::::::::::::::::11::::::::1:::::::::: T ::a:::::::::::a::::::::::4:::::::::::::::::a:::::: V :a::::4::::4:::9:::::49:::::::::::::4:a:::::::::6: W :::::::::::::::::::::::::::::::::::a:::::::::::::: Y :::::::::::::::::::::::::::a:::::::::::::a:::::::: bits 7.0 6.3 * * 5.6 * * * * 4.9 * ** * * * Relative 4.2 ** * * ** ** * ** * * ** * Entropy 3.5 ****** * * ** ***** ** ** **** ** ******** * (176.7 bits) 2.8 ****** ** * ***************** ******************* 2.1 ************************************************** 1.4 ************************************************** 0.7 ************************************************** 0.0 -------------------------------------------------- Multilevel GVTRGQIQLGDLLRTVGLRFAIVRGTPYDGKKEGEWIAVALYGTIGAPVK consensus VE ASV V N E EA V IR sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------------------------------------------------- HUTP_BACCE 83 4.09e-58 LYHAIMEALY GVTRGQIQLADVLRTVGLRFAIVRGTPYDGKKEGEWVAVALYGTIGAPVK HUTP_BACCZ 83 4.09e-58 LYHAIMEALY GVTRGQIQLADVLRTVGLRFAIVRGTPYDGKKEGEWVAVALYGTIGAPVK GSEHEAIGLG HUTP_BACC2 83 7.27e-57 LYHAIMEALY GVTRGQIQLADVLRTVGLRFAIVRGRPYDGKKEGEWVAVALYGTIGAPVK GSEHEAIGLG HUTP_GEOSW 86 1.40e-54 LYHAVVEAVQ GVTRGQVELGDLMRTVGLRFAVVRGNPYENSKEGEWIAVALYGTIGAPIR GLEHETIGLG HUTP_GEOTN 86 4.44e-54 LYHAILEAVH GVTRGQVELGDLLRTAGLRFAVVRGTPYEQPKEGEWIAVALYGTIGAPVR GLEHEAVGLG HUTP_BACHD 84 8.32e-54 LYHAIIEALH GVTRGQVQLGSFQRTVGLRFAIVRGKPYKEEAEGEWIAVALYGTIGAPIK GQEHETIGLG HUTP_BACSU 85 7.28e-52 LYHATMEALH GVTRGEMLLGSLLRTVGLRFAVLRGNPYESEAEGDWIAVSLYGTIGAPIK GLEHETFGVG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- HUTP_BACCE 4.1e-58 82_[1] HUTP_BACCZ 4.1e-58 82_[1]_14 HUTP_BACC2 7.3e-57 82_[1]_14 HUTP_GEOSW 1.4e-54 85_[1]_14 HUTP_GEOTN 4.4e-54 85_[1]_14 HUTP_BACHD 8.3e-54 83_[1]_14 HUTP_BACSU 7.3e-52 84_[1]_14 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=50 seqs=7 HUTP_BACCE ( 83) GVTRGQIQLADVLRTVGLRFAIVRGTPYDGKKEGEWVAVALYGTIGAPVK 1 HUTP_BACCZ ( 83) GVTRGQIQLADVLRTVGLRFAIVRGTPYDGKKEGEWVAVALYGTIGAPVK 1 HUTP_BACC2 ( 83) GVTRGQIQLADVLRTVGLRFAIVRGRPYDGKKEGEWVAVALYGTIGAPVK 1 HUTP_GEOSW ( 86) GVTRGQVELGDLMRTVGLRFAVVRGNPYENSKEGEWIAVALYGTIGAPIR 1 HUTP_GEOTN ( 86) GVTRGQVELGDLLRTAGLRFAVVRGTPYEQPKEGEWIAVALYGTIGAPVR 1 HUTP_BACHD ( 84) GVTRGQVQLGSFQRTVGLRFAIVRGKPYKEEAEGEWIAVALYGTIGAPIK 1 HUTP_BACSU ( 85) GVTRGEMLLGSLLRTVGLRFAVLRGNPYESEAEGDWIAVSLYGTIGAPIK 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 50 n= 674 bayes= 6.57419 E= 2.0e-154 -945 -945 -945 -945 -945 318 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 352 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 434 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 406 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 318 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 70 -945 -945 -945 -945 -945 -945 -945 -945 -945 471 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 264 -945 -945 216 -945 -945 -945 -945 -945 -945 230 -945 -945 -945 -945 -945 170 -945 -945 -945 -945 -945 60 -945 -945 -945 412 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 340 -945 -945 -945 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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 0.428571 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.571429 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.714286 0.000000 0.000000 0.000000 0.000000 0.000000 0.285714 0.000000 0.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- GVTRGQ[IV][QE]L[GA][DS][LV]LRTVGLRFA[IV]VRG[TN]PY[DE]G[KE][KA]EGEW[IV]AVALYGTIGAP[VI][KR] -------------------------------------------------------------------------------- Time 0.39 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 width = 50 sites = 7 llr = 831 E-value = 2.0e-140 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A :::::::::1::1::::a9:::a9:::::::::::::1:a:::a:::a:: pos.-specific C :::a:::::::::::::::::::::::::::::::::::::::::::::: probability D :::::::::::1::::::::::::::::::1:4:::1::::::::::::: matrix E :::::::::::4::::::::a::::::1::413:::9:::::::::a::: F ::::::::::::::::::::::::::::1::::::::::::::::::::: G :::::a::a::::::::::::::::::3:::311:::::::::::::::: H :::::::::::::1::::::::::::1:::::::::::a:::a::::::4 I ::::1::::::::::4:::4:::::::::7::::::::::::::71:::: K :6::1:7:::::::a:::::::::a3:::::::::::::::::::::::: L ::::1:::::::1::::::::::::::::::::3::::::a::::1::7: M ::::::::::a::::::::4:::::::::::::::::3:::::::6:::: N :::::::::::4:1::::::::::::71::1::::::::::::::::::: P ::::::::::::1::::::::::::::::::::::::::::::::::::: Q :1::1::::::::7:::::::::::::4::1::::::::::::::::::1 R :3::::3::::::::::::::::::3::::1::::a:::::::::::::: S ::1::::::9::6:::::1::::1:41::::11::::1:::::::::::: T ::::4::::::::::::::::a:::::::::4:::::4::::::1::::: V ::1::::a:::::::6a::1::::::::93:::6::::::::::11::3: W 9::::::::::::::::::::::::::::::::::::::::::::::::: Y 1:7:::::::::::::::::::::::::::::::a::::::a:::::::4 bits 7.0 * 6.3 * 5.6 * * 4.9 * * * * * ** Relative 4.2 * * * * * * * ** * ** Entropy 3.5 * ** ****** ** ** *** * * * *** ****** ** * (171.3 bits) 2.8 **** ********************** ** * **************** 2.1 ************************************************** 1.4 ************************************************** 0.7 ************************************************** 0.0 -------------------------------------------------- Multilevel WKYCTGKVGSMESQKVVAAIETAAKSNQVIETDVYRETHALYHAIMEALH consensus R R N I M K G V GEL M VY sequence R -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------------------------------------------------- HUTP_BACCE 33 5.69e-63 ESPVLSIPKG WKYCTGKVGSMNSQKVVAAMETAAKSNQVIETDVYRETHALYHAIMEALY GVTRGQIQLA HUTP_BACC2 33 5.69e-63 ESPVLSIPKG WKYCTGKVGSMNSQKVVAAMETAAKSNQVIETDVYRETHALYHAIMEALY GVTRGQIQLA HUTP_BACCZ 33 5.69e-63 ESPVLSIPKD WKYCTGKVGSMNSQKVVAAMETAAKSNQVIETDVYRETHALYHAIMEALY GVTRGQIQLA HUTP_GEOSW 36 3.02e-50 KITAHLDNLQ WRYCKGKVGSMELQKIVASVETAAKRNNVVNGELYREMHALYHAVVEAVQ GVTRGQVELG HUTP_GEOTN 36 4.14e-50 AILDELRASN WRYCQGRVGAMEPQKIVAAIETAAKRHEVVDGSLYRDMHALYHAILEAVH GVTRGQVELG HUTP_BACSU 35 5.26e-50 TQVEELERDG WKVCLGKVGSMDAHKVVAAIETASKKSGVIQSEGYRESHALYHATMEALH GVTRGEMLLG HUTP_BACHD 34 9.21e-50 IVEASILSSD YQSCIGRVGSMESNKIVAAIETAAKKNGFIREGVYREAHALYHAIIEALH GVTRGQVQLG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- HUTP_BACCE 5.7e-63 32_[2]_50 HUTP_BACC2 5.7e-63 32_[2]_64 HUTP_BACCZ 5.7e-63 32_[2]_64 HUTP_GEOSW 3e-50 35_[2]_64 HUTP_GEOTN 4.1e-50 35_[2]_64 HUTP_BACSU 5.3e-50 34_[2]_64 HUTP_BACHD 9.2e-50 33_[2]_64 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=50 seqs=7 HUTP_BACCE ( 33) WKYCTGKVGSMNSQKVVAAMETAAKSNQVIETDVYRETHALYHAIMEALY 1 HUTP_BACC2 ( 33) WKYCTGKVGSMNSQKVVAAMETAAKSNQVIETDVYRETHALYHAIMEALY 1 HUTP_BACCZ ( 33) WKYCTGKVGSMNSQKVVAAMETAAKSNQVIETDVYRETHALYHAIMEALY 1 HUTP_GEOSW ( 36) WRYCKGKVGSMELQKIVASVETAAKRNNVVNGELYREMHALYHAVVEAVQ 1 HUTP_GEOTN ( 36) WRYCQGRVGAMEPQKIVAAIETAAKRHEVVDGSLYRDMHALYHAILEAVH 1 HUTP_BACSU ( 35) WKVCLGKVGSMDAHKVVAAIETASKKSGVIQSEGYRESHALYHATMEALH 1 HUTP_BACHD ( 34) YQSCIGRVGSMESNKIVAAIETAAKKNGFIREGVYREAHALYHAIIEALH 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 50 n= 674 bayes= 6.57419 E= 2.0e-140 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 599 196 -945 -945 -945 -945 -945 -945 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0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.714286 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.142857 0.142857 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.142857 0.000000 0.142857 0.571429 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.142857 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 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.714286 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.285714 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.428571 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.142857 0.000000 0.000000 0.000000 0.000000 0.000000 0.428571 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- W[KR]YCTG[KR]VGSM[EN]SQK[VI]VAA[IM]ETAAK[SKR]N[QG]V[IV]E[TG][DE][VL]YRE[TM]HALYHAIMEA[LV][HY] -------------------------------------------------------------------------------- Time 0.58 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 width = 29 sites = 7 llr = 400 E-value = 4.9e-036 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A ::::1:::::::9:::9:4:1::::11:1 pos.-specific C ::::::::::::::::::::::::::::: probability D :::::::::::::::::::6::::::::1 matrix E :::1:1:::::::::::::49393:1:11 F ::::::::::::::::::1:::::::::: G :1::4:1::a:::::::::::11:3:::: H :::3::6:::::::::::::::::::::: I ::::::::a::::1:::::::::1::3:6 K ::4:41:::::::::::::::::::1::: L :66::::::::3:1aa171:::::::41: M a::::::::::4:4:::1::::::::::: N :::::::::::1::::::1::4::::::: P :::::::::::::::::::::1::4:::: Q :::6::::::11:::::::::::::1::: R ::::::1a::9:::::::::::::::::: S :1:::3::::::1:::::1::::6:::6: T :1:::4::::::::::::::::::1::1: V ::::::1::::::3:::1::::::141:: W ::::::::::::::::::::::::::::: Y ::::::::::::::::::::::::::::: bits 7.0 6.3 5.6 4.9 * Relative 4.2 * ** Entropy 3.5 * * **** ** * (82.5 bits) 2.8 * ** ******* **** ****** * 2.1 ************************* ** 1.4 ***************************** 0.7 ***************************** 0.0 ----------------------------- Multilevel MLLQGTHRIGRMAMLLALADENESPVLSI consensus KHKS L V E E EG I sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ----------------------------- HUTP_BACCE 1 4.18e-34 . MLLQGTHRIGRMAMLLALADENESPVLSI PKGWKYCTGK HUTP_BACC2 1 4.18e-34 . MLLQGTHRIGRMAMLLALADENESPVLSI PKGWKYCTGK HUTP_BACCZ 1 4.18e-34 . MLLQGTHRIGRMAMLLALADENESPVLSI PKDWKYCTGK HUTP_GEOSW 1 1.89e-24 . MLKQAKGRIGRNAVLLALFEEEEEGKITA HLDNLQWRYC HUTP_BACHD 1 4.69e-24 . MSKHKSHRIGQLAILLAVSEEPGIVEASI LSSDYQSCIG HUTP_GEOTN 1 1.77e-23 . MGKEKSVRIGRQALLLAMLDEGEEGAILD ELRASNWRYC HUTP_BACSU 1 5.26e-23 . MTLHKERRIGRLSVLLLLNEAEESTQVEE LERDGWKVCL -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- HUTP_BACCE 4.2e-34 [3]_103 HUTP_BACC2 4.2e-34 [3]_117 HUTP_BACCZ 4.2e-34 [3]_117 HUTP_GEOSW 1.9e-24 [3]_120 HUTP_BACHD 4.7e-24 [3]_118 HUTP_GEOTN 1.8e-23 [3]_120 HUTP_BACSU 5.3e-23 [3]_119 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=29 seqs=7 HUTP_BACCE ( 1) MLLQGTHRIGRMAMLLALADENESPVLSI 1 HUTP_BACC2 ( 1) MLLQGTHRIGRMAMLLALADENESPVLSI 1 HUTP_BACCZ ( 1) MLLQGTHRIGRMAMLLALADENESPVLSI 1 HUTP_GEOSW ( 1) MLKQAKGRIGRNAVLLALFEEEEEGKITA 1 HUTP_BACHD ( 1) MSKHKSHRIGQLAILLAVSEEPGIVEASI 1 HUTP_GEOTN ( 1) MGKEKSVRIGRQALLLAMLDEGEEGAILD 1 HUTP_BACSU ( 1) MTLHKERRIGRLSVLLLLNEAEESTQVEE 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 29 n= 821 bayes= 7.4715 E= 4.9e-036 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 497 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 38 -945 -945 -945 259 -945 -945 -945 -945 -945 175 154 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 307 259 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 70 -945 -945 292 -945 -945 -945 -945 -945 -945 412 -945 -945 -945 -945 -945 -945 46 -945 -945 -945 -945 196 -945 -945 307 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 70 -945 -945 -945 -945 148 -945 -945 -945 -945 -945 -945 275 312 -945 -945 -945 -945 -945 -945 -945 -945 38 392 -945 -945 -945 -945 -945 -945 -945 126 -945 -945 72 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 406 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 387 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 318 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 212 384 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 159 375 240 -945 212 -945 -945 -945 -945 -945 -945 304 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 175 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 106 -945 60 375 -945 -945 -945 -945 -945 -945 172 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 340 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 340 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 304 -945 -945 -945 -945 -945 -945 -945 -945 60 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 292 216 -945 -945 -945 -945 -945 -945 72 -945 -945 204 -945 -945 -945 362 -945 -945 -945 -945 60 -945 240 -945 -945 -945 175 -945 -945 -945 -945 -945 -945 457 229 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 46 -945 -945 329 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 170 -945 38 -945 -945 -945 -945 -945 399 262 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 329 -945 38 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 170 -945 -945 -945 106 -945 -945 -945 -945 -945 -945 -945 375 -945 -945 -945 -945 -945 -945 -945 -945 -945 138 -945 -945 -945 -945 -945 -945 421 -945 -945 -945 154 72 -945 -945 46 -945 -945 70 -945 -945 -945 -945 148 -945 -945 -945 -945 212 -945 -945 -945 230 -945 -945 46 -945 -945 -945 -945 -945 -945 206 -945 218 -945 -945 -945 -945 -945 -945 -945 72 -945 -945 -945 -945 -945 70 -945 -945 -945 -945 -945 60 -945 -945 -945 -945 -945 375 154 -945 -945 -945 46 -945 257 70 -945 -945 -945 306 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -945 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 29 nsites= 7 E= 4.9e-036 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 0.142857 0.000000 0.000000 0.000000 0.571429 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-------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- ML[LK][QH][GK][TS]HRIGR[ML]A[MV]LLALA[DE]E[NE]E[SE][PG]V[LI]SI -------------------------------------------------------------------------------- Time 0.64 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- HUTP_BACSU 8.60e-113 [3(5.26e-23)]_5_[2(5.26e-50)]_[1(7.28e-52)]_14 HUTP_BACHD 1.56e-115 [3(4.69e-24)]_4_[2(9.21e-50)]_[1(8.32e-54)]_14 HUTP_BACCZ 6.22e-143 [3(4.18e-34)]_3_[2(5.69e-63)]_[1(4.09e-58)]_14 HUTP_BACC2 1.09e-141 [3(4.18e-34)]_3_[2(5.69e-63)]_[1(7.27e-57)]_14 HUTP_GEOSW 3.79e-117 [3(1.89e-24)]_6_[2(3.02e-50)]_[1(1.40e-54)]_14 HUTP_GEOTN 1.50e-115 [3(1.77e-23)]_6_[2(4.14e-50)]_[1(4.44e-54)]_14 HUTP_BACCE 4.02e-143 [3(4.18e-34)]_3_[2(5.69e-63)]_[1(4.09e-58)] -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: kodomo.fbb.msu.ru ********************************************************************************