------------------------------------------------------------ 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 12 sequences from file AMIDASES PATTERN CONSERVATION: CM: min Nr of Seqs to Match 12 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 AMIDASES.pratt2 OP: PROSITE Pattern Format on ON: max number patterns 20 OA: max number Alignments 20 M: Print Patterns in sequences off Sequence lengths: AMDS_EMENI 548 AMDY_YEAST 549 AMID_PSECL 505 AMID_RHOER 520 HYIN_AGRRA 466 HYIN_AGRT3 467 HYIN_AGRT4 467 HYIN_AGRVI 462 HYIN_BRAJA 465 HYIN_PSESS 455 NYLA_FLASP 492 NYLA_PSES8 492 Pratt run started at Thu Feb 6 18:35:47 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 24.0203 12( 12) G-x-D-x(1,2)-G-x(0,1)-S-x-R-x-P 2: 20.3503 12( 12) G-G-S-S-x(0,1)-G 3: 19.8503 12( 12) D-x(1,2)-G-x(0,1)-S-x-R-x-P 4: 16.1802 18( 12) G-x(0,1)-S-x-R-x-P 5: 16.1802 12( 12) G-S-S-x(0,1)-G 6: 16.1802 12( 12) G-S-x(0,1)-S-G 7: 16.1802 23( 12) G-x(0,1)-S-S-G 8: 16.1802 23( 12) G-x(1,2)-S-G-G 9: 15.6802 14( 12) G-x-D-x(3,4)-S-x(0,1)-R 10: 15.6802 18( 12) G-x(0,1)-G-S-x(3,4)-A 11: 15.1802 18( 12) G-x(0,1)-G-S-x(2,4)-A 12: 15.1802 14( 12) S-x-G-x(1,2)-S-x(2,4)-A 13: 14.6802 19( 12) S-x-G-x(0,2)-S-x(2,4)-A 14: 14.6802 15( 12) G-x(1,3)-S-x(2)-G-x(0,2)-A 15: 12.5102 18( 12) P-x(4)-P-x(2)-L 16: 12.5102 14( 12) G-x(2)-S-G 17: 12.5102 18( 12) G-x(2)-G-x(5)-G 18: 12.5102 12( 12) S-x-R-x-P 19: 12.5102 23( 12) G-G-S 20: 12.5102 16( 12) S-G-G Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 36.1929 12( 12) G-G-S-S-[GS]-G-x-[AG]-[ASV]-x-[IV]-[AG] B 2: 32.5187 12( 12) G-[GNT]-D-x(1,2)-G-x(0,1)-S-[ILV]-R-x-P-[AS] C 3: 31.9597 12( 12) G-G-S-S-x(0,1)-G-[GS]-x-[AG]-x(2)-[AIV]-[AGS] D 4: 28.2896 12( 12) G-x-S-S-G-[GS]-x-[AG]-x(2)-[AIV]-[AGS] E 5: 27.7896 12( 12) G-S-S-x(0,1)-G-[GS]-x-[AG]-x(2)-[AIV]-[AGS] F 6: 27.7896 12( 12) G-S-x(0,1)-S-G-[GS]-x-[AG]-x(2)-[AIV]-[AGS] G 7: 27.7896 23( 12) G-x(0,1)-S-S-G-[GS]-x-[AG]-x(2)-[AIV]-[AGS] H 8: 26.1868 12( 12) G-[GNT]-D-x(3)-S-x(0,1)-R-x-P-[AS] I 9: 25.6912 12( 12) D-x(1,2)-G-x(0,1)-S-[ILV]-R-x-P-[AS] J 10: 24.5408 23( 12) G-x(1,2)-S-G-G-x-[AGS]-[ASV]-x(2)-[AG] K 11: 23.6878 12( 12) G-x(2)-G-x(2)-[ILPV]-[AGT]-x-G-x(4)-[ADGT]-x-[AGILV]-x(3)-[AEGS] L 12: 23.1083 13( 12) S-G-G-x-[AGS]-[AGS]-[AGIL]-x-[AG] M 13: 22.0212 18( 12) G-x(0,1)-S-[ILV]-R-x-P-[AS] N 14: 18.3511 12( 12) S-[ILV]-R-x-P-[AS] O 15: 16.5964 15( 12) G-x(1,3)-S-x(2)-G-x(0,2)-A-x(2)-[ACGSV] P 16: 15.6802 18( 12) G-x(0,1)-G-S-x(3,4)-A Q 17: 15.1802 18( 12) G-x(0,1)-G-S-x(2,4)-A R 18: 15.1802 14( 12) S-x-G-x(1,2)-S-x(2,4)-A S 19: 15.1720 13( 12) P-x(3)-[ILV]-P-x(2)-L T 20: 14.6802 19( 12) S-x-G-x(0,2)-S-x(2,4)-A Best patterns with alignements: fitness hits(seqs) Pattern A 1: 36.1929 12( 12) G-G-S-S-[GS]-G-x-[AG]-[ASV]-x-[IV]-[AG] Occurences: 12(12) AMDS_EMENI : 202- 213: knwsc GGSSGGeGAiVG irggv AMDY_YEAST : 207- 218: lsfss GGSSGGeGSlIG ahgsl AMID_PSECL : 170- 181: hgyas GGSSSGsAAlVA sgevd AMID_RHOER : 168- 179: rqrea GGSSGGsAAlVA ngdvd HYIN_AGRRA : 147- 158: pslip GGSSGGvAAaVA grlml HYIN_AGRT3 : 147- 158: pslip GGSSGGvAAaVA srlml HYIN_AGRT4 : 147- 158: pdlip GGSSGGvAAaVA srlml HYIN_AGRVI : 147- 158: qalis GGSSGGvAVsVA anlml HYIN_BRAJA : 147- 158: pnitc GGSSGGaGSaVA agigt HYIN_PSESS : 144- 155: pgyca GGSSGGsAAaVA sgivp NYLA_FLASP : 147- 158: lgrsv GGSSGGsGAaVA aalsp NYLA_PSES8 : 147- 158: lgrsv GGSSGGsGAaVA aalsp B 2: 32.5187 12( 12) G-[GNT]-D-x(1,2)-G-x(0,1)-S-[ILV]-R-x-P-[AS] Occurences: 12(12) AMDS_EMENI : 222- 233: gvigv GTDigG-SIRvPA afnfl AMDS_EMENI : 222- 233: gvigv GTDi-GgSIRvPA afnfl AMDY_YEAST : 227- 238: sllgl GTDigG-SIRiPS syqgl AMDY_YEAST : 227- 238: sllgl GTDi-GgSIRiPS syqgl AMID_PSECL : 190- 201: vdiav GGDqgG-SIRiPS afcgt AMID_PSECL : 190- 201: vdiav GGDq-GgSIRiPS afcgt AMID_RHOER : 188- 199: vdfai GGDqgG-SIRiPA afcgv AMID_RHOER : 188- 199: vdfai GGDq-GgSIRiPA afcgv HYIN_AGRRA : 167- 178: mlggv GTDt-GaSVRlPA alcgv HYIN_AGRT3 : 167- 178: mlggi GTDt-GaSVRlPA alcgv HYIN_AGRT4 : 167- 178: mlggi GTDt-GaSVRlPA alcgv HYIN_AGRVI : 167- 178: mlggi GTDt-GaSVRlPA alcgv HYIN_BRAJA : 167- 178: gtiah GNDigG-SLRwPA hcngv HYIN_BRAJA : 167- 178: gtiah GNDi-GgSLRwPA hcngv HYIN_PSESS : 164- 175: vplsv GTDtgG-SIRiPA afcgi HYIN_PSESS : 164- 175: vplsv GTDt-GgSIRiPA afcgi NYLA_FLASP : 167- 178: spvah GNDaaG-SVRiPA svcgv NYLA_PSES8 : 167- 178: spvah GNDaaG-SVRiPA svcgv C 3: 31.9597 12( 12) G-G-S-S-x(0,1)-G-[GS]-x-[AG]-x(2)-[AIV]-[AGS] Occurences: 12(12) AMDS_EMENI : 202- 213: knwsc GGSS-GGeGaiVG irggv AMDY_YEAST : 207- 218: lsfss GGSS-GGeGslIG ahgsl AMID_PSECL : 170- 182: hgyas GGSSsGSaAlvAS gevdi AMID_RHOER : 168- 179: rqrea GGSS-GGsAalVA ngdvd HYIN_AGRRA : 147- 158: pslip GGSS-GGvAaaVA grlml HYIN_AGRT3 : 147- 158: pslip GGSS-GGvAaaVA srlml HYIN_AGRT4 : 147- 158: pdlip GGSS-GGvAaaVA srlml HYIN_AGRVI : 147- 158: qalis GGSS-GGvAvsVA anlml HYIN_BRAJA : 147- 158: pnitc GGSS-GGaGsaVA agigt HYIN_PSESS : 144- 155: pgyca GGSS-GGsAaaVA sgivp HYIN_PSESS : 144- 156: pgyca GGSSgGSaAavAS givpl NYLA_FLASP : 147- 158: lgrsv GGSS-GGsGaaVA aalsp NYLA_FLASP : 147- 159: lgrsv GGSSgGSgAavAA alspv NYLA_PSES8 : 147- 158: lgrsv GGSS-GGsGaaVA aalsp NYLA_PSES8 : 147- 159: lgrsv GGSSgGSgAavAA alspv D 4: 28.2896 12( 12) G-x-S-S-G-[GS]-x-[AG]-x(2)-[AIV]-[AGS] Occurences: 12(12) AMDS_EMENI : 202- 213: knwsc GgSSGGeGaiVG irggv AMDY_YEAST : 207- 218: lsfss GgSSGGeGslIG ahgsl AMID_PSECL : 171- 182: gyasg GsSSGSaAlvAS gevdi AMID_RHOER : 168- 179: rqrea GgSSGGsAalVA ngdvd HYIN_AGRRA : 147- 158: pslip GgSSGGvAaaVA grlml HYIN_AGRT3 : 147- 158: pslip GgSSGGvAaaVA srlml HYIN_AGRT4 : 147- 158: pdlip GgSSGGvAaaVA srlml HYIN_AGRVI : 147- 158: qalis GgSSGGvAvsVA anlml HYIN_BRAJA : 147- 158: pnitc GgSSGGaGsaVA agigt HYIN_PSESS : 144- 155: pgyca GgSSGGsAaaVA sgivp NYLA_FLASP : 147- 158: lgrsv GgSSGGsGaaVA aalsp NYLA_PSES8 : 147- 158: lgrsv GgSSGGsGaaVA aalsp E 5: 27.7896 12( 12) G-S-S-x(0,1)-G-[GS]-x-[AG]-x(2)-[AIV]-[AGS] Occurences: 12(12) AMDS_EMENI : 203- 213: nwscg GSS-GGeGaiVG irggv AMDY_YEAST : 208- 218: sfssg GSS-GGeGslIG ahgsl AMID_PSECL : 171- 182: gyasg GSSsGSaAlvAS gevdi AMID_RHOER : 169- 179: qreag GSS-GGsAalVA ngdvd HYIN_AGRRA : 148- 158: slipg GSS-GGvAaaVA grlml HYIN_AGRT3 : 148- 158: slipg GSS-GGvAaaVA srlml HYIN_AGRT4 : 148- 158: dlipg GSS-GGvAaaVA srlml HYIN_AGRVI : 148- 158: alisg GSS-GGvAvsVA anlml HYIN_BRAJA : 148- 158: nitcg GSS-GGaGsaVA agigt HYIN_PSESS : 145- 155: gycag GSS-GGsAaaVA sgivp HYIN_PSESS : 145- 156: gycag GSSgGSaAavAS givpl NYLA_FLASP : 148- 158: grsvg GSS-GGsGaaVA aalsp NYLA_FLASP : 148- 159: grsvg GSSgGSgAavAA alspv NYLA_PSES8 : 148- 158: grsvg GSS-GGsGaaVA aalsp NYLA_PSES8 : 148- 159: grsvg GSSgGSgAavAA alspv F 6: 27.7896 12( 12) G-S-x(0,1)-S-G-[GS]-x-[AG]-x(2)-[AIV]-[AGS] Occurences: 12(12) AMDS_EMENI : 203- 213: nwscg GS-SGGeGaiVG irggv AMDY_YEAST : 208- 218: sfssg GS-SGGeGslIG ahgsl AMID_PSECL : 171- 182: gyasg GSsSGSaAlvAS gevdi AMID_RHOER : 169- 179: qreag GS-SGGsAalVA ngdvd HYIN_AGRRA : 148- 158: slipg GS-SGGvAaaVA grlml HYIN_AGRT3 : 148- 158: slipg GS-SGGvAaaVA srlml HYIN_AGRT4 : 148- 158: dlipg GS-SGGvAaaVA srlml HYIN_AGRVI : 148- 158: alisg GS-SGGvAvsVA anlml HYIN_BRAJA : 148- 158: nitcg GS-SGGaGsaVA agigt HYIN_PSESS : 145- 155: gycag GS-SGGsAaaVA sgivp NYLA_FLASP : 148- 158: grsvg GS-SGGsGaaVA aalsp NYLA_PSES8 : 148- 158: grsvg GS-SGGsGaaVA aalsp G 7: 27.7896 23( 12) G-x(0,1)-S-S-G-[GS]-x-[AG]-x(2)-[AIV]-[AGS] Occurences: 23(12) AMDS_EMENI : 202- 213: knwsc GgSSGGeGaiVG irggv AMDS_EMENI : 203- 213: nwscg G-SSGGeGaiVG irggv AMDY_YEAST : 207- 218: lsfss GgSSGGeGslIG ahgsl AMDY_YEAST : 208- 218: sfssg G-SSGGeGslIG ahgsl AMID_PSECL : 171- 182: gyasg GsSSGSaAlvAS gevdi AMID_RHOER : 168- 179: rqrea GgSSGGsAalVA ngdvd AMID_RHOER : 169- 179: qreag G-SSGGsAalVA ngdvd HYIN_AGRRA : 147- 158: pslip GgSSGGvAaaVA grlml HYIN_AGRRA : 148- 158: slipg G-SSGGvAaaVA grlml HYIN_AGRT3 : 147- 158: pslip GgSSGGvAaaVA srlml HYIN_AGRT3 : 148- 158: slipg G-SSGGvAaaVA srlml HYIN_AGRT4 : 147- 158: pdlip GgSSGGvAaaVA srlml HYIN_AGRT4 : 148- 158: dlipg G-SSGGvAaaVA srlml HYIN_AGRVI : 147- 158: qalis GgSSGGvAvsVA anlml HYIN_AGRVI : 148- 158: alisg G-SSGGvAvsVA anlml HYIN_BRAJA : 147- 158: pnitc GgSSGGaGsaVA agigt HYIN_BRAJA : 148- 158: nitcg G-SSGGaGsaVA agigt HYIN_PSESS : 144- 155: pgyca GgSSGGsAaaVA sgivp HYIN_PSESS : 145- 155: gycag G-SSGGsAaaVA sgivp NYLA_FLASP : 147- 158: lgrsv GgSSGGsGaaVA aalsp NYLA_FLASP : 148- 158: grsvg G-SSGGsGaaVA aalsp NYLA_PSES8 : 147- 158: lgrsv GgSSGGsGaaVA aalsp NYLA_PSES8 : 148- 158: grsvg G-SSGGsGaaVA aalsp H 8: 26.1868 12( 12) G-[GNT]-D-x(3)-S-x(0,1)-R-x-P-[AS] Occurences: 12(12) AMDS_EMENI : 222- 233: gvigv GTDiggSiRvPA afnfl AMDY_YEAST : 227- 238: sllgl GTDiggSiRiPS syqgl AMID_PSECL : 190- 201: vdiav GGDqggSiRiPS afcgt AMID_RHOER : 188- 199: vdfai GGDqggSiRiPA afcgv HYIN_AGRRA : 167- 178: mlggv GTDtgaSvRlPA alcgv HYIN_AGRT3 : 167- 178: mlggi GTDtgaSvRlPA alcgv HYIN_AGRT4 : 167- 178: mlggi GTDtgaSvRlPA alcgv HYIN_AGRVI : 167- 178: mlggi GTDtgaSvRlPA alcgv HYIN_BRAJA : 167- 178: gtiah GNDiggSlRwPA hcngv HYIN_PSESS : 164- 175: vplsv GTDtggSiRiPA afcgi NYLA_FLASP : 167- 178: spvah GNDaagSvRiPA svcgv NYLA_PSES8 : 167- 178: spvah GNDaagSvRiPA svcgv I 9: 25.6912 12( 12) D-x(1,2)-G-x(0,1)-S-[ILV]-R-x-P-[AS] Occurences: 12(12) AMDS_EMENI : 224- 233: igvgt DigG-SIRvPA afnfl AMDS_EMENI : 224- 233: igvgt Di-GgSIRvPA afnfl AMDY_YEAST : 229- 238: lglgt DigG-SIRiPS syqgl AMDY_YEAST : 229- 238: lglgt Di-GgSIRiPS syqgl AMID_PSECL : 192- 201: iavgg DqgG-SIRiPS afcgt AMID_PSECL : 192- 201: iavgg Dq-GgSIRiPS afcgt AMID_RHOER : 190- 199: faigg DqgG-SIRiPA afcgv AMID_RHOER : 190- 199: faigg Dq-GgSIRiPA afcgv HYIN_AGRRA : 169- 178: ggvgt Dt-GaSVRlPA alcgv HYIN_AGRT3 : 169- 178: ggigt Dt-GaSVRlPA alcgv HYIN_AGRT4 : 169- 178: ggigt Dt-GaSVRlPA alcgv HYIN_AGRVI : 169- 178: ggigt Dt-GaSVRlPA alcgv HYIN_BRAJA : 169- 178: iahgn DigG-SLRwPA hcngv HYIN_BRAJA : 169- 178: iahgn Di-GgSLRwPA hcngv HYIN_PSESS : 166- 175: lsvgt DtgG-SIRiPA afcgi HYIN_PSESS : 166- 175: lsvgt Dt-GgSIRiPA afcgi NYLA_FLASP : 169- 178: vahgn DaaG-SVRiPA svcgv NYLA_PSES8 : 169- 178: vahgn DaaG-SVRiPA svcgv J 10: 24.5408 23( 12) G-x(1,2)-S-G-G-x-[AGS]-[ASV]-x(2)-[AG] Occurences: 23(12) AMDS_EMENI : 202- 213: knwsc GgsSGGeGAivG irggv AMDS_EMENI : 203- 213: nwscg Gs-SGGeGAivG irggv AMDY_YEAST : 207- 218: lsfss GgsSGGeGSliG ahgsl AMDY_YEAST : 208- 218: sfssg Gs-SGGeGSliG ahgsl AMID_PSECL : 166- 177: nphrh GyaSGGsSSgsA alvas AMID_RHOER : 168- 179: rqrea GgsSGGsAAlvA ngdvd AMID_RHOER : 169- 179: qreag Gs-SGGsAAlvA ngdvd HYIN_AGRRA : 147- 158: pslip GgsSGGvAAavA grlml HYIN_AGRRA : 148- 158: slipg Gs-SGGvAAavA grlml HYIN_AGRT3 : 147- 158: pslip GgsSGGvAAavA srlml HYIN_AGRT3 : 148- 158: slipg Gs-SGGvAAavA srlml HYIN_AGRT4 : 147- 158: pdlip GgsSGGvAAavA srlml HYIN_AGRT4 : 148- 158: dlipg Gs-SGGvAAavA srlml HYIN_AGRVI : 147- 158: qalis GgsSGGvAVsvA anlml HYIN_AGRVI : 148- 158: alisg Gs-SGGvAVsvA anlml HYIN_BRAJA : 147- 158: pnitc GgsSGGaGSavA agigt HYIN_BRAJA : 148- 158: nitcg Gs-SGGaGSavA agigt HYIN_PSESS : 144- 155: pgyca GgsSGGsAAavA sgivp HYIN_PSESS : 145- 155: gycag Gs-SGGsAAavA sgivp NYLA_FLASP : 147- 158: lgrsv GgsSGGsGAavA aalsp NYLA_FLASP : 148- 158: grsvg Gs-SGGsGAavA aalsp NYLA_PSES8 : 147- 158: lgrsv GgsSGGsGAavA aalsp NYLA_PSES8 : 148- 158: grsvg Gs-SGGsGAavA aalsp K 11: 23.6878 12( 12) G-x(2)-G-x(2)-[ILPV]-[AGT]-x-G-x(4)-[ADGT]-x-[AGILV]-x(3)-[AEGS] Occurences: 12(12) AMDS_EMENI : 213- 233: egaiv GirGgvIGvGtdigGsIrvpA afnfl AMDY_YEAST : 218- 238: egsli GahGslLGlGtdigGsIripS syqgl AMID_PSECL : 205- 225: psafc GtyGmkPThGlvpyTgVmaiE atidh AMID_RHOER : 203- 223: paafc GvvGhkPTfGlvpyTgAfpiE rtidh HYIN_AGRRA : 182- 202: paalc GvvGfrPTvGryptDgIvpvS ptrdt HYIN_AGRT3 : 182- 202: paalc GvvGfrPTlGryprDrIipvS ptrdt HYIN_AGRT4 : 182- 202: paalc GvvGfrPTlGrypgDrIipvS ptrdt HYIN_AGRVI : 182- 202: paalc GvvGfrPTfGnyptDgIvpvS psrdt HYIN_BRAJA : 151- 171: cggss GgaGsaVAaGigtiAhGndiG gslrw HYIN_PSESS : 179- 199: paafc GitGfrPTtGrwstAgIipvS htkdc NYLA_FLASP : 182- 202: pasvc GvvGlkPTrGrispGpLvtdS dnvag NYLA_PSES8 : 182- 202: pasvc GvvGlkPTrGrispGpLvtdS dnvag L 12: 23.1083 13( 12) S-G-G-x-[AGS]-[AGS]-[AGIL]-x-[AG] Occurences: 13(12) AMDS_EMENI : 205- 213: scggs SGGeGAIvG irggv AMDY_YEAST : 206- 214: nlsfs SGGsSGGeG sliga AMDY_YEAST : 210- 218: ssggs SGGeGSLiG ahgsl AMID_PSECL : 169- 177: rhgya SGGsSSGsA alvas AMID_RHOER : 171- 179: eaggs SGGsAALvA ngdvd HYIN_AGRRA : 150- 158: ipggs SGGvAAAvA grlml HYIN_AGRT3 : 150- 158: ipggs SGGvAAAvA srlml HYIN_AGRT4 : 150- 158: ipggs SGGvAAAvA srlml HYIN_AGRVI : 146- 154: nqali SGGsSGGvA vsvaa HYIN_BRAJA : 150- 158: tcggs SGGaGSAvA agigt HYIN_PSESS : 147- 155: caggs SGGsAAAvA sgivp NYLA_FLASP : 150- 158: svggs SGGsGAAvA aalsp NYLA_PSES8 : 150- 158: svggs SGGsGAAvA aalsp M 13: 22.0212 18( 12) G-x(0,1)-S-[ILV]-R-x-P-[AS] Occurences: 18(12) AMDS_EMENI : 226- 233: vgtdi GgSIRvPA afnfl AMDS_EMENI : 227- 233: gtdig G-SIRvPA afnfl AMDY_YEAST : 231- 238: lgtdi GgSIRiPS syqgl AMDY_YEAST : 232- 238: gtdig G-SIRiPS syqgl AMID_PSECL : 194- 201: vggdq GgSIRiPS afcgt AMID_PSECL : 195- 201: ggdqg G-SIRiPS afcgt AMID_RHOER : 192- 199: iggdq GgSIRiPA afcgv AMID_RHOER : 193- 199: ggdqg G-SIRiPA afcgv HYIN_AGRRA : 171- 178: vgtdt GaSVRlPA alcgv HYIN_AGRT3 : 171- 178: igtdt GaSVRlPA alcgv HYIN_AGRT4 : 171- 178: igtdt GaSVRlPA alcgv HYIN_AGRVI : 171- 178: igtdt GaSVRlPA alcgv HYIN_BRAJA : 171- 178: hgndi GgSLRwPA hcngv HYIN_BRAJA : 172- 178: gndig G-SLRwPA hcngv HYIN_PSESS : 168- 175: vgtdt GgSIRiPA afcgi HYIN_PSESS : 169- 175: gtdtg G-SIRiPA afcgi NYLA_FLASP : 172- 178: gndaa G-SVRiPA svcgv NYLA_PSES8 : 172- 178: gndaa G-SVRiPA svcgv N 14: 18.3511 12( 12) S-[ILV]-R-x-P-[AS] Occurences: 12(12) AMDS_EMENI : 228- 233: tdigg SIRvPA afnfl AMDY_YEAST : 233- 238: tdigg SIRiPS syqgl AMID_PSECL : 196- 201: gdqgg SIRiPS afcgt AMID_RHOER : 194- 199: gdqgg SIRiPA afcgv HYIN_AGRRA : 173- 178: tdtga SVRlPA alcgv HYIN_AGRT3 : 173- 178: tdtga SVRlPA alcgv HYIN_AGRT4 : 173- 178: tdtga SVRlPA alcgv HYIN_AGRVI : 173- 178: tdtga SVRlPA alcgv HYIN_BRAJA : 173- 178: ndigg SLRwPA hcngv HYIN_PSESS : 170- 175: tdtgg SIRiPA afcgi NYLA_FLASP : 173- 178: ndaag SVRiPA svcgv NYLA_PSES8 : 173- 178: ndaag SVRiPA svcgv O 15: 16.5964 15( 12) G-x(1,3)-S-x(2)-G-x(0,2)-A-x(2)-[ACGSV] Occurences: 15(12) AMDS_EMENI : 202- 213: knwsc Gg--SsgGegAivG irggv AMDY_YEAST : 211- 222: sggss GgegSliG--AhgS llglg AMDY_YEAST : 212- 222: ggssg Geg-SliG--AhgS llglg AMID_PSECL : 170- 180: hgyas Gg--SssGs-AalV asgev AMID_PSECL : 170- 181: hgyas Gg--SssGsaAlvA sgevd AMID_RHOER : 168- 178: rqrea Gg--SsgGs-AalV angdv AMID_RHOER : 168- 179: rqrea Gg--SsgGsaAlvA ngdvd HYIN_AGRRA : 147- 157: pslip Gg--SsgGv-AaaV agrlm HYIN_AGRRA : 147- 158: pslip Gg--SsgGvaAavA grlml HYIN_AGRT3 : 147- 157: pslip Gg--SsgGv-AaaV asrlm HYIN_AGRT3 : 147- 158: pslip Gg--SsgGvaAavA srlml HYIN_AGRT4 : 147- 157: pdlip Gg--SsgGv-AaaV asrlm HYIN_AGRT4 : 147- 158: pdlip Gg--SsgGvaAavA srlml HYIN_AGRVI : 147- 157: qalis Gg--SsgGv-AvsV aanlm HYIN_BRAJA : 38- 50: saaer GcrrSqrGs-AegC acgrq HYIN_BRAJA : 147- 156: pnitc Gg--SsgG--AgsA vaagi HYIN_PSESS : 45- 57: cfire GdavSqfGe-AdhA mkgtp HYIN_PSESS : 144- 154: pgyca Gg--SsgGs-AaaV asgiv HYIN_PSESS : 144- 155: pgyca Gg--SsgGsaAavA sgivp NYLA_FLASP : 147- 158: lgrsv Gg--SsgGsgAavA aalsp NYLA_PSES8 : 147- 158: lgrsv Gg--SsgGsgAavA aalsp P 16: 15.6802 18( 12) G-x(0,1)-G-S-x(3,4)-A Occurences: 18(12) AMDS_EMENI : 226- 233: vgtdi G-GSirvpA afnfl AMDY_YEAST : 212- 219: ggssg GeGSlig-A hgsll AMID_PSECL : 170- 177: hgyas G-GSssgsA alvas AMID_RHOER : 168- 175: rqrea G-GSsggsA alvan AMID_RHOER : 172- 179: aggss G-GSaalvA ngdvd AMID_RHOER : 192- 199: iggdq G-GSiripA afcgv HYIN_AGRRA : 147- 154: pslip G-GSsggvA aavag HYIN_AGRT3 : 147- 154: pslip G-GSsggvA aavas HYIN_AGRT4 : 147- 154: pdlip G-GSsggvA aavas HYIN_AGRVI : 147- 154: qalis G-GSsggvA vsvaa HYIN_BRAJA : 147- 153: pnitc G-GSsgg-A gsava HYIN_BRAJA : 152- 159: ggssg GaGSava-A gigti HYIN_BRAJA : 171- 178: hgndi G-GSlrwpA hcngv HYIN_PSESS : 144- 151: pgyca G-GSsggsA aavas HYIN_PSESS : 148- 155: aggss G-GSaaavA sgivp HYIN_PSESS : 168- 175: vgtdt G-GSiripA afcgi NYLA_FLASP : 151- 158: vggss G-GSgaavA aalsp NYLA_PSES8 : 151- 158: vggss G-GSgaavA aalsp Q 17: 15.1802 18( 12) G-x(0,1)-G-S-x(2,4)-A Occurences: 18(12) AMDS_EMENI : 226- 233: vgtdi G-GSirvpA afnfl AMDY_YEAST : 212- 219: ggssg GeGSlig-A hgsll AMID_PSECL : 170- 177: hgyas G-GSssgsA alvas AMID_RHOER : 168- 175: rqrea G-GSsggsA alvan AMID_RHOER : 172- 179: aggss G-GSaalvA ngdvd AMID_RHOER : 192- 199: iggdq G-GSiripA afcgv HYIN_AGRRA : 147- 154: pslip G-GSsggvA aavag HYIN_AGRT3 : 147- 154: pslip G-GSsggvA aavas HYIN_AGRT4 : 147- 154: pdlip G-GSsggvA aavas HYIN_AGRVI : 147- 154: qalis G-GSsggvA vsvaa HYIN_BRAJA : 147- 153: pnitc G-GSsgg-A gsava HYIN_BRAJA : 152- 158: ggssg GaGSav--A agigt HYIN_BRAJA : 152- 159: ggssg GaGSava-A gigti HYIN_BRAJA : 171- 178: hgndi G-GSlrwpA hcngv HYIN_PSESS : 144- 151: pgyca G-GSsggsA aavas HYIN_PSESS : 148- 153: aggss G-GSaa--A vasgi HYIN_PSESS : 148- 155: aggss G-GSaaavA sgivp HYIN_PSESS : 168- 175: vgtdt G-GSiripA afcgi NYLA_FLASP : 151- 156: vggss G-GSga--A vaaal NYLA_FLASP : 151- 158: vggss G-GSgaavA aalsp NYLA_PSES8 : 151- 156: vggss G-GSga--A vaaal NYLA_PSES8 : 151- 158: vggss G-GSgaavA aalsp R 18: 15.1802 14( 12) S-x-G-x(1,2)-S-x(2,4)-A Occurences: 14(12) AMDS_EMENI : 200- 210: rnknw ScGgsSggegA ivgir AMDY_YEAST : 210- 219: ssggs SgGegSlig-A hgsll AMID_PSECL : 169- 177: rhgya SgGssSgs--A alvas AMID_PSECL : 169- 177: rhgya SgGs-Ssgs-A alvas AMID_PSECL : 169- 178: rhgya SgGssSgsa-A lvasg AMID_PSECL : 169- 178: rhgya SgGs-SsgsaA lvasg AMID_RHOER : 170- 179: reagg SsGg-SaalvA ngdvd HYIN_AGRRA : 123- 132: nmhel SfGitSnnf-A tgavr HYIN_AGRT3 : 123- 132: nmhel SfGitSnny-A tgavr HYIN_AGRT4 : 123- 132: nmhel SfGitSnny-A tgavr HYIN_AGRVI : 146- 154: nqali SgGs-Sggv-A vsvaa HYIN_BRAJA : 150- 158: tcggs SgGagSav--A agigt HYIN_BRAJA : 150- 159: tcggs SgGagSava-A gigti HYIN_PSESS : 146- 153: ycagg SsGg-Saa--A vasgi HYIN_PSESS : 146- 155: ycagg SsGg-SaaavA sgivp NYLA_FLASP : 145- 155: wnlgr SvGgsSggsgA avaaa NYLA_FLASP : 149- 156: rsvgg SsGg-Sga--A vaaal NYLA_FLASP : 149- 158: rsvgg SsGg-SgaavA aalsp NYLA_PSES8 : 145- 155: wnlgr SvGgsSggsgA avaaa NYLA_PSES8 : 149- 156: rsvgg SsGg-Sga--A vaaal NYLA_PSES8 : 149- 158: rsvgg SsGg-SgaavA aalsp S 19: 15.1720 13( 12) P-x(3)-[ILV]-P-x(2)-L Occurences: 13(12) AMDS_EMENI : 120- 128: krpvg PlhgLPisL kdqlr AMDY_YEAST : 123- 131: pailp PlygIPisL kdqcn AMID_PSECL : 461- 469: ditgh PamsIPcgL ldglp AMID_RHOER : 461- 469: dvtgh PslsVPagL vnglp HYIN_AGRRA : 417- 425: snagl PglsLPvsL ssngl HYIN_AGRT3 : 229- 237: visgr PariLPipL kglri HYIN_AGRT3 : 417- 425: snagl PglsLPvgL tpdrl HYIN_AGRT4 : 417- 425: snagl PglsIPvcL tpdrl HYIN_AGRVI : 416- 424: snigl PslsVPvsL tpdrl HYIN_BRAJA : 414- 422: nvlgl PgavVPvtL hdgkp HYIN_PSESS : 413- 421: tipvg PegrLPvgL sfdal NYLA_FLASP : 62- 70: elasg PfagVPylL kdltv NYLA_PSES8 : 62- 70: elasg PfagVPylL kdltv T 20: 14.6802 19( 12) S-x-G-x(0,2)-S-x(2,4)-A Occurences: 19(12) AMDS_EMENI : 200- 210: rnknw ScGgsSggegA ivgir AMDY_YEAST : 210- 219: ssggs SgGegSlig-A hgsll AMID_PSECL : 169- 177: rhgya SgGssSgs--A alvas AMID_PSECL : 169- 177: rhgya SgGs-Ssgs-A alvas AMID_PSECL : 169- 178: rhgya SgGssSgsa-A lvasg AMID_PSECL : 169- 177: rhgya SgG--SssgsA alvas AMID_PSECL : 169- 178: rhgya SgGs-SsgsaA lvasg AMID_PSECL : 173- 181: asggs SsG--SaalvA sgevd AMID_RHOER : 170- 179: reagg SsGg-SaalvA ngdvd AMID_RHOER : 171- 179: eaggs SgG--SaalvA ngdvd HYIN_AGRRA : 123- 132: nmhel SfGitSnnf-A tgavr HYIN_AGRT3 : 123- 132: nmhel SfGitSnny-A tgavr HYIN_AGRT4 : 123- 132: nmhel SfGitSnny-A tgavr HYIN_AGRVI : 146- 154: nqali SgGs-Sggv-A vsvaa HYIN_AGRVI : 146- 154: nqali SgG--SsggvA vsvaa HYIN_BRAJA : 150- 158: tcggs SgGagSav--A agigt HYIN_BRAJA : 150- 159: tcggs SgGagSava-A gigti HYIN_PSESS : 146- 153: ycagg SsGg-Saa--A vasgi HYIN_PSESS : 146- 155: ycagg SsGg-SaaavA sgivp HYIN_PSESS : 147- 153: caggs SgG--Saa--A vasgi HYIN_PSESS : 147- 155: caggs SgG--SaaavA sgivp NYLA_FLASP : 145- 155: wnlgr SvGgsSggsgA avaaa NYLA_FLASP : 149- 156: rsvgg SsGg-Sga--A vaaal NYLA_FLASP : 149- 158: rsvgg SsGg-SgaavA aalsp NYLA_FLASP : 150- 156: svggs SgG--Sga--A vaaal NYLA_FLASP : 150- 158: svggs SgG--SgaavA aalsp NYLA_PSES8 : 145- 155: wnlgr SvGgsSggsgA avaaa NYLA_PSES8 : 149- 156: rsvgg SsGg-Sga--A vaaal NYLA_PSES8 : 149- 158: rsvgg SsGg-SgaavA aalsp NYLA_PSES8 : 150- 156: svggs SgG--Sga--A vaaal NYLA_PSES8 : 150- 158: svggs SgG--SgaavA aalsp Number of patterns evaluated by Pratt:10825 Total running time: 11 seconds