------------------------------------------------------------ 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 13 sequences from file SUMT_2 PATTERN CONSERVATION: CM: min Nr of Seqs to Match 13 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 SUMT_2.pratt2 OP: PROSITE Pattern Format on ON: max number patterns 20 OA: max number Alignments 20 M: Print Patterns in sequences off Sequence lengths: CBIF_SALTY 257 CBIL_SALTY 237 COBI_PSEDE 244 COBM_PSEDE 253 CYSG_ECOLI 457 CYSG_SALTY 457 NASF_BACSU 483 SUMT_BACME 238 SUMT_METIV 230 SUMT_PSEDE 280 SUMT_PSEFL 247 SUMT_SYNP7 243 SUMT_YEAST 593 Pratt run started at Thu Feb 6 21:16:29 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 19.8503 13( 13) G-P-G-x(3,4)-L-x(0,1)-T 2: 15.6802 13( 13) P-G-x(3,4)-L-x(0,1)-T 3: 15.6802 25( 13) G-x(0,2)-P-G-x(5)-T 4: 15.1802 26( 13) G-x(0,2)-P-G-x(3,4)-L 5: 12.5102 19( 13) G-x-G-x(5)-T 6: 12.0102 18( 13) G-x(4,5)-L-x(2)-G 7: 12.0102 20( 13) G-x-G-x(3,4)-L 8: 12.0102 30( 13) V-x(4,5)-G-D 9: 12.0102 20( 13) G-x-G-x(0,1)-P 10: 12.0102 27( 13) L-x(1,2)-A-G 11: 11.5102 33( 13) L-x(1,3)-A-G 12: 11.5102 24( 13) V-x(2,3)-G-x(3,4)-G 13: 11.5102 23( 13) L-x(0,1)-A-x(3,4)-A 14: 11.5102 17( 13) G-x(2)-V-x(3,5)-G 15: 11.5102 23( 13) G-x(0,1)-P-x(4,5)-L 16: 11.5102 18( 13) V-x(2)-V-x(1,3)-A 17: 11.5102 23( 13) V-x(2,3)-V-x(1,2)-A 18: 11.5102 22( 13) I-x(3,4)-L-x(2,3)-G 19: 11.5102 24( 13) I-x(2,3)-L-x(2,3)-G 20: 11.5102 29( 13) L-x(3,4)-G-x(1,2)-D Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 39.3371 13( 13) G-P-G-[ADS]-x-[DEGS]-x-[IL]-T-[ILV]-x-[AG]-x(3)-[IL]-x(3)-[DEPQ]-[IV] B 2: 38.3371 25( 13) G-x(0,2)-P-G-[ADS]-x-[DEGS]-x-[IL]-T-[ILV]-x-[AG]-x(3)-[IL]-x(3)-[DEPQ]-[IV] C 3: 34.3720 13( 13) G-P-G-x(3,4)-L-x(0,1)-T-[ILV]-x-[AG]-x(3)-[IL]-x(3)-[DEPQ]-[IV] D 4: 30.2019 13( 13) P-G-x(3,4)-L-x(0,1)-T-[ILV]-x-[AG]-x(3)-[IL]-x(3)-[DEPQ]-[IV] E 5: 24.3427 17( 13) G-[APST]-G-x(0,1)-P-[DEG]-x(2)-[DEGST]-[ILMV]-x-[AT] F 6: 19.4811 25( 13) V-x(4,5)-G-D-[ALPV]-x-[ILV]-x-[GST] G 7: 17.8663 15( 13) V-x(2,3)-G-x(3,4)-G-x(2)-[DEGT]-x-[GILPV]-[DGPT] H 8: 16.1802 13( 13) G-P-G-x(3,4)-L I 9: 15.9318 16( 13) G-x(0,1)-P-x(4,5)-L-x(2)-[GILV]-x-[AGLV] J 10: 15.1802 26( 13) G-x(0,2)-P-G-x(3,4)-L K 11: 15.0274 15( 13) L-x(1,3)-A-G-x(2)-[ADGTV]-[ADGPST] L 12: 12.0102 18( 13) G-x(4,5)-L-x(2)-G M 13: 12.0102 27( 13) L-x(1,2)-A-G N 14: 11.5102 25( 13) G-x(0,2)-P-G O 15: 11.5102 23( 13) L-x(0,1)-A-x(3,4)-A P 16: 11.5102 17( 13) G-x(2)-V-x(3,5)-G Q 17: 11.5102 18( 13) V-x(2)-V-x(1,3)-A R 18: 11.5102 23( 13) V-x(2,3)-V-x(1,2)-A S 19: 11.5102 22( 13) I-x(3,4)-L-x(2,3)-G T 20: 11.5102 24( 13) I-x(2,3)-L-x(2,3)-G Best patterns with alignements: fitness hits(seqs) Pattern A 1: 39.3371 13( 13) G-P-G-[ADS]-x-[DEGS]-x-[IL]-T-[ILV]-x-[AG]-x(3)-[IL]-x(3)-[DEPQ]-[IV] Occurences: 13(13) CBIF_SALTY : 16- 36: wfvga GPGDrElITLkGyrlLqqaQV viyag CBIL_SALTY : 11- 31: yalst GPGApDlITVrAariLgslDI lyapa COBI_PSEDE : 14- 34: igvgt GPGDpElLTVkAvkaLgqaDV layfa COBM_PSEDE : 9- 29: hfiga GPGAaDlITVrGrdlIgrcPV clyag CYSG_ECOLI : 224- 244: vlvga GPGDaGlLTLkGlqqIqqaDV vvydr CYSG_SALTY : 224- 244: vlvga GPGDaGlLTLkGlqqIqqaDI vvydr NASF_BACSU : 14- 34: yfvga GPGDpGlLTIkGkqaLkeaDV ilydr SUMT_BACME : 10- 30: ylvga GPGDpDlITLkGlkaIqqaDV ilydr SUMT_METIV : 8- 28: ylvga GPGDpElITLkAvnvLkkaDV vlydk SUMT_PSEDE : 23- 43: wlvga GPGDpGlLTLhAanaLrqaDV ivhda SUMT_PSEFL : 11- 31: wlvga GPGDpElLTLkAvraLhaaDV vlidd SUMT_SYNP7 : 11- 31: ylvga GPGDpEyLTLqAqqcLqsaEV liyda SUMT_YEAST : 334- 354: slvgs GPGSvSmLTIgAlqeIksaDI iladk B 2: 38.3371 25( 13) G-x(0,2)-P-G-[ADS]-x-[DEGS]-x-[IL]-T-[ILV]-x-[AG]-x(3)-[IL]-x(3)-[DEPQ]-[IV] Occurences: 25(13) CBIF_SALTY : 14- 36: cvwfv GagPGDrElITLkGyrlLqqaQV viyag CBIF_SALTY : 16- 36: wfvga G--PGDrElITLkGyrlLqqaQV viyag CBIL_SALTY : 11- 31: yalst G--PGApDlITVrAariLgslDI lyapa COBI_PSEDE : 12- 34: rligv GtgPGDpElLTVkAvkaLgqaDV layfa COBI_PSEDE : 14- 34: igvgt G--PGDpElLTVkAvkaLgqaDV layfa COBM_PSEDE : 7- 29: tvhfi GagPGAaDlITVrGrdlIgrcPV clyag COBM_PSEDE : 9- 29: hfiga G--PGAaDlITVrGrdlIgrcPV clyag CYSG_ECOLI : 222- 244: evvlv GagPGDaGlLTLkGlqqIqqaDV vvydr CYSG_ECOLI : 224- 244: vlvga G--PGDaGlLTLkGlqqIqqaDV vvydr CYSG_SALTY : 222- 244: evvlv GagPGDaGlLTLkGlqqIqqaDI vvydr CYSG_SALTY : 224- 244: vlvga G--PGDaGlLTLkGlqqIqqaDI vvydr NASF_BACSU : 12- 34: ivyfv GagPGDpGlLTIkGkqaLkeaDV ilydr NASF_BACSU : 14- 34: yfvga G--PGDpGlLTIkGkqaLkeaDV ilydr SUMT_BACME : 8- 30: kvylv GagPGDpDlITLkGlkaIqqaDV ilydr SUMT_BACME : 10- 30: ylvga G--PGDpDlITLkGlkaIqqaDV ilydr SUMT_METIV : 6- 28: vvylv GagPGDpElITLkAvnvLkkaDV vlydk SUMT_METIV : 8- 28: ylvga G--PGDpElITLkAvnvLkkaDV vlydk SUMT_PSEDE : 21- 43: svwlv GagPGDpGlLTLhAanaLrqaDV ivhda SUMT_PSEDE : 23- 43: wlvga G--PGDpGlLTLhAanaLrqaDV ivhda SUMT_PSEFL : 9- 31: kvwlv GagPGDpElLTLkAvraLhaaDV vlidd SUMT_PSEFL : 11- 31: wlvga G--PGDpElLTLkAvraLhaaDV vlidd SUMT_SYNP7 : 9- 31: kvylv GagPGDpEyLTLqAqqcLqsaEV liyda SUMT_SYNP7 : 11- 31: ylvga G--PGDpEyLTLqAqqcLqsaEV liyda SUMT_YEAST : 332- 354: kislv GsgPGSvSmLTIgAlqeIksaDI iladk SUMT_YEAST : 334- 354: slvgs G--PGSvSmLTIgAlqeIksaDI iladk C 3: 34.3720 13( 13) G-P-G-x(3,4)-L-x(0,1)-T-[ILV]-x-[AG]-x(3)-[IL]-x(3)-[DEPQ]-[IV] Occurences: 13(13) CBIF_SALTY : 16- 36: wfvga GPGdre-LiTLkGyrlLqqaQV viyag CBIL_SALTY : 11- 31: yalst GPGapd-LiTVrAariLgslDI lyapa COBI_PSEDE : 14- 34: igvgt GPGdpelL-TVkAvkaLgqaDV layfa COBI_PSEDE : 14- 34: igvgt GPGdpe-LlTVkAvkaLgqaDV layfa COBM_PSEDE : 9- 29: hfiga GPGaad-LiTVrGrdlIgrcPV clyag CYSG_ECOLI : 224- 244: vlvga GPGdaglL-TLkGlqqIqqaDV vvydr CYSG_ECOLI : 224- 244: vlvga GPGdag-LlTLkGlqqIqqaDV vvydr CYSG_SALTY : 224- 244: vlvga GPGdaglL-TLkGlqqIqqaDI vvydr CYSG_SALTY : 224- 244: vlvga GPGdag-LlTLkGlqqIqqaDI vvydr NASF_BACSU : 14- 34: yfvga GPGdpglL-TIkGkqaLkeaDV ilydr NASF_BACSU : 14- 34: yfvga GPGdpg-LlTIkGkqaLkeaDV ilydr SUMT_BACME : 10- 30: ylvga GPGdpd-LiTLkGlkaIqqaDV ilydr SUMT_METIV : 8- 28: ylvga GPGdpe-LiTLkAvnvLkkaDV vlydk SUMT_PSEDE : 23- 43: wlvga GPGdpglL-TLhAanaLrqaDV ivhda SUMT_PSEDE : 23- 43: wlvga GPGdpg-LlTLhAanaLrqaDV ivhda SUMT_PSEFL : 11- 31: wlvga GPGdpelL-TLkAvraLhaaDV vlidd SUMT_PSEFL : 11- 31: wlvga GPGdpe-LlTLkAvraLhaaDV vlidd SUMT_SYNP7 : 11- 31: ylvga GPGdpeyL-TLqAqqcLqsaEV liyda SUMT_YEAST : 334- 354: slvgs GPGsvsmL-TIgAlqeIksaDI iladk D 4: 30.2019 13( 13) P-G-x(3,4)-L-x(0,1)-T-[ILV]-x-[AG]-x(3)-[IL]-x(3)-[DEPQ]-[IV] Occurences: 13(13) CBIF_SALTY : 17- 36: fvgag PGdre-LiTLkGyrlLqqaQV viyag CBIL_SALTY : 12- 31: alstg PGapd-LiTVrAariLgslDI lyapa COBI_PSEDE : 15- 34: gvgtg PGdpelL-TVkAvkaLgqaDV layfa COBI_PSEDE : 15- 34: gvgtg PGdpe-LlTVkAvkaLgqaDV layfa COBM_PSEDE : 10- 29: figag PGaad-LiTVrGrdlIgrcPV clyag CYSG_ECOLI : 225- 244: lvgag PGdaglL-TLkGlqqIqqaDV vvydr CYSG_ECOLI : 225- 244: lvgag PGdag-LlTLkGlqqIqqaDV vvydr CYSG_SALTY : 225- 244: lvgag PGdaglL-TLkGlqqIqqaDI vvydr CYSG_SALTY : 225- 244: lvgag PGdag-LlTLkGlqqIqqaDI vvydr NASF_BACSU : 15- 34: fvgag PGdpglL-TIkGkqaLkeaDV ilydr NASF_BACSU : 15- 34: fvgag PGdpg-LlTIkGkqaLkeaDV ilydr SUMT_BACME : 11- 30: lvgag PGdpd-LiTLkGlkaIqqaDV ilydr SUMT_METIV : 9- 28: lvgag PGdpe-LiTLkAvnvLkkaDV vlydk SUMT_PSEDE : 24- 43: lvgag PGdpglL-TLhAanaLrqaDV ivhda SUMT_PSEDE : 24- 43: lvgag PGdpg-LlTLhAanaLrqaDV ivhda SUMT_PSEFL : 12- 31: lvgag PGdpelL-TLkAvraLhaaDV vlidd SUMT_PSEFL : 12- 31: lvgag PGdpe-LlTLkAvraLhaaDV vlidd SUMT_SYNP7 : 12- 31: lvgag PGdpeyL-TLqAqqcLqsaEV liyda SUMT_YEAST : 335- 354: lvgsg PGsvsmL-TIgAlqeIksaDI iladk E 5: 24.3427 17( 13) G-[APST]-G-x(0,1)-P-[DEG]-x(2)-[DEGST]-[ILMV]-x-[AT] Occurences: 17(13) CBIF_SALTY : 14- 24: cvwfv GAG-PGdrELiT lkgyr CBIL_SALTY : 11- 22: yalst GPGaPDliTVrA arilg COBI_PSEDE : 12- 22: rligv GTG-PGdpELlT vkavk COBI_PSEDE : 14- 25: igvgt GPGdPEllTVkA vkalg COBM_PSEDE : 7- 17: tvhfi GAG-PGaaDLiT vrgrd CYSG_ECOLI : 222- 232: evvlv GAG-PGdaGLlT lkglq CYSG_SALTY : 222- 232: evvlv GAG-PGdaGLlT lkglq NASF_BACSU : 12- 22: ivyfv GAG-PGdpGLlT ikgkq SUMT_BACME : 8- 18: kvylv GAG-PGdpDLiT lkglk SUMT_METIV : 6- 16: vvylv GAG-PGdpELiT lkavn SUMT_METIV : 8- 19: ylvga GPGdPEliTLkA vnvlk SUMT_PSEDE : 21- 31: svwlv GAG-PGdpGLlT lhaan SUMT_PSEDE : 23- 34: wlvga GPGdPGllTLhA analr SUMT_PSEFL : 9- 19: kvwlv GAG-PGdpELlT lkavr SUMT_PSEFL : 11- 22: wlvga GPGdPEllTLkA vralh SUMT_SYNP7 : 11- 22: ylvga GPGdPEylTLqA qqclq SUMT_YEAST : 332- 342: kislv GSG-PGsvSMlT igalq F 6: 19.4811 25( 13) V-x(4,5)-G-D-[ALPV]-x-[ILV]-x-[GST] Occurences: 25(13) CBIF_SALTY : 83- 95: kagkt VvrlqtGDVsLyG svreq CBIF_SALTY : 84- 95: agktv Vrlqt-GDVsLyG svreq CBIL_SALTY : 94- 106: eagkq VgfitlGDAmLfS twifl COBI_PSEDE : 11- 22: grlig Vgtgp-GDPeLlT vkavk COBM_PSEDE : 76- 88: aegld VarlhsGDLsVwS avaeq CYSG_ECOLI : 221- 232: gevvl Vgagp-GDAgLlT lkglq CYSG_ECOLI : 296- 308: qkgkr VvrlkgGDPfIfG rggee CYSG_ECOLI : 297- 308: kgkrv Vrlkg-GDPfIfG rggee CYSG_SALTY : 221- 232: gevvl Vgagp-GDAgLlT lkglq CYSG_SALTY : 296- 308: qkgkr VvrlkgGDPfIfG rggee CYSG_SALTY : 297- 308: kgkrv Vrlkg-GDPfIfG rggee NASF_BACSU : 11- 22: givyf Vgagp-GDPgLlT ikgkq NASF_BACSU : 86- 98: lnglt VvrlkgGDPsVfG rvgee NASF_BACSU : 87- 98: ngltv Vrlkg-GDPsVfG rvgee SUMT_BACME : 7- 18: gkvyl Vgagp-GDPdLiT lkglk SUMT_BACME : 82- 94: kkgki VtrlkgGDPfVfG rggee SUMT_METIV : 5- 16: vvyl Vgagp-GDPeLiT lkavn SUMT_METIV : 79- 91: kendl VvrlkgGDPfVfG rggee SUMT_METIV : 80- 91: endlv Vrlkg-GDPfVfG rggee SUMT_PSEDE : 20- 31: gsvwl Vgagp-GDPgLlT lhaan SUMT_PSEDE : 95- 107: ragnr VlrlkgGDPfVfG rggee SUMT_PSEFL : 8- 19: akvwl Vgagp-GDPeLlT lkavr SUMT_SYNP7 : 83- 95: qqgrk VirlksGDPfVfG raase SUMT_YEAST : 406- 418: dnglk VvrlkqGDPyIfG rggee SUMT_YEAST : 407- 418: nglkv Vrlkq-GDPyIfG rggee G 7: 17.8663 15( 13) V-x(2,3)-G-x(3,4)-G-x(2)-[DEGT]-x-[GILPV]-[DGPT] Occurences: 15(13) CBIF_SALTY : 10- 24: fdprc VwfvGagp-GdrElIT lkgyr CBIL_SALTY : 88- 101: altae Vea-Gkqv-GfiTlGD amlfs COBI_PSEDE : 3- 16: sg Vgv-Grli-GvgTgPG dpell COBM_PSEDE : 3- 17: mt VhfiGagp-GaaDlIT vrgrd CYSG_ECOLI : 218- 232: dhrge VvlvGagp-GdaGlLT lkglq CYSG_ECOLI : 219- 232: hrgev Vlv-Gagp-GdaGlLT lkglq CYSG_SALTY : 218- 232: dhrge VvlvGagp-GdaGlLT lkglq CYSG_SALTY : 219- 232: hrgev Vlv-Gagp-GdaGlLT lkglq NASF_BACSU : 8- 22: mkngi VyfvGagp-GdpGlLT ikgkq SUMT_BACME : 4- 18: mgk VylvGagp-GdpDlIT lkglk SUMT_METIV : 2- 16: v VylvGagp-GdpElIT lkavn SUMT_PSEDE : 17- 31: lekgs VwlvGagp-GdpGlLT lhaan SUMT_PSEFL : 5- 19: msak VwlvGagp-GdpElLT lkavr SUMT_SYNP7 : 5- 19: mtgk VylvGagp-GdpEyLT lqaqq SUMT_YEAST : 498- 513: lhran VlitGllkhGwdGdVP aaive H 8: 16.1802 13( 13) G-P-G-x(3,4)-L Occurences: 13(13) CBIF_SALTY : 16- 22: wfvga GPGdre-L itlkg CBIL_SALTY : 11- 17: yalst GPGapd-L itvra COBI_PSEDE : 14- 20: igvgt GPGdpe-L ltvka COBI_PSEDE : 14- 21: igvgt GPGdpelL tvkav COBM_PSEDE : 9- 15: hfiga GPGaad-L itvrg CYSG_ECOLI : 224- 230: vlvga GPGdag-L ltlkg CYSG_ECOLI : 224- 231: vlvga GPGdaglL tlkgl CYSG_SALTY : 224- 230: vlvga GPGdag-L ltlkg CYSG_SALTY : 224- 231: vlvga GPGdaglL tlkgl NASF_BACSU : 14- 20: yfvga GPGdpg-L ltikg NASF_BACSU : 14- 21: yfvga GPGdpglL tikgk SUMT_BACME : 10- 16: ylvga GPGdpd-L itlkg SUMT_METIV : 8- 14: ylvga GPGdpe-L itlka SUMT_PSEDE : 23- 29: wlvga GPGdpg-L ltlha SUMT_PSEDE : 23- 30: wlvga GPGdpglL tlhaa SUMT_PSEFL : 11- 17: wlvga GPGdpe-L ltlka SUMT_PSEFL : 11- 18: wlvga GPGdpelL tlkav SUMT_SYNP7 : 11- 18: ylvga GPGdpeyL tlqaq SUMT_YEAST : 334- 341: slvgs GPGsvsmL tigal I 9: 15.9318 16( 13) G-x(0,1)-P-x(4,5)-L-x(2)-[GILV]-x-[AGLV] Occurences: 16(13) CBIF_SALTY : 16- 27: wfvga G-Pgdre-LitLkG yrllq CBIL_SALTY : 11- 22: yalst G-Pgapd-LitVrA arilg COBI_PSEDE : 14- 25: igvgt G-Pgdpe-LltVkA vkalg COBM_PSEDE : 9- 20: hfiga G-Pgaad-LitVrG rdlig CYSG_ECOLI : 224- 235: vlvga G-Pgdag-LltLkG lqqiq CYSG_SALTY : 224- 235: vlvga G-Pgdag-LltLkG lqqiq NASF_BACSU : 14- 25: yfvga G-Pgdpg-LltIkG kqalk SUMT_BACME : 10- 21: ylvga G-Pgdpd-LitLkG lkaiq SUMT_BACME : 12- 24: vgagp GdPdlit-LkgLkA iqqad SUMT_METIV : 8- 19: ylvga G-Pgdpe-LitLkA vnvlk SUMT_METIV : 10- 22: vgagp GdPelit-LkaVnV lkkad SUMT_PSEDE : 23- 34: wlvga G-Pgdpg-LltLhA analr SUMT_PSEFL : 11- 22: wlvga G-Pgdpe-LltLkA vralh SUMT_PSEFL : 13- 25: vgagp GdPellt-LkaVrA lhaad SUMT_SYNP7 : 128- 141: aplla GiPitdpvLsrGfA vytvh SUMT_YEAST : 334- 346: slvgs G-PgsvsmLtiGaL qeiks J 10: 15.1802 26( 13) G-x(0,2)-P-G-x(3,4)-L Occurences: 26(13) CBIF_SALTY : 14- 22: cvwfv GagPGdre-L itlkg CBIF_SALTY : 16- 22: wfvga G--PGdre-L itlkg CBIL_SALTY : 11- 17: yalst G--PGapd-L itvra COBI_PSEDE : 12- 20: rligv GtgPGdpe-L ltvka COBI_PSEDE : 12- 21: rligv GtgPGdpelL tvkav COBI_PSEDE : 14- 20: igvgt G--PGdpe-L ltvka COBI_PSEDE : 14- 21: igvgt G--PGdpelL tvkav COBM_PSEDE : 7- 15: tvhfi GagPGaad-L itvrg COBM_PSEDE : 9- 15: hfiga G--PGaad-L itvrg CYSG_ECOLI : 222- 230: evvlv GagPGdag-L ltlkg CYSG_ECOLI : 222- 231: evvlv GagPGdaglL tlkgl CYSG_ECOLI : 224- 230: vlvga G--PGdag-L ltlkg CYSG_ECOLI : 224- 231: vlvga G--PGdaglL tlkgl CYSG_SALTY : 222- 230: evvlv GagPGdag-L ltlkg CYSG_SALTY : 222- 231: evvlv GagPGdaglL tlkgl CYSG_SALTY : 224- 230: vlvga G--PGdag-L ltlkg CYSG_SALTY : 224- 231: vlvga G--PGdaglL tlkgl NASF_BACSU : 12- 20: ivyfv GagPGdpg-L ltikg NASF_BACSU : 12- 21: ivyfv GagPGdpglL tikgk NASF_BACSU : 14- 20: yfvga G--PGdpg-L ltikg NASF_BACSU : 14- 21: yfvga G--PGdpglL tikgk SUMT_BACME : 8- 16: kvylv GagPGdpd-L itlkg SUMT_BACME : 10- 16: ylvga G--PGdpd-L itlkg SUMT_METIV : 6- 14: vvylv GagPGdpe-L itlka SUMT_METIV : 8- 14: ylvga G--PGdpe-L itlka SUMT_PSEDE : 21- 29: svwlv GagPGdpg-L ltlha SUMT_PSEDE : 21- 30: svwlv GagPGdpglL tlhaa SUMT_PSEDE : 23- 29: wlvga G--PGdpg-L ltlha SUMT_PSEDE : 23- 30: wlvga G--PGdpglL tlhaa SUMT_PSEDE : 25- 32: vgagp Gd-PGllt-L haana SUMT_PSEFL : 9- 17: kvwlv GagPGdpe-L ltlka SUMT_PSEFL : 9- 18: kvwlv GagPGdpelL tlkav SUMT_PSEFL : 11- 17: wlvga G--PGdpe-L ltlka SUMT_PSEFL : 11- 18: wlvga G--PGdpelL tlkav SUMT_SYNP7 : 9- 18: kvylv GagPGdpeyL tlqaq SUMT_SYNP7 : 11- 18: ylvga G--PGdpeyL tlqaq SUMT_YEAST : 332- 341: kislv GsgPGsvsmL tigal SUMT_YEAST : 334- 341: slvgs G--PGsvsmL tigal K 11: 15.0274 15( 13) L-x(1,3)-A-G-x(2)-[ADGTV]-[ADGPST] Occurences: 15(13) CBIF_SALTY : 72- 80: eqiie Lma-AGvkAG ktvvr CBIL_SALTY : 32- 41: gsldi LyapAGrkGG dslal COBI_PSEDE : 98- 105: avaah La--AGrtVA vlseg COBM_PSEDE : 31- 38: rcpvc Ly--AGsiVS pellr CYSG_ECOLI : 220- 228: rgevv Lvg-AGpgDA glltl CYSG_SALTY : 220- 228: rgevv Lvg-AGpgDA glltl NASF_BACSU : 128- 135: giaap Ly--AGipVT hrdfa SUMT_BACME : 6- 14: mgkvy Lvg-AGpgDP dlitl SUMT_METIV : 4- 12: vvy Lvg-AGpgDP elitl SUMT_PSEDE : 19- 27: kgsvw Lvg-AGpgDP glltl SUMT_PSEDE : 64- 72: rpgav Lef-AGkrGG kpspk SUMT_PSEDE : 136- 144: agigg Lay-AGipVT hrevn SUMT_PSEFL : 7- 15: sakvw Lvg-AGpgDP elltl SUMT_SYNP7 : 7- 15: tgkvy Lvg-AGpgDP eyltl SUMT_YEAST : 14- 22: psslp Lit-AGfaTD qvhll L 12: 12.0102 18( 13) G-x(4,5)-L-x(2)-G Occurences: 18(13) CBIF_SALTY : 80- 89: agvka GktvvrLqtG dvsly CBIL_SALTY : 3- 11: mn Gklya-LstG pgapd COBI_PSEDE : 101- 110: ahlaa GrtvavLseG dplfy COBM_PSEDE : 25- 34: grdli GrcpvcLyaG sivsp COBM_PSEDE : 73- 82: kaeae GldvarLhsG dlsvw CYSG_ECOLI : 293- 302: reaqk GkrvvrLkgG dpfif CYSG_SALTY : 293- 302: reaqk GkrvvrLkgG dpfif NASF_BACSU : 83- 92: ekaln GltvvrLkgG dpsvf NASF_BACSU : 123- 131: pgits Giaap-LyaG ipvth SUMT_BACME : 79- 88: kfakk GkivtrLkgG dpfvf SUMT_METIV : 104- 112: alvee Gidfe-LvpG vtsai SUMT_PSEDE : 92- 101: elara GnrvlrLkgG dpfvf SUMT_PSEDE : 190- 199: amkhi GaitanLiaG grspd SUMT_PSEFL : 107- 115: wlrer Gveve-LvnG itagl SUMT_SYNP7 : 80- 89: ehcqq GrkvirLksG dpfvf SUMT_SYNP7 : 167- 175: lillm Gsrhl-LtiG helir SUMT_YEAST : 336- 344: vgsgp Gsvsm-LtiG alqei SUMT_YEAST : 403- 412: esldn GlkvvrLkqG dpyif M 13: 12.0102 27( 13) L-x(1,2)-A-G Occurences: 27(13) CBIF_SALTY : 72- 76: eqiie LmaAG vkagk CBIF_SALTY : 183- 186: rvaer Li-AG gypat CBIL_SALTY : 186- 190: rikal LatAG lleca COBI_PSEDE : 98- 101: avaah La-AG rtvav COBM_PSEDE : 31- 34: rcpvc Ly-AG sivsp CYSG_ECOLI : 31- 35: rkarl LldAG arltv CYSG_ECOLI : 32- 35: karll Ld-AG arltv CYSG_ECOLI : 220- 224: rgevv LvgAG pgdag CYSG_ECOLI : 317- 321: eelet LcnAG ipfsv CYSG_SALTY : 31- 35: rkarl LleAG arltv CYSG_SALTY : 32- 35: karll Le-AG arltv CYSG_SALTY : 220- 224: rgevv LvgAG pgdag CYSG_SALTY : 317- 321: eelet LchAG ipfsv NASF_BACSU : 128- 131: giaap Ly-AG ipvth SUMT_BACME : 6- 10: mgkvy LvgAG pgdpd SUMT_METIV : 4- 8: vvy LvgAG pgdpe SUMT_PSEDE : 5- 8: midd Lf-AG lpale SUMT_PSEDE : 19- 23: kgsvw LvgAG pgdpg SUMT_PSEDE : 64- 68: rpgav LefAG krggk SUMT_PSEDE : 88- 92: lrlve LarAG nrvlr SUMT_PSEDE : 136- 140: agigg LayAG ipvth SUMT_PSEDE : 196- 199: aitan Li-AG grspd SUMT_PSEFL : 7- 11: sakvw LvgAG pgdpe SUMT_SYNP7 : 7- 11: tgkvy LvgAG pgdpe SUMT_SYNP7 : 125- 128: alaap Ll-AG ipitd SUMT_YEAST : 14- 18: psslp LitAG fatdq SUMT_YEAST : 47- 50: rihsi Ln-AG gnpiv N 14: 11.5102 25( 13) G-x(0,2)-P-G Occurences: 25(13) CBIF_SALTY : 14- 18: cvwfv GagPG dreli CBIF_SALTY : 16- 18: wfvga G--PG dreli CBIL_SALTY : 11- 13: yalst G--PG apdli COBI_PSEDE : 12- 16: rligv GtgPG dpell COBI_PSEDE : 14- 16: igvgt G--PG dpell COBM_PSEDE : 7- 11: tvhfi GagPG aadli COBM_PSEDE : 9- 11: hfiga G--PG aadli CYSG_ECOLI : 222- 226: evvlv GagPG dagll CYSG_ECOLI : 224- 226: vlvga G--PG dagll CYSG_SALTY : 222- 226: evvlv GagPG dagll CYSG_SALTY : 224- 226: vlvga G--PG dagll NASF_BACSU : 12- 16: ivyfv GagPG dpgll NASF_BACSU : 14- 16: yfvga G--PG dpgll SUMT_BACME : 8- 12: kvylv GagPG dpdli SUMT_BACME : 10- 12: ylvga G--PG dpdli SUMT_METIV : 6- 10: vvylv GagPG dpeli SUMT_METIV : 8- 10: ylvga G--PG dpeli SUMT_PSEDE : 21- 25: svwlv GagPG dpgll SUMT_PSEDE : 23- 25: wlvga G--PG dpgll SUMT_PSEFL : 9- 13: kvwlv GagPG dpell SUMT_PSEFL : 11- 13: wlvga G--PG dpell SUMT_SYNP7 : 9- 13: kvylv GagPG dpeyl SUMT_SYNP7 : 11- 13: ylvga G--PG dpeyl SUMT_YEAST : 332- 336: kislv GsgPG svsml SUMT_YEAST : 334- 336: slvgs G--PG svsml O 15: 11.5102 23( 13) L-x(0,1)-A-x(3,4)-A Occurences: 23(13) CBIF_SALTY : 72- 79: eqiie LmAagvkA gktvv CBIF_SALTY : 183- 190: rvaer LiAggypA ttpva CBIL_SALTY : 84- 90: evaaa LtAeve-A gkqvg COBI_PSEDE : 35- 41: gqadv L-AyfakA grsgn COBI_PSEDE : 98- 105: avaah LaAgrtvA vlseg COBI_PSEDE : 174- 179: elgrr L-Adte-A avimk COBI_PSEDE : 174- 180: elgrr L-AdteaA vimkv COBM_PSEDE : 161- 166: atgst L-Aihl-A ihalq CYSG_ECOLI : 188- 193: fvndr L-Aqsl-A nndqk CYSG_SALTY : 188- 193: fvndr L-Aqsl-A nadek CYSG_SALTY : 394- 401: tiqek LiAfgmqA dmpva NASF_BACSU : 333- 339: idirq LtAkls-A aseqa NASF_BACSU : 333- 340: idirq LtAklsaA seqak NASF_BACSU : 337- 344: qltak LsAaseqA ktele SUMT_BACME : 22- 28: itlkg LkAiqq-A dvily SUMT_METIV : 170- 175: mgign L-Aent-A eimkh SUMT_PSEDE : 5- 11: midd LfAglp-A lekgs SUMT_PSEDE : 57- 62: edclk L-Arpg-A vlefa SUMT_PSEDE : 225- 230: vlett L-Arae-A dvaaa SUMT_PSEDE : 266- 272: ldgrk LaAdpf-A nrilr SUMT_PSEDE : 266- 272: ldgrk L-AadpfA nrilr SUMT_PSEFL : 73- 79: ihrlm L-AmrakA nawcd SUMT_SYNP7 : 121- 127: glsta LaApll-A gipit SUMT_SYNP7 : 121- 127: glsta L-AapllA gipit SUMT_YEAST : 444- 450: gisss L-ActvlA qipat SUMT_YEAST : 449- 454: lactv L-Aqip-A tqrdi SUMT_YEAST : 490- 496: rttvf LmAlhr-A nvlit P 16: 11.5102 17( 13) G-x(2)-V-x(3,5)-G Occurences: 17(13) CBIF_SALTY : 80- 89: agvka GktVvrlqtG dvsly CBIL_SALTY : 91- 100: aevea GkqVgfitlG damlf COBI_PSEDE : 2- 10: s GvgVgrli-G vgtgp COBI_PSEDE : 101- 110: ahlaa GrtVavlseG dplfy COBI_PSEDE : 154- 163: lplvq GddVlsvlpG tmaea COBM_PSEDE : 73- 82: kaeae GldVarlhsG dlsvw CYSG_ECOLI : 216- 224: pldhr GevVlvga-G pgdag CYSG_ECOLI : 293- 301: reaqk GkrVvrlk-G gdpfi CYSG_ECOLI : 293- 302: reaqk GkrVvrlkgG dpfif CYSG_SALTY : 216- 224: pldhr GevVlvga-G pgdag CYSG_SALTY : 293- 301: reaqk GkrVvrlk-G gdpfi CYSG_SALTY : 293- 302: reaqk GkrVvrlkgG dpfif NASF_BACSU : 83- 91: ekaln GltVvrlk-G gdpsv NASF_BACSU : 83- 92: ekaln GltVvrlkgG dpsvf SUMT_BACME : 79- 87: kfakk GkiVtrlk-G gdpfv SUMT_BACME : 79- 88: kfakk GkiVtrlkgG dpfvf SUMT_METIV : 124- 131: vptti GlpVthr--G vatsf SUMT_PSEDE : 92- 100: elara GnrVlrlk-G gdpfv SUMT_PSEDE : 92- 101: elara GnrVlrlkgG dpfvf SUMT_PSEFL : 107- 115: wlrer GveVelvn-G itagl SUMT_SYNP7 : 80- 89: ehcqq GrkVirlksG dpfvf SUMT_YEAST : 403- 412: esldn GlkVvrlkqG dpyif Q 17: 11.5102 18( 13) V-x(2)-V-x(1,3)-A Occurences: 18(13) CBIF_SALTY : 10- 15: fdprc VwfVg--A gpgdr CBIF_SALTY : 114- 119: idwqv VpgVs--A flgaa CBIL_SALTY : 124- 131: ewlei VpgVtsfA aiaar COBI_PSEDE : 23- 28: pellt VkaVk--A lgqad COBM_PSEDE : 187- 193: gadcp VaiVvk-A swpde CYSG_ECOLI : 218- 223: dhrge VvlVg--A gpgda CYSG_SALTY : 218- 223: dhrge VvlVg--A gpgda CYSG_SALTY : 441- 446: palii VgrVv--A lrdkl NASF_BACSU : 8- 13: mkngi VyfVg--A gpgdp SUMT_BACME : 4- 9: mgk VylVg--A gpgdp SUMT_METIV : 2- 7: v VylVg--A gpgdp SUMT_METIV : 110- 116: idfel VpgVts-A igvpt SUMT_PSEDE : 17- 22: lekgs VwlVg--A gpgdp SUMT_PSEDE : 207- 213: spdep VafVcn-A atpqq SUMT_PSEDE : 207- 214: spdep VafVcnaA tpqqa SUMT_PSEFL : 5- 10: msak VwlVg--A gpgdp SUMT_PSEFL : 139- 144: gvsrg VtlVt--A htqdd SUMT_SYNP7 : 5- 10: mtgk VylVg--A gpgdp SUMT_YEAST : 549- 555: srppg VlvVgk-A vnalv R 18: 11.5102 23( 13) V-x(2,3)-V-x(1,2)-A Occurences: 23(13) CBIF_SALTY : 10- 15: fdprc Vwf-Vg-A gpgdr CBIF_SALTY : 113- 119: gidwq VvpgVs-A flgaa CBIF_SALTY : 114- 119: idwqv Vpg-Vs-A flgaa CBIL_SALTY : 76- 82: aekea VwneVa-A altae CBIL_SALTY : 76- 83: aekea VwneVaaA ltaev COBI_PSEDE : 23- 28: pellt Vka-Vk-A lgqad COBM_PSEDE : 187- 193: gadcp VaivVk-A swpde COBM_PSEDE : 187- 193: gadcp Vai-VvkA swpde CYSG_ECOLI : 218- 223: dhrge Vvl-Vg-A gpgda CYSG_SALTY : 85- 92: tdddt VnqrVsdA aesrr CYSG_SALTY : 218- 223: dhrge Vvl-Vg-A gpgda CYSG_SALTY : 441- 446: palii Vgr-Vv-A lrdkl NASF_BACSU : 8- 13: mkngi Vyf-Vg-A gpgdp SUMT_BACME : 4- 9: mgk Vyl-Vg-A gpgdp SUMT_METIV : 1- 7: VvylVg-A gpgdp SUMT_METIV : 2- 7: v Vyl-Vg-A gpgdp SUMT_METIV : 110- 116: idfel Vpg-VtsA igvpt SUMT_PSEDE : 17- 22: lekgs Vwl-Vg-A gpgdp SUMT_PSEDE : 207- 213: spdep Vaf-VcnA atpqq SUMT_PSEFL : 5- 10: msak Vwl-Vg-A gpgdp SUMT_PSEFL : 139- 144: gvsrg Vtl-Vt-A htqdd SUMT_PSEFL : 228- 235: spail VigsVagA gqaas SUMT_SYNP7 : 5- 10: mtgk Vyl-Vg-A gpgdp SUMT_YEAST : 549- 555: srppg Vlv-VgkA vnalv SUMT_YEAST : 552- 558: pgvlv VgkaVn-A lvekd S 19: 11.5102 22( 13) I-x(3,4)-L-x(2,3)-G Occurences: 22(13) CBIF_SALTY : 224- 233: vrdag IrktaLilvG nflgk CBIL_SALTY : 182- 190: grfar Ikal-LataG lleca COBI_PSEDE : 192- 200: rnlpk Irra-LaasG rldqa COBM_PSEDE : 217- 226: vaeep IertaLifvG pglea CYSG_ECOLI : 208- 216: tteql Inep-LdhrG evvlv CYSG_ECOLI : 356- 363: qsvrl Itgh-Lkt-G geldw CYSG_ECOLI : 356- 364: qsvrl Itgh-LktgG eldwe CYSG_ECOLI : 390- 398: nqaat Iqqk-LiehG mpgem CYSG_ECOLI : 419- 427: vtqrv Idgt-LtqlG elaqq CYSG_SALTY : 390- 398: nqaat Iqek-LiafG mqadm NASF_BACSU : 124- 131: gitsg Iaap-Lya-G ipvth NASF_BACSU : 183- 191: knlsy Icqq-LisyG kspsv SUMT_BACME : 81- 88: akkgk Ivtr-Lkg-G dpfvf SUMT_BACME : 154- 162: skhda IkwdsLak-G vdtla SUMT_BACME : 178- 186: rnlpy Icqq-LmkhG ktsat SUMT_METIV : 105- 112: lveeg Idfe-Lvp-G vtsai SUMT_PSEDE : 192- 199: khiga Itan-Lia-G grspd SUMT_PSEDE : 192- 200: khiga Itan-LiagG rspde SUMT_PSEFL : 176- 183: aklee Irqq-Lle-G amaad SUMT_SYNP7 : 131- 139: lagip ItdpvLsr-G favyt SUMT_SYNP7 : 174- 182: rhllt Ighe-LirhG rspds SUMT_YEAST : 43- 50: vcknr Ihsi-Lna-G gnpiv SUMT_YEAST : 43- 51: vcknr Ihsi-LnagG npivv SUMT_YEAST : 459- 468: atqrd IadqvLictG tgrkg SUMT_YEAST : 500- 507: ranvl Itgl-Lkh-G wdgdv T 20: 11.5102 24( 13) I-x(2,3)-L-x(2,3)-G Occurences: 24(13) CBIF_SALTY : 69- 76: lhleq Iie-LmaaG vkagk CBIL_SALTY : 109- 116: lfstw Ifl-LqriG cpewl CBIL_SALTY : 182- 190: grfar IkalLataG lleca COBI_PSEDE : 192- 200: rnlpk IrraLaasG rldqa COBM_PSEDE : 94- 101: avaeq Irr-LekhG iaytm CYSG_ECOLI : 208- 216: tteql InepLdhrG evvlv CYSG_ECOLI : 356- 363: qsvrl ItghLkt-G geldw CYSG_ECOLI : 356- 364: qsvrl ItghLktgG eldwe CYSG_ECOLI : 390- 398: nqaat IqqkLiehG mpgem CYSG_ECOLI : 419- 427: vtqrv IdgtLtqlG elaqq CYSG_SALTY : 390- 398: nqaat IqekLiafG mqadm NASF_BACSU : 124- 131: gitsg IaapLya-G ipvth NASF_BACSU : 183- 191: knlsy IcqqLisyG kspsv SUMT_BACME : 81- 88: akkgk IvtrLkg-G dpfvf SUMT_BACME : 178- 186: rnlpy IcqqLmkhG ktsat SUMT_METIV : 97- 104: rggee Ila-LveeG idfel SUMT_METIV : 105- 112: lveeg IdfeLvp-G vtsai SUMT_METIV : 161- 168: fkadt Ivi-LmgiG nlaen SUMT_PSEDE : 2- 8: m Idd-Lfa-G lpale SUMT_PSEDE : 133- 140: gitag Igg-LayaG ipvth SUMT_PSEDE : 192- 199: khiga ItanLia-G grspd SUMT_PSEDE : 192- 200: khiga ItanLiagG rspde SUMT_PSEFL : 176- 183: aklee IrqqLle-G amaad SUMT_SYNP7 : 174- 182: rhllt IgheLirhG rspds SUMT_YEAST : 43- 50: vcknr IhsiLna-G gnpiv SUMT_YEAST : 43- 51: vcknr IhsiLnagG npivv SUMT_YEAST : 500- 507: ranvl ItglLkh-G wdgdv SUMT_YEAST : 500- 507: ranvl Itg-LlkhG wdgdv Number of patterns evaluated by Pratt:2326 Total running time: 3 seconds