******************************************************************************** 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 ------------- ------ ------ ------------- ------ ------ ACP_BACSU 1.0000 77 ACP_BREBN 1.0000 77 ACP_LISW6 1.0000 77 ACP_HAEPS 1.0000 76 ACP_VIBPA 1.0000 77 ACP_TOLAT 1.0000 78 ACP_PSEP1 1.0000 78 ACP_GEOMG 1.0000 77 ACP_AKKM8 1.0000 80 ACP_OCEIH 1.0000 77 ******************************************************************************** ******************************************************************************** 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= 10 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= 774 N= 10 sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.090 C 0.000 D 0.127 E 0.165 F 0.028 G 0.031 H 0.005 I 0.081 K 0.063 L 0.075 M 0.031 N 0.019 P 0.008 Q 0.030 R 0.017 S 0.057 T 0.045 V 0.114 W 0.000 Y 0.013 Background letter frequencies (from dataset with add-one prior applied): A 0.089 C 0.001 D 0.125 E 0.162 F 0.029 G 0.031 H 0.006 I 0.081 K 0.063 L 0.074 M 0.031 N 0.020 P 0.009 Q 0.030 R 0.018 S 0.057 T 0.045 V 0.112 W 0.001 Y 0.014 ******************************************************************************** ******************************************************************************** MOTIF 1 width = 50 sites = 10 llr = 1060 E-value = 3.3e-187 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A :::::::a::::::::::6:::::::::1:::a1::2::138:1:::112 pos.-specific C :::::::::::::::::::::::::::::::::::::::::::::::::: probability D :::6a:1:a::a:::::::::4::8::::a15::::::::5::6:::::: matrix E :::4::::::::::a:::4:a69:1:a:::95:9::::::1:::::32:: F :a:::::::::::::::::1:::a:::::::::::::::::::::::::: G ::::::9:::::::::::::::::1::::::::::::::4:::::::::: H ::::::::::::::::::::::::::::::::::::::::::::::::4: I ::2::::::::::::::::::::::3:9:::::::9::::::5::7:::: K 1:4:::::::::::::::::::::::::::::::9::::::::2::1111 L :::::a::::a::::a:::9:::::1:::::::::1::::::::::1::: M ::1::::::::::::::a:::::::2:::::::::::::::::::::::: N ::::::::::::::::::::::1:::::::::::1:2::::::1::222: P ::::::::::::::::::::::::::::5::::::::::::::::::::: Q ::::::::::::::::::::::::::::::::::::2::5::::::2:16 R :::::::::::::::::::::::::::::::::::::::::::::::::: S 9::::::::a::::::::::::::::::4::::::::3::1::::::4:: T ::::::::::::6::::::::::::3::::::::::47::::::::1::1 V ::3:::::::::4a::a::::::::1:1::::::::::a::25::3::1: W :::::::::::::::::::::::::::::::::::::::::::::::::: Y ::::::::::::::::::::::::::::::::::::::::::::a::::: bits 9.6 8.7 7.7 6.7 Relative 5.8 * Entropy 4.8 * * * * (152.9 bits) 3.9 ** *** ** * * * * * * * * * * 2.9 ** ************** ** ** **** * ****** * ** ** 1.9 ************************************************** 1.0 ************************************************** 0.0 -------------------------------------------------- Multilevel SFKDDLGADSLDTVELVMALEEEFDIEIPDEDAEKITTVQDAIDYIESHQ consensus VE V E D T S E AS GAVVK VNENA sequence I M N QN Q -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------------------------------------------------- ACP_TOLAT 28 1.76e-53 VKEDDVKSAA SFVDDLGADSLDTVELVMALEEEFDTEIPDEEAEKITTVQAAIDYILSHQ E ACP_VIBPA 28 4.38e-51 VDEAEVKNEA SFVDDLGADSLDTVELVMALEEEFDTEIPDEEAEKITTVQAAIDYVNSAQ ACP_HAEPS 27 3.10e-50 AKAEDVKPET SFIEDLGADSLDTVELVMALEEEFDIEIPDEEAEKIATVQSAIDYVQNNQ ACP_PSEP1 28 6.65e-50 VKEEEVTIEK SFVDDLGADSLDTVELVMALEEEFETEIPDEEAEKITTVQAAIDYVKAHQ A ACP_GEOMG 28 6.42e-49 VDEAQVTNEA SFMDDLGADSLDTVELVMALEEEFDIEISDEDAEKIQSVQDAIDYITEHT ACP_BACSU 28 9.55e-49 VDEADVKLEA SFKEDLGADSLDVVELVMELEDEFDMEISDEDAEKIATVGDAVNYIQNQQ ACP_OCEIH 28 3.71e-46 VEESKVTMEA SFKDDLDADSLDVVELVMELEDEFDMEIADEDAEKINTVGDAVDYINSKA ACP_BREBN 28 4.45e-46 VDESKITLEA SFKEDLGADSLDVVELVMELEDEFDLEISDEDAEKITSVGEVVKYIESHK ACP_LISW6 28 6.37e-45 VEESKVTLEA SFKDDLGADSLDVVELVMELEDEFGVEISDDDAANINTVGDAVKYIEENA ACP_AKKM8 30 1.97e-43 VESDKVTADA KFIEDLGADSLDTVELVMAFEENFDIEVPDEEAEKLQSVADVVAYIEKVQ G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- ACP_TOLAT 1.8e-53 27_[1]_1 ACP_VIBPA 4.4e-51 27_[1] ACP_HAEPS 3.1e-50 26_[1] ACP_PSEP1 6.6e-50 27_[1]_1 ACP_GEOMG 6.4e-49 27_[1] ACP_BACSU 9.6e-49 27_[1] ACP_OCEIH 3.7e-46 27_[1] ACP_BREBN 4.4e-46 27_[1] ACP_LISW6 6.4e-45 27_[1] ACP_AKKM8 2e-43 29_[1]_1 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=50 seqs=10 ACP_TOLAT ( 28) SFVDDLGADSLDTVELVMALEEEFDTEIPDEEAEKITTVQAAIDYILSHQ 1 ACP_VIBPA ( 28) SFVDDLGADSLDTVELVMALEEEFDTEIPDEEAEKITTVQAAIDYVNSAQ 1 ACP_HAEPS ( 27) SFIEDLGADSLDTVELVMALEEEFDIEIPDEEAEKIATVQSAIDYVQNNQ 1 ACP_PSEP1 ( 28) SFVDDLGADSLDTVELVMALEEEFETEIPDEEAEKITTVQAAIDYVKAHQ 1 ACP_GEOMG ( 28) SFMDDLGADSLDTVELVMALEEEFDIEISDEDAEKIQSVQDAIDYITEHT 1 ACP_BACSU ( 28) SFKEDLGADSLDVVELVMELEDEFDMEISDEDAEKIATVGDAVNYIQNQQ 1 ACP_OCEIH ( 28) SFKDDLDADSLDVVELVMELEDEFDMEIADEDAEKINTVGDAVDYINSKA 1 ACP_BREBN ( 28) SFKEDLGADSLDVVELVMELEDEFDLEISDEDAEKITSVGEVVKYIESHK 1 ACP_LISW6 ( 28) SFKDDLGADSLDVVELVMELEDEFGVEISDDDAANINTVGDAVKYIEENA 1 ACP_AKKM8 ( 30) KFIEDLGADSLDTVELVMAFEENFDIEVPDEEAEKLQSVADVVAYIEKVQ 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 50 n= 284 bayes= 6.28335 E= 3.3e-187 -997 -997 -997 -997 -997 -997 -997 -997 67 -997 -997 -997 -997 -997 -997 399 -997 -997 -997 -997 -997 -997 -997 -997 511 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 131 267 -997 167 -997 -997 -997 -997 -997 -997 142 -997 -997 -997 -997 227 130 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 300 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 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-997 88 -997 -997 -997 -997 67 43 -997 331 -997 272 -997 -997 114 -997 -997 -997 16 -997 -997 30 -997 -997 -997 -997 67 -997 -997 331 -997 -997 -997 282 -997 -997 -997 -997 16 -997 -997 -997 -997 -997 599 -997 67 -997 -997 331 -997 173 -997 -997 -997 -16 -997 -997 116 -997 -997 -997 -997 -997 -997 -997 67 -997 -997 -997 -997 431 -997 -997 114 -997 -997 -997 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 50 nsites= 10 E= 3.3e-187 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.100000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.900000 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 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0.000000 0.000000 0.000000 0.000000 0.300000 0.000000 0.000000 0.000000 0.000000 0.100000 0.100000 0.000000 0.200000 0.000000 0.200000 0.000000 0.000000 0.100000 0.000000 0.000000 0.000000 0.100000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.100000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.400000 0.000000 0.000000 0.000000 0.000000 0.100000 0.000000 0.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.100000 0.000000 0.000000 0.200000 0.000000 0.100000 0.000000 0.000000 0.000000 0.100000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.100000 0.000000 0.000000 0.000000 0.000000 0.600000 0.000000 0.000000 0.100000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- SF[KVI][DE]DLGADSLD[TV]VELVM[AE]LE[ED]EFD[ITM]EI[PS]DE[DE]AEKI[TANQ][TS]V[QG][DA][AV][IV][DK]Y[IV][ENQ][SEN][HN][QA] -------------------------------------------------------------------------------- Time 0.31 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 width = 21 sites = 10 llr = 403 E-value = 1.2e-051 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A ::::::2::::1:13:::118 pos.-specific C ::::::::::::::::::::: probability D :::::::6::1:4:23:::1: matrix E :::2:::4::::3822:::8: F ::::::::::::::::::::: G ::::::::::9:::::::::: H ::::::::::::::::::::: I ::::a82:::::::::1:1:: K 2:77::::::::3::4:4::1 L :::::::::a::::::::3:: M ::::::::::::::::::1:: N ::::::::::::::::::2:: P ::::::::::::::::::1:: Q ::::::::6::::::1::::: R 8:1:::::4:::::::::::: S :::1:::::::::13:::1:: T ::2::::::::::::::6::1 V :a:::26::::9::::9:::: W ::::::::::::::::::::: Y ::::::::::::::::::::: bits 9.6 8.7 7.7 6.7 Relative 5.8 Entropy 4.8 * * (58.2 bits) 3.9 * * *** 2.9 ****** **** ** * 1.9 ************** ****** 1.0 ********************* 0.0 --------------------- Multilevel RVKKIIVDQLGVDEAKVTLEA consensus K TE VAER E SD KN sequence I K DE E -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- ACP_BREBN 7 2.47e-21 MADTLE RVKKIIVDRLGVDESKITLEA SFKEDLGADS ACP_VIBPA 7 8.52e-21 MSNIEE RVKKIIVEQLGVDEAEVKNEA SFVDDLGADS ACP_BACSU 7 1.38e-20 MADTLE RVTKIIVDRLGVDEADVKLEA SFKEDLGADS ACP_LISW6 7 6.86e-20 MAEVLE KVTKIIVDRLGVEESKVTLEA SFKDDLGADS ACP_GEOMG 7 4.24e-19 MSAIDK RVKEIVAEQLGVDEAQVTNEA SFMDDLGADS ACP_TOLAT 7 6.51e-19 MSTIEE RVKKIIIEQLGVKEDDVKSAA SFVDDLGADS ACP_HAEPS 6 1.08e-18 MSIEE RVKKIIVDQLGAKAEDVKPET SFIEDLGADS ACP_OCEIH 7 1.91e-18 MAEVFD RVKEIIIDRLDVEESKVTMEA SFKDDLDADS ACP_PSEP1 7 7.23e-18 MSTIEE RVKKIVAEQLGVKEEEVTIEK SFVDDLGADS ACP_AKKM8 9 2.65e-17 MSDNSIEE KVRSIIVDQLGVESDKVTADA KFIEDLGADS -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- ACP_BREBN 2.5e-21 6_[2]_50 ACP_VIBPA 8.5e-21 6_[2]_50 ACP_BACSU 1.4e-20 6_[2]_50 ACP_LISW6 6.9e-20 6_[2]_50 ACP_GEOMG 4.2e-19 6_[2]_50 ACP_TOLAT 6.5e-19 6_[2]_51 ACP_HAEPS 1.1e-18 5_[2]_50 ACP_OCEIH 1.9e-18 6_[2]_50 ACP_PSEP1 7.2e-18 6_[2]_51 ACP_AKKM8 2.7e-17 8_[2]_51 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=21 seqs=10 ACP_BREBN ( 7) RVKKIIVDRLGVDESKITLEA 1 ACP_VIBPA ( 7) RVKKIIVEQLGVDEAEVKNEA 1 ACP_BACSU ( 7) RVTKIIVDRLGVDEADVKLEA 1 ACP_LISW6 ( 7) KVTKIIVDRLGVEESKVTLEA 1 ACP_GEOMG ( 7) RVKEIVAEQLGVDEAQVTNEA 1 ACP_TOLAT ( 7) RVKKIIIEQLGVKEDDVKSAA 1 ACP_HAEPS ( 6) RVKKIIVDQLGAKAEDVKPET 1 ACP_OCEIH ( 7) RVKEIIIDRLDVEESKVTMEA 1 ACP_PSEP1 ( 7) RVKKIVAEQLGVKEEEVTIEK 1 ACP_AKKM8 ( 9) KVRSIIVDQLGVESDKVTADA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 21 n= 574 bayes= 5.81762 E= 1.2e-051 -997 -997 -997 -997 -997 -997 -997 -997 167 -997 -997 -997 -997 -997 550 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 316 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 347 -997 -997 -997 -997 -997 250 -997 214 -997 -997 -997 -997 -997 -997 30 -997 -997 -997 -997 347 -997 -997 -997 -997 -997 -997 82 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 363 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 331 -997 -997 -997 -997 -997 -997 -997 -997 -997 83 -997 -997 116 -997 -997 -997 -997 -997 -997 131 -997 -997 -997 -997 -997 -997 -997 -997 -997 242 -997 -997 -997 -997 227 130 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 431 450 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 375 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -32 -997 -997 484 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 16 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 300 -997 -997 -997 -997 168 88 -997 -997 -997 -997 225 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 16 -997 -997 230 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 82 -997 -997 -997 -997 175 -997 68 30 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 240 -997 -997 -997 -997 -997 -997 127 30 -997 -997 -997 -997 267 -997 -997 -997 -997 173 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 31 -997 -997 -997 -997 -997 -997 -997 -997 -997 300 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 267 -997 -997 -997 -997 -997 -997 -997 372 -997 -997 -997 16 -997 -997 -997 -997 -997 -997 31 -997 201 167 331 350 -997 -997 82 -997 -997 -997 -997 16 -997 -32 230 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 -997 316 -997 -997 -997 -997 -997 -997 -997 67 -997 -997 -997 -997 -997 -997 -997 114 -997 -997 -997 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 21 nsites= 10 E= 1.2e-051 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.800000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 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 0.700000 0.000000 0.000000 0.000000 0.000000 0.000000 0.100000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.700000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.100000 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 0.800000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.600000 0.000000 0.000000 0.000000 0.000000 0.600000 0.400000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.600000 0.400000 0.000000 0.000000 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 0.100000 0.000000 0.000000 0.900000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.100000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.900000 0.000000 0.000000 0.000000 0.000000 0.400000 0.300000 0.000000 0.000000 0.000000 0.000000 0.300000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.100000 0.000000 0.000000 0.800000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.100000 0.000000 0.000000 0.000000 0.000000 0.300000 0.000000 0.200000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.300000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.300000 0.200000 0.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.000000 0.000000 0.000000 0.100000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.100000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.900000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.600000 0.000000 0.000000 0.000000 0.100000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.100000 0.000000 0.300000 0.100000 0.200000 0.100000 0.000000 0.000000 0.100000 0.000000 0.000000 0.000000 0.000000 0.100000 0.000000 0.100000 0.800000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.800000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.100000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.100000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- [RK]V[KT][KE]I[IV][VAI][DE][QR]LGV[DEK]E[ASDE][KDE]V[TK][LN]EA -------------------------------------------------------------------------------- Time 0.36 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 width = 8 sites = 2 llr = 33 E-value = 4.8e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A :5:::::: pos.-specific C :::::::: probability D ::5::5:: matrix E ::5:::55 F ::::5::: G :::::::: H :::::::: I :::::5:: K :::::::: L :::::::: M a::::::: N :::5:::: P :::::::: Q :::::::: R ::::::5: S :5::5::: T :::::::: V :::5:::5 W :::::::: Y :::::::: bits 9.6 8.7 7.7 6.7 Relative 5.8 Entropy 4.8 * (24.1 bits) 3.9 * ** 2.9 ** ** * 1.9 ******** 1.0 ******** 0.0 -------- Multilevel MADNFDEE consensus SEVSIRV sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- ACP_OCEIH 1 8.45e-09 . MAEVFDRV KEIIIDRLDV ACP_AKKM8 1 1.91e-08 . MSDNSIEE KVRSIIVDQL -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- ACP_OCEIH 8.4e-09 [3]_69 ACP_AKKM8 1.9e-08 [3]_72 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=8 seqs=2 ACP_OCEIH ( 1) MAEVFDRV 1 ACP_AKKM8 ( 1) MSDNSIEE 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 8 n= 704 bayes= 8.45533 E= 4.8e+004 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 498 -765 -765 -765 -765 -765 -765 -765 -765 -765 248 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 313 -765 -765 -765 -765 -765 -765 200 162 -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 -765 463 -765 -765 -765 -765 -765 215 -765 -765 -765 -765 -765 -765 410 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 313 -765 -765 -765 -765 -765 -765 200 -765 -765 -765 -765 263 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 162 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 482 -765 -765 -765 -765 -765 -765 -765 -765 162 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 -765 215 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 8 nsites= 2 E= 4.8e+004 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 0.000000 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 0.500000 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 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 0.500000 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 0.500000 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 0.500000 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 0.500000 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 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- M[AS][DE][NV][FS][DI][ER][EV] -------------------------------------------------------------------------------- Time 0.38 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- ACP_BACSU 5.26e-63 6_[2(1.38e-20)]_[1(9.55e-49)] ACP_BREBN 4.12e-61 6_[2(2.47e-21)]_[1(4.45e-46)] ACP_LISW6 4.30e-58 6_[2(6.86e-20)]_[1(6.37e-45)] ACP_HAEPS 3.51e-61 5_[2(1.08e-18)]_[1(3.10e-50)] ACP_VIBPA 1.62e-64 6_[2(8.52e-21)]_[1(4.38e-51)] ACP_TOLAT 5.39e-65 6_[2(6.51e-19)]_[1(1.76e-53)]_1 ACP_PSEP1 1.96e-60 6_[2(7.23e-18)]_[1(6.65e-50)]_1 ACP_GEOMG 1.05e-60 6_[2(4.24e-19)]_[1(6.42e-49)] ACP_AKKM8 1.39e-58 [3(1.91e-08)]_[2(2.65e-17)]_[1(1.97e-43)]_1 ACP_OCEIH 7.85e-63 6_[2(1.91e-18)]_[1(3.71e-46)] -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: kodomo.fbb.msu.ru ********************************************************************************