------------------------------------------------------------ Pratt version 2.1, Sept. 1996 Written by Inge Jonassen, University of Bergen Norway email: inge@ii.uib.no For more information, see http://www.ii.uib.no/~inge/Pratt.html ------------------------------------------------------------ Please quote: I.Jonassen, J.F.Collins, D.G.Higgins. Protein Science 1995;4(8):1587-1595. ------------------------------------------------------------ Pratt version 2.1 Analysing 18 sequences from file SRP54 PATTERN CONSERVATION: CM: min Nr of Seqs to Match 18 C%: min Percentage Seqs to Match 100.0 PATTERN RESTRICTIONS : PP: pos in seq [off,complete,start] off PL: max Pattern Length 50 PN: max Nr of Pattern Symbols 50 PX: max Nr of consecutive x's 5 FN: max Nr of flexible spacers 2 FL: max Flexibility 2 FP: max Flex.Product 10 BI: Input Pattern Symbol File off BN: Nr of Pattern Symbols Initial Search 20 PATTERN SCORING: S: Scoring [info,mdl,tree,dist,ppv] info SEARCH PARAMETERS: G: Pattern Graph from [seq,al,query] seq E: Search Greediness 3 R: Pattern Refinement on RG: Generalise ambiguous symbols off OUTPUT: OF: Output Filename SRP54.pratt2 OP: PROSITE Pattern Format on ON: max number patterns 20 OA: max number Alignments 20 M: Print Patterns in sequences off Sequence lengths: DOCK_SULSO 369 FLHF_BACSU 366 FTSY_ECOLI 497 FTSY_HAEIN 414 PILA_NEIGO 416 SR54_ARATH 479 SR54_BACSU 446 SR54_CANFA 504 SR54_ECOLI 453 SR54_HAEIN 462 SR54_MOUSE 504 SR54_MYCMY 447 SR54_SCHPO 522 SR54_YEAST 541 SR5C_ARATH 564 SRPR_CANFA 638 SRPR_HUMAN 638 SRPR_YEAST 621 Pratt run started at Thu Feb 6 21:14:59 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 25.0203 18( 18) G-x(2)-G-x-G-K-x-T-x(3)-K 2: 24.5203 18( 18) G-x(1,2)-G-x-G-K-x-T-x(3)-K 3: 24.0203 18( 18) G-x(2)-G-x-G-K-x(0,1)-T-x(3,4)-K 4: 20.8503 18( 18) G-x-G-K-x-T-x(3)-K 5: 20.3503 18( 18) G-x(0,1)-G-K-x-T-x(3)-K 6: 19.8503 18( 18) G-x-G-K-x(0,1)-T-x(3,4)-K 7: 16.6802 18( 18) G-K-x-T-x(3)-K 8: 16.1802 19( 18) G-x(5)-K-x(0,1)-T-x(3)-K 9: 15.6802 20( 18) D-T-x(0,2)-A-G 10: 15.6802 19( 18) D-x(3,4)-D-x(0,1)-T-x-G 11: 15.6802 19( 18) G-K-x(0,1)-T-x(3,4)-K 12: 12.5102 25( 18) G-x-G-x(2)-T 13: 12.5102 18( 18) K-x-D-x(5)-G 14: 12.5102 18( 18) T-x-G-R 15: 12.5102 19( 18) A-x(2)-Q-L 16: 12.5102 18( 18) K-x-T-x(3)-K 17: 12.0102 29( 18) A-x(2,3)-Q-L 18: 12.0102 32( 18) D-T-x(1,2)-R 19: 12.0102 18( 18) D-x(2)-R-x(1,2)-A 20: 12.0102 19( 18) G-x(1,2)-T-x(3)-K Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 37.0745 18( 18) G-x(2)-G-[ASV]-G-K-[ST]-T-[NSTV]-x-[AGNST]-K-x-[AGSV] B 2: 36.5745 18( 18) G-x(1,2)-G-[ASV]-G-K-[ST]-T-[NSTV]-x-[AGNST]-K-x-[AGSV] C 3: 34.4774 18( 18) G-x(2)-G-x-G-K-[ST]-T-[NSTV]-x-[AGNST]-K-x-[AGSV] D 4: 33.9774 18( 18) G-x(1,2)-G-x-G-K-[ST]-T-[NSTV]-x-[AGNST]-K-x-[AGSV] E 5: 32.9044 18( 18) G-[ASV]-G-K-[ST]-T-[NSTV]-x-[AGNST]-K-x-[AGSV] F 6: 31.4134 18( 18) G-x-[NQT]-G-[ASV]-G-K-x(0,1)-T-x(3,4)-K-x-[AGSV] G 7: 30.0656 18( 18) G-[ILV]-x-[EG]-[ASV]-[GT]-K-x(0,1)-T-[NSTV]-x(2)-K H 8: 29.8073 18( 18) G-x(0,1)-G-K-[ST]-T-[NSTV]-x-[AGNST]-K-x-[AGSV] I 9: 26.1373 18( 18) G-K-[ST]-T-[NSTV]-x-[AGNST]-K-x-[AGSV] J 10: 24.6308 18( 18) G-[ASV]-G-K-x(0,1)-T-x(3,4)-K-x-[AGSV] K 11: 23.2028 18( 18) D-x-[FY]-R-x(1,2)-A-x-[DEK]-x-[LV]-x(3)-[AGTV] L 12: 21.9672 18( 18) K-[ST]-T-[NSTV]-x-[AGNST]-K-x-[AGSV] M 13: 18.3091 18( 18) D-x(3,4)-D-x(0,1)-T-[ADS]-G N 14: 18.2918 18( 18) G-x(1,2)-T-[NSTV]-x-[AGNST]-K-x-[AGSV] O 15: 17.8636 18( 18) G-K-x(0,1)-T-x(3,4)-K-x-[AGSV] P 16: 17.3720 18( 18) A-x-[DEK]-Q-L-x(3)-[AGNV] Q 17: 15.6893 18( 18) T-[AS]-G-R R 18: 15.6802 20( 18) D-T-x(0,2)-A-G S 19: 14.2408 27( 18) A-x(2,3)-Q-L-x(3)-[AGNV] T 20: 12.5102 25( 18) G-x-G-x(2)-T Best patterns with alignements: fitness hits(seqs) Pattern A 1: 37.0745 18( 18) G-x(2)-G-[ASV]-G-K-[ST]-T-[NSTV]-x-[AGNST]-K-x-[AGSV] Occurences: 18(18) DOCK_SULSO : 180- 194: viiff GvnGVGKTTTiAKvV nmlkk FLHF_BACSU : 182- 196: yivlf GstGAGKTTTlAKlA aisml FTSY_ECOLI : 300- 314: vilmv GvnGVGKTTTiGKlA rqfeq FTSY_HAEIN : 216- 230: vilmv GvnGVGKTTTiGKlA rkfqa PILA_NEIGO : 224- 238: vimla GinGAGKTTSiGKlA kyfqa SR54_ARATH : 108- 122: vvmfv GlqGAGKTTTcTKyA yyhqk SR54_BACSU : 108- 122: vimmv GlqGAGKTTTsGKlA nllrk SR54_CANFA : 108- 122: vimfv GlqGSGKTTTcSKlA yyyqr SR54_ECOLI : 107- 121: vvlma GlqGAGKTTSvGKlG kflre SR54_HAEIN : 107- 121: vilma GlqGAGKTTSvGKlA kflre SR54_MOUSE : 108- 122: vimfv GlqGSGKTTTcSKlA yyyqr SR54_MYCMY : 108- 122: vvmmv GlqGSGKTTTaNKlA yllnk SR54_SCHPO : 108- 122: vimmv GlqGSGKTTTcSKlA lhyqr SR54_YEAST : 116- 130: iimfv GlqGSGKTTScTKlA vyysk SR5C_ARATH : 183- 197: villa GlqGVGKTTVcAKlA cylkk SRPR_CANFA : 425- 439: vvtfc GvnGVGKSTNlAKiS fwlle SRPR_HUMAN : 425- 439: vvtfc GvnGVGKSTNlAKiS fwlle SRPR_YEAST : 404- 418: vfsiv GvnGVGKSTNlSKlA fwllq B 2: 36.5745 18( 18) G-x(1,2)-G-[ASV]-G-K-[ST]-T-[NSTV]-x-[AGNST]-K-x-[AGSV] Occurences: 18(18) DOCK_SULSO : 180- 194: viiff GvnGVGKTTTiAKvV nmlkk FLHF_BACSU : 182- 196: yivlf GstGAGKTTTlAKlA aisml FTSY_ECOLI : 300- 314: vilmv GvnGVGKTTTiGKlA rqfeq FTSY_HAEIN : 216- 230: vilmv GvnGVGKTTTiGKlA rkfqa PILA_NEIGO : 224- 238: vimla GinGAGKTTSiGKlA kyfqa SR54_ARATH : 108- 122: vvmfv GlqGAGKTTTcTKyA yyhqk SR54_BACSU : 108- 122: vimmv GlqGAGKTTTsGKlA nllrk SR54_CANFA : 108- 122: vimfv GlqGSGKTTTcSKlA yyyqr SR54_ECOLI : 107- 121: vvlma GlqGAGKTTSvGKlG kflre SR54_HAEIN : 107- 121: vilma GlqGAGKTTSvGKlA kflre SR54_MOUSE : 108- 122: vimfv GlqGSGKTTTcSKlA yyyqr SR54_MYCMY : 108- 122: vvmmv GlqGSGKTTTaNKlA yllnk SR54_SCHPO : 108- 122: vimmv GlqGSGKTTTcSKlA lhyqr SR54_YEAST : 116- 130: iimfv GlqGSGKTTScTKlA vyysk SR5C_ARATH : 183- 197: villa GlqGVGKTTVcAKlA cylkk SRPR_CANFA : 425- 439: vvtfc GvnGVGKSTNlAKiS fwlle SRPR_HUMAN : 425- 439: vvtfc GvnGVGKSTNlAKiS fwlle SRPR_YEAST : 404- 418: vfsiv GvnGVGKSTNlSKlA fwllq C 3: 34.4774 18( 18) G-x(2)-G-x-G-K-[ST]-T-[NSTV]-x-[AGNST]-K-x-[AGSV] Occurences: 18(18) DOCK_SULSO : 180- 194: viiff GvnGvGKTTTiAKvV nmlkk FLHF_BACSU : 182- 196: yivlf GstGaGKTTTlAKlA aisml FTSY_ECOLI : 300- 314: vilmv GvnGvGKTTTiGKlA rqfeq FTSY_HAEIN : 216- 230: vilmv GvnGvGKTTTiGKlA rkfqa PILA_NEIGO : 224- 238: vimla GinGaGKTTSiGKlA kyfqa SR54_ARATH : 108- 122: vvmfv GlqGaGKTTTcTKyA yyhqk SR54_BACSU : 108- 122: vimmv GlqGaGKTTTsGKlA nllrk SR54_CANFA : 108- 122: vimfv GlqGsGKTTTcSKlA yyyqr SR54_ECOLI : 107- 121: vvlma GlqGaGKTTSvGKlG kflre SR54_HAEIN : 107- 121: vilma GlqGaGKTTSvGKlA kflre SR54_MOUSE : 108- 122: vimfv GlqGsGKTTTcSKlA yyyqr SR54_MYCMY : 108- 122: vvmmv GlqGsGKTTTaNKlA yllnk SR54_SCHPO : 108- 122: vimmv GlqGsGKTTTcSKlA lhyqr SR54_YEAST : 116- 130: iimfv GlqGsGKTTScTKlA vyysk SR5C_ARATH : 183- 197: villa GlqGvGKTTVcAKlA cylkk SRPR_CANFA : 425- 439: vvtfc GvnGvGKSTNlAKiS fwlle SRPR_HUMAN : 425- 439: vvtfc GvnGvGKSTNlAKiS fwlle SRPR_YEAST : 404- 418: vfsiv GvnGvGKSTNlSKlA fwllq D 4: 33.9774 18( 18) G-x(1,2)-G-x-G-K-[ST]-T-[NSTV]-x-[AGNST]-K-x-[AGSV] Occurences: 18(18) DOCK_SULSO : 180- 194: viiff GvnGvGKTTTiAKvV nmlkk FLHF_BACSU : 182- 196: yivlf GstGaGKTTTlAKlA aisml FTSY_ECOLI : 300- 314: vilmv GvnGvGKTTTiGKlA rqfeq FTSY_HAEIN : 216- 230: vilmv GvnGvGKTTTiGKlA rkfqa PILA_NEIGO : 224- 238: vimla GinGaGKTTSiGKlA kyfqa SR54_ARATH : 108- 122: vvmfv GlqGaGKTTTcTKyA yyhqk SR54_BACSU : 108- 122: vimmv GlqGaGKTTTsGKlA nllrk SR54_CANFA : 108- 122: vimfv GlqGsGKTTTcSKlA yyyqr SR54_ECOLI : 107- 121: vvlma GlqGaGKTTSvGKlG kflre SR54_HAEIN : 107- 121: vilma GlqGaGKTTSvGKlA kflre SR54_MOUSE : 108- 122: vimfv GlqGsGKTTTcSKlA yyyqr SR54_MYCMY : 108- 122: vvmmv GlqGsGKTTTaNKlA yllnk SR54_SCHPO : 108- 122: vimmv GlqGsGKTTTcSKlA lhyqr SR54_YEAST : 116- 130: iimfv GlqGsGKTTScTKlA vyysk SR5C_ARATH : 183- 197: villa GlqGvGKTTVcAKlA cylkk SRPR_CANFA : 425- 439: vvtfc GvnGvGKSTNlAKiS fwlle SRPR_HUMAN : 425- 439: vvtfc GvnGvGKSTNlAKiS fwlle SRPR_YEAST : 404- 418: vfsiv GvnGvGKSTNlSKlA fwllq E 5: 32.9044 18( 18) G-[ASV]-G-K-[ST]-T-[NSTV]-x-[AGNST]-K-x-[AGSV] Occurences: 18(18) DOCK_SULSO : 183- 194: ffgvn GVGKTTTiAKvV nmlkk FLHF_BACSU : 185- 196: lfgst GAGKTTTlAKlA aisml FTSY_ECOLI : 303- 314: mvgvn GVGKTTTiGKlA rqfeq FTSY_HAEIN : 219- 230: mvgvn GVGKTTTiGKlA rkfqa PILA_NEIGO : 227- 238: lagin GAGKTTSiGKlA kyfqa SR54_ARATH : 111- 122: fvglq GAGKTTTcTKyA yyhqk SR54_BACSU : 111- 122: mvglq GAGKTTTsGKlA nllrk SR54_CANFA : 111- 122: fvglq GSGKTTTcSKlA yyyqr SR54_ECOLI : 110- 121: maglq GAGKTTSvGKlG kflre SR54_HAEIN : 110- 121: maglq GAGKTTSvGKlA kflre SR54_MOUSE : 111- 122: fvglq GSGKTTTcSKlA yyyqr SR54_MYCMY : 111- 122: mvglq GSGKTTTaNKlA yllnk SR54_SCHPO : 111- 122: mvglq GSGKTTTcSKlA lhyqr SR54_YEAST : 119- 130: fvglq GSGKTTScTKlA vyysk SR5C_ARATH : 186- 197: laglq GVGKTTVcAKlA cylkk SRPR_CANFA : 428- 439: fcgvn GVGKSTNlAKiS fwlle SRPR_HUMAN : 428- 439: fcgvn GVGKSTNlAKiS fwlle SRPR_YEAST : 407- 418: ivgvn GVGKSTNlSKlA fwllq F 6: 31.4134 18( 18) G-x-[NQT]-G-[ASV]-G-K-x(0,1)-T-x(3,4)-K-x-[AGSV] Occurences: 18(18) DOCK_SULSO : 180- 194: viiff GvNGVGKtTtia-KvV nmlkk DOCK_SULSO : 180- 194: viiff GvNGVGK-TttiaKvV nmlkk FLHF_BACSU : 182- 196: yivlf GsTGAGKtTtla-KlA aisml FLHF_BACSU : 182- 196: yivlf GsTGAGK-TttlaKlA aisml FTSY_ECOLI : 300- 314: vilmv GvNGVGKtTtig-KlA rqfeq FTSY_ECOLI : 300- 314: vilmv GvNGVGK-TttigKlA rqfeq FTSY_HAEIN : 216- 230: vilmv GvNGVGKtTtig-KlA rkfqa FTSY_HAEIN : 216- 230: vilmv GvNGVGK-TttigKlA rkfqa PILA_NEIGO : 224- 238: vimla GiNGAGKtTsig-KlA kyfqa PILA_NEIGO : 224- 238: vimla GiNGAGK-TtsigKlA kyfqa SR54_ARATH : 108- 122: vvmfv GlQGAGKtTtct-KyA yyhqk SR54_ARATH : 108- 122: vvmfv GlQGAGK-TttctKyA yyhqk SR54_BACSU : 108- 122: vimmv GlQGAGKtTtsg-KlA nllrk SR54_BACSU : 108- 122: vimmv GlQGAGK-TttsgKlA nllrk SR54_CANFA : 108- 122: vimfv GlQGSGKtTtcs-KlA yyyqr SR54_CANFA : 108- 122: vimfv GlQGSGK-TttcsKlA yyyqr SR54_ECOLI : 107- 121: vvlma GlQGAGKtTsvg-KlG kflre SR54_ECOLI : 107- 121: vvlma GlQGAGK-TtsvgKlG kflre SR54_HAEIN : 107- 121: vilma GlQGAGKtTsvg-KlA kflre SR54_HAEIN : 107- 121: vilma GlQGAGK-TtsvgKlA kflre SR54_MOUSE : 108- 122: vimfv GlQGSGKtTtcs-KlA yyyqr SR54_MOUSE : 108- 122: vimfv GlQGSGK-TttcsKlA yyyqr SR54_MYCMY : 108- 122: vvmmv GlQGSGKtTtan-KlA yllnk SR54_MYCMY : 108- 122: vvmmv GlQGSGK-TttanKlA yllnk SR54_SCHPO : 108- 122: vimmv GlQGSGKtTtcs-KlA lhyqr SR54_SCHPO : 108- 122: vimmv GlQGSGK-TttcsKlA lhyqr SR54_YEAST : 116- 130: iimfv GlQGSGKtTsct-KlA vyysk SR54_YEAST : 116- 130: iimfv GlQGSGK-TtsctKlA vyysk SR5C_ARATH : 183- 197: villa GlQGVGKtTvca-KlA cylkk SR5C_ARATH : 183- 197: villa GlQGVGK-TtvcaKlA cylkk SRPR_CANFA : 425- 439: vvtfc GvNGVGKsTnla-KiS fwlle SRPR_HUMAN : 425- 439: vvtfc GvNGVGKsTnla-KiS fwlle SRPR_YEAST : 404- 418: vfsiv GvNGVGKsTnls-KlA fwllq G 7: 30.0656 18( 18) G-[ILV]-x-[EG]-[ASV]-[GT]-K-x(0,1)-T-[NSTV]-x(2)-K Occurences: 18(18) DOCK_SULSO : 180- 192: viiff GVnGVGKtTTiaK vvnml FLHF_BACSU : 123- 134: llqet GIkESTK-TNtlK kllrf FTSY_ECOLI : 300- 312: vilmv GVnGVGKtTTigK larqf FTSY_HAEIN : 216- 228: vilmv GVnGVGKtTTigK larkf PILA_NEIGO : 224- 236: vimla GInGAGKtTSigK lakyf SR54_ARATH : 108- 120: vvmfv GLqGAGKtTTctK yayyh SR54_BACSU : 108- 120: vimmv GLqGAGKtTTsgK lanll SR54_CANFA : 108- 120: vimfv GLqGSGKtTTcsK layyy SR54_ECOLI : 107- 119: vvlma GLqGAGKtTSvgK lgkfl SR54_HAEIN : 107- 119: vilma GLqGAGKtTSvgK lakfl SR54_MOUSE : 108- 120: vimfv GLqGSGKtTTcsK layyy SR54_MYCMY : 108- 120: vvmmv GLqGSGKtTTanK layll SR54_SCHPO : 108- 120: vimmv GLqGSGKtTTcsK lalhy SR54_YEAST : 116- 128: iimfv GLqGSGKtTSctK lavyy SR5C_ARATH : 183- 195: villa GLqGVGKtTVcaK lacyl SRPR_CANFA : 425- 437: vvtfc GVnGVGKsTNlaK isfwl SRPR_HUMAN : 425- 437: vvtfc GVnGVGKsTNlaK isfwl SRPR_YEAST : 404- 416: vfsiv GVnGVGKsTNlsK lafwl H 8: 29.8073 18( 18) G-x(0,1)-G-K-[ST]-T-[NSTV]-x-[AGNST]-K-x-[AGSV] Occurences: 18(18) DOCK_SULSO : 183- 194: ffgvn GvGKTTTiAKvV nmlkk FLHF_BACSU : 185- 196: lfgst GaGKTTTlAKlA aisml FTSY_ECOLI : 303- 314: mvgvn GvGKTTTiGKlA rqfeq FTSY_HAEIN : 219- 230: mvgvn GvGKTTTiGKlA rkfqa PILA_NEIGO : 227- 238: lagin GaGKTTSiGKlA kyfqa SR54_ARATH : 111- 122: fvglq GaGKTTTcTKyA yyhqk SR54_BACSU : 111- 122: mvglq GaGKTTTsGKlA nllrk SR54_CANFA : 111- 122: fvglq GsGKTTTcSKlA yyyqr SR54_ECOLI : 110- 121: maglq GaGKTTSvGKlG kflre SR54_HAEIN : 110- 121: maglq GaGKTTSvGKlA kflre SR54_MOUSE : 111- 122: fvglq GsGKTTTcSKlA yyyqr SR54_MYCMY : 111- 122: mvglq GsGKTTTaNKlA yllnk SR54_SCHPO : 111- 122: mvglq GsGKTTTcSKlA lhyqr SR54_YEAST : 119- 130: fvglq GsGKTTScTKlA vyysk SR5C_ARATH : 186- 197: laglq GvGKTTVcAKlA cylkk SRPR_CANFA : 428- 439: fcgvn GvGKSTNlAKiS fwlle SRPR_HUMAN : 428- 439: fcgvn GvGKSTNlAKiS fwlle SRPR_YEAST : 407- 418: ivgvn GvGKSTNlSKlA fwllq I 9: 26.1373 18( 18) G-K-[ST]-T-[NSTV]-x-[AGNST]-K-x-[AGSV] Occurences: 18(18) DOCK_SULSO : 185- 194: gvngv GKTTTiAKvV nmlkk FLHF_BACSU : 187- 196: gstga GKTTTlAKlA aisml FTSY_ECOLI : 305- 314: gvngv GKTTTiGKlA rqfeq FTSY_HAEIN : 221- 230: gvngv GKTTTiGKlA rkfqa PILA_NEIGO : 229- 238: ginga GKTTSiGKlA kyfqa SR54_ARATH : 113- 122: glqga GKTTTcTKyA yyhqk SR54_BACSU : 113- 122: glqga GKTTTsGKlA nllrk SR54_CANFA : 113- 122: glqgs GKTTTcSKlA yyyqr SR54_ECOLI : 112- 121: glqga GKTTSvGKlG kflre SR54_HAEIN : 112- 121: glqga GKTTSvGKlA kflre SR54_MOUSE : 113- 122: glqgs GKTTTcSKlA yyyqr SR54_MYCMY : 113- 122: glqgs GKTTTaNKlA yllnk SR54_SCHPO : 113- 122: glqgs GKTTTcSKlA lhyqr SR54_YEAST : 121- 130: glqgs GKTTScTKlA vyysk SR5C_ARATH : 188- 197: glqgv GKTTVcAKlA cylkk SRPR_CANFA : 430- 439: gvngv GKSTNlAKiS fwlle SRPR_HUMAN : 430- 439: gvngv GKSTNlAKiS fwlle SRPR_YEAST : 409- 418: gvngv GKSTNlSKlA fwllq J 10: 24.6308 18( 18) G-[ASV]-G-K-x(0,1)-T-x(3,4)-K-x-[AGSV] Occurences: 18(18) DOCK_SULSO : 183- 194: ffgvn GVGKtTtia-KvV nmlkk DOCK_SULSO : 183- 194: ffgvn GVGK-TttiaKvV nmlkk FLHF_BACSU : 185- 196: lfgst GAGKtTtla-KlA aisml FLHF_BACSU : 185- 196: lfgst GAGK-TttlaKlA aisml FTSY_ECOLI : 303- 314: mvgvn GVGKtTtig-KlA rqfeq FTSY_ECOLI : 303- 314: mvgvn GVGK-TttigKlA rqfeq FTSY_HAEIN : 219- 230: mvgvn GVGKtTtig-KlA rkfqa FTSY_HAEIN : 219- 230: mvgvn GVGK-TttigKlA rkfqa PILA_NEIGO : 227- 238: lagin GAGKtTsig-KlA kyfqa PILA_NEIGO : 227- 238: lagin GAGK-TtsigKlA kyfqa SR54_ARATH : 111- 122: fvglq GAGKtTtct-KyA yyhqk SR54_ARATH : 111- 122: fvglq GAGK-TttctKyA yyhqk SR54_BACSU : 111- 122: mvglq GAGKtTtsg-KlA nllrk SR54_BACSU : 111- 122: mvglq GAGK-TttsgKlA nllrk SR54_CANFA : 111- 122: fvglq GSGKtTtcs-KlA yyyqr SR54_CANFA : 111- 122: fvglq GSGK-TttcsKlA yyyqr SR54_ECOLI : 110- 121: maglq GAGKtTsvg-KlG kflre SR54_ECOLI : 110- 121: maglq GAGK-TtsvgKlG kflre SR54_HAEIN : 110- 121: maglq GAGKtTsvg-KlA kflre SR54_HAEIN : 110- 121: maglq GAGK-TtsvgKlA kflre SR54_MOUSE : 111- 122: fvglq GSGKtTtcs-KlA yyyqr SR54_MOUSE : 111- 122: fvglq GSGK-TttcsKlA yyyqr SR54_MYCMY : 111- 122: mvglq GSGKtTtan-KlA yllnk SR54_MYCMY : 111- 122: mvglq GSGK-TttanKlA yllnk SR54_SCHPO : 111- 122: mvglq GSGKtTtcs-KlA lhyqr SR54_SCHPO : 111- 122: mvglq GSGK-TttcsKlA lhyqr SR54_YEAST : 119- 130: fvglq GSGKtTsct-KlA vyysk SR54_YEAST : 119- 130: fvglq GSGK-TtsctKlA vyysk SR5C_ARATH : 186- 197: laglq GVGKtTvca-KlA cylkk SR5C_ARATH : 186- 197: laglq GVGK-TtvcaKlA cylkk SRPR_CANFA : 428- 439: fcgvn GVGKsTnla-KiS fwlle SRPR_HUMAN : 428- 439: fcgvn GVGKsTnla-KiS fwlle SRPR_YEAST : 407- 418: ivgvn GVGKsTnls-KlA fwllq K 11: 23.2028 18( 18) D-x-[FY]-R-x(1,2)-A-x-[DEK]-x-[LV]-x(3)-[AGTV] Occurences: 18(18) DOCK_SULSO : 210- 224: iiaas DtFRaaAqEqLayhA sklev FLHF_BACSU : 213- 227: afitt DtYRiaAvEqLktyA ellqa FTSY_ECOLI : 330- 344: mlaag DtFRaaAvEqLqvwG qrnni FTSY_HAEIN : 246- 260: mlaag DtFRaaAvEqLqvwG ernhi PILA_NEIGO : 254- 268: llaag DtFRaaArEqLqawG grnnv SR54_ARATH : 138- 152: alvca DtFRagAfDqLkqnA tkaki SR54_BACSU : 139- 153: mlvaa DiYRpaAiKqLetlG kqldm SR54_CANFA : 138- 152: clica DtFRagAfDqLkqnA tkari SR54_ECOLI : 138- 152: lvvsa DvYRpaAiKqLetlA eqvgv SR54_HAEIN : 138- 152: lvvsa DvYRpaAiKqLetlA qsvgv SR54_MOUSE : 138- 152: clica DtFRagAfDqLkqnA tkari SR54_MYCMY : 139- 153: llvgl DiYRpgAiEqLvqlG qktnt SR54_SCHPO : 138- 152: clvaa DtFRagAfDqLkqnA ikarv SR54_YEAST : 146- 160: glvca DtFRagAfDqLkqnA irari SR5C_ARATH : 213- 227: mliag DvYRpaAiDqLvilG eqvgv SRPR_CANFA : 455- 469: liaac DtFRagAvEhVrthT rrlsa SRPR_HUMAN : 455- 469: liaac DtFRagAvEqLrthT rrlsa SRPR_YEAST : 434- 448: livac DtFRsgAvEqLrvhV enlaq L 12: 21.9672 18( 18) K-[ST]-T-[NSTV]-x-[AGNST]-K-x-[AGSV] Occurences: 18(18) DOCK_SULSO : 186- 194: vngvg KTTTiAKvV nmlkk FLHF_BACSU : 188- 196: stgag KTTTlAKlA aisml FTSY_ECOLI : 306- 314: vngvg KTTTiGKlA rqfeq FTSY_HAEIN : 222- 230: vngvg KTTTiGKlA rkfqa PILA_NEIGO : 230- 238: ingag KTTSiGKlA kyfqa SR54_ARATH : 114- 122: lqgag KTTTcTKyA yyhqk SR54_BACSU : 114- 122: lqgag KTTTsGKlA nllrk SR54_CANFA : 114- 122: lqgsg KTTTcSKlA yyyqr SR54_ECOLI : 113- 121: lqgag KTTSvGKlG kflre SR54_HAEIN : 113- 121: lqgag KTTSvGKlA kflre SR54_MOUSE : 114- 122: lqgsg KTTTcSKlA yyyqr SR54_MYCMY : 114- 122: lqgsg KTTTaNKlA yllnk SR54_SCHPO : 114- 122: lqgsg KTTTcSKlA lhyqr SR54_YEAST : 122- 130: lqgsg KTTScTKlA vyysk SR5C_ARATH : 189- 197: lqgvg KTTVcAKlA cylkk SRPR_CANFA : 431- 439: vngvg KSTNlAKiS fwlle SRPR_HUMAN : 431- 439: vngvg KSTNlAKiS fwlle SRPR_YEAST : 410- 418: vngvg KSTNlSKlA fwllq M 13: 18.3091 18( 18) D-x(3,4)-D-x(0,1)-T-[ADS]-G Occurences: 18(18) DOCK_SULSO : 257- 265: ksrni DvvliD-TAG rmhid FLHF_BACSU : 254- 262: lfsey DhvfvD-TAG rnfkd FTSY_ECOLI : 377- 385: karni DvliaD-TAG rlqnk FTSY_HAEIN : 293- 301: aarni DiliaD-TAG rlqnk PILA_NEIGO : 299- 307: akari DivlaD-TAG rlptq SR54_ARATH : 185- 193: kkekc DliivD-TSG rhkqa SR54_BACSU : 186- 194: keehy DyvilD-TAG rlhid SR54_CANFA : 384- 392: mdsmn Dqel-DsTDG akvfs SR54_ECOLI : 185- 193: klkfy DvllvD-TAG rlhvd SR54_HAEIN : 185- 193: klkfy DvlivD-TAG rlhvd SR54_MOUSE : 384- 392: mdsmn Dqel-DsTDG akvfs SR54_MYCMY : 185- 193: kennf DvvilD-TAG rlqvd SR54_SCHPO : 185- 193: kndrf DviivD-TSG rhqqe SR54_YEAST : 193- 201: kkekf DiiivD-TSG rhhqe SR5C_ARATH : 260- 268: kknnv DvvimD-TAG rlqid SRPR_CANFA : 515- 523: rnqgf DvvlvD-TAG rmqdn SRPR_HUMAN : 515- 523: rnqgf DvvlvD-TAG rmqdn SRPR_YEAST : 505- 513: rdqnf DivlmD-TAG rrhnd N 14: 18.2918 18( 18) G-x(1,2)-T-[NSTV]-x-[AGNST]-K-x-[AGSV] Occurences: 18(18) DOCK_SULSO : 185- 194: gvngv GktTTiAKvV nmlkk FLHF_BACSU : 187- 196: gstga GktTTlAKlA aisml FTSY_ECOLI : 305- 314: gvngv GktTTiGKlA rqfeq FTSY_HAEIN : 221- 230: gvngv GktTTiGKlA rkfqa PILA_NEIGO : 229- 238: ginga GktTSiGKlA kyfqa SR54_ARATH : 113- 122: glqga GktTTcTKyA yyhqk SR54_BACSU : 113- 122: glqga GktTTsGKlA nllrk SR54_CANFA : 113- 122: glqgs GktTTcSKlA yyyqr SR54_ECOLI : 112- 121: glqga GktTSvGKlG kflre SR54_HAEIN : 112- 121: glqga GktTSvGKlA kflre SR54_MOUSE : 113- 122: glqgs GktTTcSKlA yyyqr SR54_MYCMY : 113- 122: glqgs GktTTaNKlA yllnk SR54_SCHPO : 113- 122: glqgs GktTTcSKlA lhyqr SR54_YEAST : 121- 130: glqgs GktTScTKlA vyysk SR5C_ARATH : 188- 197: glqgv GktTVcAKlA cylkk SRPR_CANFA : 430- 439: gvngv GksTNlAKiS fwlle SRPR_HUMAN : 430- 439: gvngv GksTNlAKiS fwlle SRPR_YEAST : 409- 418: gvngv GksTNlSKlA fwllq O 15: 17.8636 18( 18) G-K-x(0,1)-T-x(3,4)-K-x-[AGSV] Occurences: 18(18) DOCK_SULSO : 185- 194: gvngv GKtTtia-KvV nmlkk DOCK_SULSO : 185- 194: gvngv GK-TttiaKvV nmlkk FLHF_BACSU : 187- 196: gstga GKtTtla-KlA aisml FLHF_BACSU : 187- 196: gstga GK-TttlaKlA aisml FTSY_ECOLI : 305- 314: gvngv GKtTtig-KlA rqfeq FTSY_ECOLI : 305- 314: gvngv GK-TttigKlA rqfeq FTSY_HAEIN : 221- 230: gvngv GKtTtig-KlA rkfqa FTSY_HAEIN : 221- 230: gvngv GK-TttigKlA rkfqa PILA_NEIGO : 229- 238: ginga GKtTsig-KlA kyfqa PILA_NEIGO : 229- 238: ginga GK-TtsigKlA kyfqa SR54_ARATH : 113- 122: glqga GKtTtct-KyA yyhqk SR54_ARATH : 113- 122: glqga GK-TttctKyA yyhqk SR54_BACSU : 113- 122: glqga GKtTtsg-KlA nllrk SR54_BACSU : 113- 122: glqga GK-TttsgKlA nllrk SR54_CANFA : 113- 122: glqgs GKtTtcs-KlA yyyqr SR54_CANFA : 113- 122: glqgs GK-TttcsKlA yyyqr SR54_ECOLI : 112- 121: glqga GKtTsvg-KlG kflre SR54_ECOLI : 112- 121: glqga GK-TtsvgKlG kflre SR54_HAEIN : 112- 121: glqga GKtTsvg-KlA kflre SR54_HAEIN : 112- 121: glqga GK-TtsvgKlA kflre SR54_MOUSE : 113- 122: glqgs GKtTtcs-KlA yyyqr SR54_MOUSE : 113- 122: glqgs GK-TttcsKlA yyyqr SR54_MYCMY : 113- 122: glqgs GKtTtan-KlA yllnk SR54_MYCMY : 113- 122: glqgs GK-TttanKlA yllnk SR54_SCHPO : 113- 122: glqgs GKtTtcs-KlA lhyqr SR54_SCHPO : 113- 122: glqgs GK-TttcsKlA lhyqr SR54_YEAST : 121- 130: glqgs GKtTsct-KlA vyysk SR54_YEAST : 121- 130: glqgs GK-TtsctKlA vyysk SR5C_ARATH : 188- 197: glqgv GKtTvca-KlA cylkk SR5C_ARATH : 188- 197: glqgv GK-TtvcaKlA cylkk SRPR_CANFA : 430- 439: gvngv GKsTnla-KiS fwlle SRPR_HUMAN : 430- 439: gvngv GKsTnla-KiS fwlle SRPR_YEAST : 409- 418: gvngv GKsTnls-KlA fwllq P 16: 17.3720 18( 18) A-x-[DEK]-Q-L-x(3)-[AGNV] Occurences: 18(18) DOCK_SULSO : 216- 224: tfraa AqEQLayhA sklev FLHF_BACSU : 219- 227: tyria AvEQLktyA ellqa FTSY_ECOLI : 336- 344: tfraa AvEQLqvwG qrnni FTSY_HAEIN : 252- 260: tfraa AvEQLqvwG ernhi PILA_NEIGO : 260- 268: tfraa ArEQLqawG grnnv SR54_ARATH : 144- 152: tfrag AfDQLkqnA tkaki SR54_BACSU : 145- 153: iyrpa AiKQLetlG kqldm SR54_CANFA : 144- 152: tfrag AfDQLkqnA tkari SR54_ECOLI : 144- 152: vyrpa AiKQLetlA eqvgv SR54_HAEIN : 144- 152: vyrpa AiKQLetlA qsvgv SR54_MOUSE : 144- 152: tfrag AfDQLkqnA tkari SR54_MYCMY : 145- 153: iyrpg AiEQLvqlG qktnt SR54_SCHPO : 144- 152: tfrag AfDQLkqnA ikarv SR54_YEAST : 152- 160: tfrag AfDQLkqnA irari SR5C_ARATH : 219- 227: vyrpa AiDQLvilG eqvgv SRPR_CANFA : 559- 567: lvgne AvDQLvkfN ralad SRPR_HUMAN : 559- 567: lvgne AvDQLvkfN ralad SRPR_YEAST : 440- 448: tfrsg AvEQLrvhV enlaq Q 17: 15.6893 18( 18) T-[AS]-G-R Occurences: 18(18) DOCK_SULSO : 263- 266: vvlid TAGR mhids FLHF_BACSU : 260- 263: hvfvd TAGR nfkdp FTSY_ECOLI : 383- 386: vliad TAGR lqnks FTSY_HAEIN : 299- 302: iliad TAGR lqnkn PILA_NEIGO : 305- 308: ivlad TAGR lptql SR54_ARATH : 191- 194: liivd TSGR hkqaa SR54_BACSU : 192- 195: yvild TAGR lhidh SR54_CANFA : 191- 194: iiivd TSGR hkqed SR54_ECOLI : 191- 194: vllvd TAGR lhvde SR54_HAEIN : 191- 194: vlivd TAGR lhvdt SR54_MOUSE : 191- 194: iiivd TSGR hkqed SR54_MYCMY : 191- 194: vvild TAGR lqvdq SR54_SCHPO : 191- 194: viivd TSGR hqqeq SR54_YEAST : 199- 202: iiivd TSGR hhqee SR5C_ARATH : 266- 269: vvimd TAGR lqidk SRPR_CANFA : 521- 524: vvlvd TAGR mqdna SRPR_HUMAN : 521- 524: vvlvd TAGR mqdna SRPR_YEAST : 511- 514: ivlmd TAGR rhndp R 18: 15.6802 20( 18) D-T-x(0,2)-A-G Occurences: 20(18) DOCK_SULSO : 262- 265: dvvli DT--AG rmhid FLHF_BACSU : 259- 262: dhvfv DT--AG rnfkd FTSY_ECOLI : 382- 385: dvlia DT--AG rlqnk FTSY_HAEIN : 298- 301: dilia DT--AG rlqnk PILA_NEIGO : 304- 307: divla DT--AG rlptq SR54_ARATH : 138- 143: alvca DTfrAG afdql SR54_BACSU : 191- 194: dyvil DT--AG rlhid SR54_CANFA : 138- 143: clica DTfrAG afdql SR54_ECOLI : 190- 193: dvllv DT--AG rlhvd SR54_HAEIN : 190- 193: dvliv DT--AG rlhvd SR54_MOUSE : 138- 143: clica DTfrAG afdql SR54_MYCMY : 190- 193: dvvil DT--AG rlqvd SR54_SCHPO : 138- 143: clvaa DTfrAG afdql SR54_YEAST : 146- 151: glvca DTfrAG afdql SR5C_ARATH : 265- 268: dvvim DT--AG rlqid SRPR_CANFA : 455- 460: liaac DTfrAG avehv SRPR_CANFA : 520- 523: dvvlv DT--AG rmqdn SRPR_HUMAN : 455- 460: liaac DTfrAG aveql SRPR_HUMAN : 520- 523: dvvlv DT--AG rmqdn SRPR_YEAST : 510- 513: divlm DT--AG rrhnd S 19: 14.2408 27( 18) A-x(2,3)-Q-L-x(3)-[AGNV] Occurences: 27(18) DOCK_SULSO : 215- 224: dtfra AaqeQLayhA sklev DOCK_SULSO : 216- 224: tfraa Aqe-QLayhA sklev FLHF_BACSU : 218- 227: dtyri AaveQLktyA ellqa FLHF_BACSU : 219- 227: tyria Ave-QLktyA ellqa FTSY_ECOLI : 335- 344: dtfra AaveQLqvwG qrnni FTSY_ECOLI : 336- 344: tfraa Ave-QLqvwG qrnni FTSY_HAEIN : 251- 260: dtfra AaveQLqvwG ernhi FTSY_HAEIN : 252- 260: tfraa Ave-QLqvwG ernhi PILA_NEIGO : 259- 268: dtfra AareQLqawG grnnv PILA_NEIGO : 260- 268: tfraa Are-QLqawG grnnv SR54_ARATH : 144- 152: tfrag Afd-QLkqnA tkaki SR54_BACSU : 144- 153: diyrp AaikQLetlG kqldm SR54_BACSU : 145- 153: iyrpa Aik-QLetlG kqldm SR54_CANFA : 144- 152: tfrag Afd-QLkqnA tkari SR54_ECOLI : 143- 152: dvyrp AaikQLetlA eqvgv SR54_ECOLI : 144- 152: vyrpa Aik-QLetlA eqvgv SR54_HAEIN : 143- 152: dvyrp AaikQLetlA qsvgv SR54_HAEIN : 144- 152: vyrpa Aik-QLetlA qsvgv SR54_MOUSE : 144- 152: tfrag Afd-QLkqnA tkari SR54_MYCMY : 145- 153: iyrpg Aie-QLvqlG qktnt SR54_SCHPO : 144- 152: tfrag Afd-QLkqnA ikarv SR54_YEAST : 152- 160: tfrag Afd-QLkqnA irari SR5C_ARATH : 218- 227: dvyrp AaidQLvilG eqvgv SR5C_ARATH : 219- 227: vyrpa Aid-QLvilG eqvgv SRPR_CANFA : 559- 567: lvgne Avd-QLvkfN ralad SRPR_HUMAN : 559- 567: lvgne Avd-QLvkfN ralad SRPR_YEAST : 440- 448: tfrsg Ave-QLrvhV enlaq T 20: 12.5102 25( 18) G-x-G-x(2)-T Occurences: 25(18) DOCK_SULSO : 183- 188: ffgvn GvGktT tiakv FLHF_BACSU : 185- 190: lfgst GaGktT tlakl FLHF_BACSU : 338- 343: aeski GvGfmT ngqnv FTSY_ECOLI : 303- 308: mvgvn GvGktT tigkl FTSY_HAEIN : 219- 224: mvgvn GvGktT tigkl PILA_NEIGO : 227- 232: lagin GaGktT sigkl SR54_ARATH : 111- 116: fvglq GaGktT tctky SR54_BACSU : 111- 116: mvglq GaGktT tsgkl SR54_CANFA : 111- 116: fvglq GsGktT tcskl SR54_CANFA : 409- 414: qrvar GsGvsT rdvqe SR54_ECOLI : 18- 23: lrnis GrGrlT ednvk SR54_ECOLI : 110- 115: maglq GaGktT svgkl SR54_ECOLI : 274- 279: pikfl GvGekT ealep SR54_HAEIN : 18- 23: lrnit GkGrlT ednik SR54_HAEIN : 110- 115: maglq GaGktT svgkl SR54_HAEIN : 274- 279: pikfl GvGekT ealep SR54_MOUSE : 111- 116: fvglq GsGktT tcskl SR54_MOUSE : 409- 414: qrvar GsGvsT rdvqe SR54_MYCMY : 111- 116: mvglq GsGktT tankl SR54_SCHPO : 111- 116: mvglq GsGktT tcskl SR54_YEAST : 119- 124: fvglq GsGktT sctkl SR5C_ARATH : 186- 191: laglq GvGktT vcakl SRPR_CANFA : 428- 433: fcgvn GvGksT nlaki SRPR_HUMAN : 428- 433: fcgvn GvGksT nlaki SRPR_YEAST : 407- 412: ivgvn GvGksT nlskl Number of patterns evaluated by Pratt:5785 Total running time: 10 seconds