------------------------------------------------------------ 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 ASD 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 ASD.pratt2 OP: PROSITE Pattern Format on ON: max number patterns 20 OA: max number Alignments 20 M: Print Patterns in sequences off Sequence lengths: DHAS_BACSU 346 DHAS_BORPE 376 DHAS_CORFL 344 DHAS_CORGL 344 DHAS_ECOLI 367 DHAS_HAEIN 371 DHAS_LEPIN 349 DHAS_MYCSM 346 DHAS_NEIME 140 DHAS_STRMU 357 DHAS_VIBCH 337 DHAS_YEAST 365 Pratt run started at Thu Feb 6 18:53:52 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 15.6802 19( 12) V-x(0,1)-G-x(1,2)-G-x(2)-G 2: 15.1802 20( 12) V-x(1,3)-G-x(2)-G-x(0,1)-V 3: 12.5102 16( 12) G-x-V-G 4: 12.5102 17( 12) G-x(2)-G-x(2)-G 5: 12.0102 12( 12) N-C-x(0,1)-T 6: 12.0102 17( 12) S-G-x(1,2)-G 7: 12.0102 22( 12) G-x(0,1)-A-A 8: 12.0102 19( 12) V-G-x(1,2)-R 9: 12.0102 17( 12) V-x(1,2)-G-A 10: 12.0102 21( 12) G-x(2)-G-x(0,1)-V 11: 12.0102 24( 12) G-x(4)-V-x(0,1)-G 12: 12.0102 27( 12) G-x(4,5)-V-G 13: 12.0102 23( 12) V-x(3,4)-G-x(2)-G 14: 11.5102 27( 12) G-x(2,3)-G-x(0,1)-V 15: 11.5102 26( 12) V-x(3,4)-G-x(2,3)-G 16: 11.5102 12( 12) L-x(2,4)-V-N 17: 11.5102 21( 12) A-x(4,5)-G-x(2,3)-G 18: 11.5102 16( 12) Q-A-x(1,3)-S 19: 11.5102 24( 12) V-x(2,4)-A-x(4)-G 20: 11.5102 18( 12) G-x(1,2)-T-x(2,3)-V Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 20.6122 16( 12) V-x(1,3)-G-x(2)-G-x(0,1)-V-[EG]-[EQST] B 2: 19.9353 14( 12) G-x(2)-[GL]-x-V-x(0,1)-G-[DEQST]-x-[FLM] C 3: 17.8854 13( 12) G-x(2)-G-x-[TV]-G-[EQST] D 4: 17.8289 12( 12) G-x(4,5)-V-G-[QRS]-x(3)-[DQ] E 5: 15.6802 19( 12) V-x(0,1)-G-x(1,2)-G-x(2)-G F 6: 14.8474 12( 12) N-C-x(0,1)-T-x(3)-[LMV] G 7: 14.6168 16( 12) G-x-[ATV]-G-x(0,1)-V H 8: 14.2135 15( 12) G-x(2)-G-x(0,1)-V-x-[EQST] I 9: 13.9181 13( 12) V-x(3,4)-G-x(2,3)-G-x(3)-[FILM] J 10: 13.6493 21( 12) G-x(0,1)-A-A-x-[AGNPST] K 11: 12.5102 16( 12) G-x-V-G L 12: 12.0102 17( 12) S-G-x(1,2)-G M 13: 12.0102 19( 12) V-G-x(1,2)-R N 14: 12.0102 17( 12) V-x(1,2)-G-A O 15: 12.0102 23( 12) V-x(3,4)-G-x(2)-G P 16: 11.5102 12( 12) L-x(2,4)-V-N Q 17: 11.5102 21( 12) A-x(4,5)-G-x(2,3)-G R 18: 11.5102 16( 12) Q-A-x(1,3)-S S 19: 11.5102 24( 12) V-x(2,4)-A-x(4)-G T 20: 11.5102 18( 12) G-x(1,2)-T-x(2,3)-V Best patterns with alignements: fitness hits(seqs) Pattern A 1: 20.6122 16( 12) V-x(1,3)-G-x(2)-G-x(0,1)-V-[EG]-[EQST] Occurences: 16(12) DHAS_BACSU : 7- 18: grglh VavvGatGaVGQ qmlkt DHAS_BACSU : 9- 18: glhva Vv--GatGaVGQ qmlkt DHAS_BORPE : 5- 16: mtqa VglvGwrGmVGS vlmqr DHAS_CORFL : 6- 15: mttia Vv--GatGqVGQ vmrtl DHAS_CORFL : 160- 170: ssyqa VsgsGlaG-VET lakqv DHAS_CORGL : 6- 15: mttia Vv--GatGqVGQ vmrtl DHAS_CORGL : 160- 170: ssyqa VsgsGlaG-VET lakqv DHAS_ECOLI : 4- 15: mkn VgfiGwrGmVGS vlmqr DHAS_HAEIN : 4- 15: mkn VgfiGwrGmVGS vlmdr DHAS_LEPIN : 6- 17: msrvk VavlGatGsVGQ rfiql DHAS_LEPIN : 8- 17: rvkva Vl--GatGsVGQ rfiql DHAS_MYCSM : 160- 170: ssyqa VsgsGiaG-VEE lagqa DHAS_NEIME : 3- 14: mk VgfvGwrGmVGS vlmqr DHAS_STRMU : 5- 16: mgyt VaivGatGaVGT rmiqq DHAS_VIBCH : 7- 18: sqqfn VaifGatGaVGE tmlev DHAS_YEAST : 9- 18: kkiag Vl--GatGsVGQ rfill B 2: 19.9353 14( 12) G-x(2)-[GL]-x-V-x(0,1)-G-[DEQST]-x-[FLM] Occurences: 14(12) DHAS_BACSU : 11- 20: hvavv GatGaV-GQqM lktle DHAS_BORPE : 9- 18: avglv GwrGmV-GSvL mqrmr DHAS_CORFL : 8- 17: tiavv GatGqV-GQvM rtlle DHAS_CORFL : 317- 327: vddnr GlvLvVsGDnL rkgaa DHAS_CORGL : 8- 17: tiavv GatGqV-GQvM rtlle DHAS_CORGL : 317- 327: vddnr GlvLvVsGDnL rkgaa DHAS_ECOLI : 8- 17: nvgfi GwrGmV-GSvL mqrmv DHAS_HAEIN : 8- 17: nvgfi GwrGmV-GSvL mdrms DHAS_LEPIN : 10- 19: kvavl GatGsV-GQrF iqlld DHAS_MYCSM : 317- 327: vpdgr GlaLfVsGDnL rkgaa DHAS_NEIME : 7- 16: kvgfv GwrGmV-GSvL mqrmk DHAS_STRMU : 9- 18: tvaiv GatGaV-GTrM iqqle DHAS_VIBCH : 11- 20: nvaif GatGaV-GEtM levlq DHAS_YEAST : 11- 20: iagvl GatGsV-GQrF illla C 3: 17.8854 13( 12) G-x(2)-G-x-[TV]-G-[EQST] Occurences: 13(12) DHAS_BACSU : 11- 18: hvavv GatGaVGQ qmlkt DHAS_BORPE : 9- 16: avglv GwrGmVGS vlmqr DHAS_CORFL : 8- 15: tiavv GatGqVGQ vmrtl DHAS_CORGL : 8- 15: tiavv GatGqVGQ vmrtl DHAS_ECOLI : 8- 15: nvgfi GwrGmVGS vlmqr DHAS_HAEIN : 8- 15: nvgfi GwrGmVGS vlmdr DHAS_LEPIN : 10- 17: kvavl GatGsVGQ rfiql DHAS_MYCSM : 5- 12: mvni GvvGaTGQ grqvm DHAS_NEIME : 7- 14: kvgfv GwrGmVGS vlmqr DHAS_STRMU : 9- 16: tvaiv GatGaVGT rmiqq DHAS_VIBCH : 11- 18: nvaif GatGaVGE tmlev DHAS_YEAST : 8- 15: gkkia GvlGaTGS vgqrf DHAS_YEAST : 11- 18: iagvl GatGsVGQ rfill D 4: 17.8289 12( 12) G-x(4,5)-V-G-[QRS]-x(3)-[DQ] Occurences: 12(12) DHAS_BACSU : 297- 309: padav GkndvfVGRirkD ldran DHAS_BORPE : 9- 20: avglv Gwrgm-VGSvlmQ rmrde DHAS_CORFL : 297- 309: plaaa GideslVGRirqD stvdd DHAS_CORGL : 297- 309: plaaa GideslVGRirqD stvdd DHAS_ECOLI : 8- 19: nvgfi Gwrgm-VGSvlmQ rmvee DHAS_HAEIN : 8- 19: nvgfi Gwrgm-VGSvlmD rmsqe DHAS_LEPIN : 10- 21: kvavl Gatgs-VGQrfiQ lldhh DHAS_MYCSM : 297- 309: plaaa GiddclVGRirqD pgvpd DHAS_NEIME : 7- 18: kvgfv Gwrgm-VGSvlmQ rmkee DHAS_STRMU : 298- 309: aanav Gsrtf-VGRirkD ldien DHAS_VIBCH : 289- 301: vrdag GkdhvlVGRvrnD ishhs DHAS_YEAST : 319- 330: rnrds Gygvs-VGRireD plldf E 5: 15.6802 19( 12) V-x(0,1)-G-x(1,2)-G-x(2)-G Occurences: 19(12) DHAS_BACSU : 9- 17: glhva VvGatGavG qqmlk DHAS_BACSU : 10- 17: lhvav V-GatGavG qqmlk DHAS_BORPE : 5- 12: mtqa V-GlvGwrG mvgsv DHAS_BORPE : 8- 15: qavgl V-GwrGmvG svlmq DHAS_CORFL : 6- 14: mttia VvGatGqvG qvmrt DHAS_CORFL : 7- 14: ttiav V-GatGqvG qvmrt DHAS_CORFL : 160- 167: ssyqa VsGs-GlaG vetla DHAS_CORGL : 6- 14: mttia VvGatGqvG qvmrt DHAS_CORGL : 7- 14: ttiav V-GatGqvG qvmrt DHAS_CORGL : 160- 167: ssyqa VsGs-GlaG vetla DHAS_ECOLI : 4- 11: mkn V-GfiGwrG mvgsv DHAS_HAEIN : 4- 11: mkn V-GfiGwrG mvgsv DHAS_LEPIN : 8- 16: rvkva VlGatGsvG qrfiq DHAS_MYCSM : 160- 167: ssyqa VsGs-GiaG veela DHAS_NEIME : 3- 10: mk V-GfvGwrG mvgsv DHAS_NEIME : 6- 13: mkvgf V-GwrGmvG svlmq DHAS_STRMU : 8- 15: ytvai V-GatGavG trmiq DHAS_VIBCH : 161- 168: ttyqs VsGa-GkaG idela DHAS_YEAST : 9- 17: kkiag VlGatGsvG qrfil F 6: 14.8474 12( 12) N-C-x(0,1)-T-x(3)-[LMV] Occurences: 12(12) DHAS_BACSU : 129- 136: iianp NCsTiqmV aalep DHAS_BORPE : 135- 141: nfvgg NC-TvscM lmgla DHAS_CORFL : 130- 137: iianp NCtTmaaM pvlkp DHAS_CORGL : 130- 137: iianp NCtTmaaM pvlkp DHAS_ECOLI : 134- 140: tfvgg NC-TvslM lmslg DHAS_HAEIN : 135- 141: tfvgg NC-TvslM lmaig DHAS_LEPIN : 147- 153: iitns NC-TimgV tislk DHAS_MYCSM : 130- 137: iianp NCtTmaaM pvlkp DHAS_NEIME : 134- 140: nyigg NC-TvslM DHAS_STRMU : 127- 134: iiacp NCsTiqmM valep DHAS_VIBCH : 131- 138: iianp NCsTiqmL valkp DHAS_YEAST : 155- 162: iicis NCsTaglV aplkp G 7: 14.6168 16( 12) G-x-[ATV]-G-x(0,1)-V Occurences: 16(12) DHAS_BACSU : 11- 16: hvavv GaTGaV gqqml DHAS_BORPE : 12- 17: lvgwr GmVGsV lmqrm DHAS_CORFL : 8- 13: tiavv GaTGqV gqvmr DHAS_CORFL : 11- 16: vvgat GqVGqV mrtll DHAS_CORFL : 164- 168: avsgs GlAG-V etlak DHAS_CORGL : 8- 13: tiavv GaTGqV gqvmr DHAS_CORGL : 11- 16: vvgat GqVGqV mrtll DHAS_CORGL : 164- 168: avsgs GlAG-V etlak DHAS_ECOLI : 11- 16: figwr GmVGsV lmqrm DHAS_HAEIN : 11- 16: figwr GmVGsV lmdrm DHAS_LEPIN : 10- 15: kvavl GaTGsV gqrfi DHAS_MYCSM : 164- 168: avsgs GiAG-V eelag DHAS_NEIME : 10- 15: fvgwr GmVGsV lmqrm DHAS_STRMU : 9- 14: tvaiv GaTGaV gtrmi DHAS_VIBCH : 11- 16: nvaif GaTGaV getml DHAS_YEAST : 11- 16: iagvl GaTGsV gqrfi H 8: 14.2135 15( 12) G-x(2)-G-x(0,1)-V-x-[EQST] Occurences: 15(12) DHAS_BACSU : 11- 18: hvavv GatGaVgQ qmlkt DHAS_BORPE : 9- 16: avglv GwrGmVgS vlmqr DHAS_CORFL : 8- 15: tiavv GatGqVgQ vmrtl DHAS_CORFL : 164- 170: avsgs GlaG-VeT lakqv DHAS_CORGL : 8- 15: tiavv GatGqVgQ vmrtl DHAS_CORGL : 164- 170: avsgs GlaG-VeT lakqv DHAS_ECOLI : 8- 15: nvgfi GwrGmVgS vlmqr DHAS_HAEIN : 8- 15: nvgfi GwrGmVgS vlmdr DHAS_LEPIN : 10- 17: kvavl GatGsVgQ rfiql DHAS_LEPIN : 181- 187: aisga GypG-VpT mdilg DHAS_MYCSM : 164- 170: avsgs GiaG-VeE lagqa DHAS_NEIME : 7- 14: kvgfv GwrGmVgS vlmqr DHAS_STRMU : 9- 16: tvaiv GatGaVgT rmiqq DHAS_VIBCH : 11- 18: nvaif GatGaVgE tmlev DHAS_YEAST : 11- 18: iagvl GatGsVgQ rfill I 9: 13.9181 13( 12) V-x(3,4)-G-x(2,3)-G-x(3)-[FILM] Occurences: 13(12) DHAS_BACSU : 9- 21: glhva VvgatGav-GqqmL ktled DHAS_BACSU : 10- 21: lhvav Vgat-Gav-GqqmL ktled DHAS_BORPE : 8- 19: qavgl Vgwr-Gmv-GsvlM qrmrd DHAS_CORFL : 160- 171: ssyqa Vsgs-Gla-GvetL akqva DHAS_CORGL : 160- 171: ssyqa Vsgs-Gla-GvetL akqva DHAS_ECOLI : 118- 130: pvnqd Vitd-GlnnGirtF vggnc DHAS_HAEIN : 119- 131: pvnqh Vise-GlkkGiktF vggnc DHAS_LEPIN : 8- 20: rvkva VlgatGsv-GqrfI qlldh DHAS_MYCSM : 160- 171: ssyqa Vsgs-Gia-GveeL agqar DHAS_NEIME : 6- 17: mkvgf Vgwr-Gmv-GsvlM qrmke DHAS_STRMU : 8- 19: ytvai Vgat-Gav-GtrmI qqleq DHAS_VIBCH : 161- 172: ttyqs Vsga-Gka-GideL agqta DHAS_YEAST : 9- 21: kkiag VlgatGsv-GqrfI lllan J 10: 13.6493 21( 12) G-x(0,1)-A-A-x-[AGNPST] Occurences: 21(12) DHAS_BACSU : 328- 332: dnllk G-AAwN svqia DHAS_BORPE : 42- 47: stsna GgAApA waega DHAS_BORPE : 43- 47: tsnag G-AApA waega DHAS_BORPE : 257- 261: kilgr G-AAfG tpatp DHAS_BORPE : 360- 364: dqllw G-AAeP lrrml DHAS_CORFL : 189- 194: efvhd GqAAdA gdvgp DHAS_CORFL : 279- 283: aqeil G-AAsG velvd DHAS_CORFL : 330- 334: dnlrk G-AAlN tiqia DHAS_CORGL : 189- 194: efvhd GqAAdA gdvgp DHAS_CORGL : 279- 283: aqeil G-AAsG vklvd DHAS_CORGL : 330- 334: dnlrk G-AAlN tiqia DHAS_ECOLI : 41- 46: stsql GqAApS fggtt DHAS_ECOLI : 354- 358: dqllw G-AAeP lrrml DHAS_HAEIN : 220- 224: ptdnf G-AAlG gslip DHAS_HAEIN : 357- 361: dqllw G-AAeP vrril DHAS_LEPIN : 330- 334: hntir G-AAgA allna DHAS_MYCSM : 330- 334: dnlrk G-AAlN tiqia DHAS_NEIME : 48- 53: arpdf GqAAkT lldan DHAS_STRMU : 328- 332: dnllk G-AAwN siita DHAS_VIBCH : 320- 324: dnvrk G-AAtN avqia DHAS_YEAST : 347- 351: hntii G-AAgS gvlia K 11: 12.5102 16( 12) G-x-V-G Occurences: 16(12) DHAS_BACSU : 14- 17: vvgat GaVG qqmlk DHAS_BORPE : 6- 9: mtqav GlVG wrgmv DHAS_BORPE : 12- 15: lvgwr GmVG svlmq DHAS_CORFL : 11- 14: vvgat GqVG qvmrt DHAS_CORFL : 195- 198: qaada GdVG pyvsp DHAS_CORGL : 11- 14: vvgat GqVG qvmrt DHAS_CORGL : 195- 198: qaada GdVG pyvsp DHAS_ECOLI : 11- 14: figwr GmVG svlmq DHAS_HAEIN : 11- 14: figwr GmVG svlmd DHAS_LEPIN : 13- 16: vlgat GsVG qrfiq DHAS_MYCSM : 5- 8: mvni GvVG atgqg DHAS_NEIME : 4- 7: mkv GfVG wrgmv DHAS_NEIME : 10- 13: fvgwr GmVG svlmq DHAS_STRMU : 12- 15: ivgat GaVG trmiq DHAS_VIBCH : 14- 17: ifgat GaVG etmle DHAS_YEAST : 14- 17: vlgat GsVG qrfil L 12: 12.0102 17( 12) S-G-x(1,2)-G Occurences: 17(12) DHAS_BACSU : 160- 163: tyqav SGa-G neavk DHAS_BORPE : 166- 169: tyqaa SGg-G aqhmr DHAS_CORFL : 161- 164: syqav SGs-G lagve DHAS_CORFL : 163- 167: qavsg SGlaG vetla DHAS_CORGL : 161- 164: syqav SGs-G lagve DHAS_CORGL : 163- 167: qavsg SGlaG vetla DHAS_ECOLI : 88- 92: pklre SGwqG ywida DHAS_ECOLI : 165- 168: tyqaa SGg-G arhmr DHAS_HAEIN : 166- 169: tyqaa SGa-G aknmr DHAS_LEPIN : 178- 181: smqai SGa-G ypgvp DHAS_MYCSM : 161- 164: syqav SGs-G iagve DHAS_MYCSM : 163- 167: qavsg SGiaG veela DHAS_NEIME : 88- 92: qalrd SGwnG ywida DHAS_STRMU : 158- 161: tyqav SGa-G qsain DHAS_VIBCH : 162- 165: tyqsv SGa-G kagid DHAS_YEAST : 187- 190: tlqai SGa-G fspgv DHAS_YEAST : 318- 321: drnrd SGy-G vsvgr M 13: 12.0102 19( 12) V-G-x(1,2)-R Occurences: 19(12) DHAS_BACSU : 303- 307: kndvf VGriR kdldr DHAS_BORPE : 8- 11: qavgl VGw-R gmvgs DHAS_BORPE : 335- 339: tldip VGrlR klsmg DHAS_CORFL : 303- 307: idesl VGriR qdstv DHAS_CORGL : 303- 307: idesl VGriR qdstv DHAS_ECOLI : 268- 272: glcvr VGalR chsqa DHAS_ECOLI : 329- 333: tlttp VGrlR klnmg DHAS_HAEIN : 332- 336: tlsvp VGrlR klamg DHAS_LEPIN : 15- 18: gatgs VGq-R fiqll DHAS_MYCSM : 303- 307: iddcl VGriR qdpgv DHAS_NEIME : 6- 9: mkvgf VGw-R gmvgs DHAS_NEIME : 40- 44: fttsn VGgaR pdfgq DHAS_STRMU : 14- 17: gatga VGt-R miqql DHAS_STRMU : 297- 300: qaana VGs-R tfvgr DHAS_STRMU : 303- 307: gsrtf VGriR kdldi DHAS_VIBCH : 148- 152: piyda VGieR invtt DHAS_VIBCH : 295- 299: kdhvl VGrvR ndish DHAS_YEAST : 16- 19: gatgs VGq-R filll DHAS_YEAST : 324- 328: gygvs VGriR edpll N 14: 12.0102 17( 12) V-x(1,2)-G-A Occurences: 17(12) DHAS_BACSU : 9- 12: glhva Vv-GA tgavg DHAS_BACSU : 87- 91: lapea VkrGA ividn DHAS_BACSU : 159- 162: styqa Vs-GA gneav DHAS_BORPE : 272- 276: idglc VriGA mrchs DHAS_CORFL : 6- 9: mttia Vv-GA tgqvg DHAS_CORGL : 6- 9: mttia Vv-GA tgqvg DHAS_ECOLI : 266- 270: vdglc VrvGA lrchs DHAS_HAEIN : 269- 273: vdglc VriGA lrchs DHAS_LEPIN : 8- 11: rvkva Vl-GA tgsvg DHAS_MYCSM : 6- 9: mvnig Vv-GA tgqgr DHAS_NEIME : 40- 43: fttsn Vg-GA rpdfg DHAS_STRMU : 85- 89: fapya VkaGA vvvdn DHAS_STRMU : 157- 160: styqa Vs-GA gqsai DHAS_VIBCH : 161- 164: ttyqs Vs-GA gkagi DHAS_VIBCH : 317- 321: vvadn VrkGA atnav DHAS_YEAST : 9- 12: kkiag Vl-GA tgsvg DHAS_YEAST : 34- 37: hfelk Vl-GA ssrsa O 15: 12.0102 23( 12) V-x(3,4)-G-x(2)-G Occurences: 23(12) DHAS_BACSU : 7- 14: grglh Vavv-GatG avgqq DHAS_BACSU : 9- 17: glhva VvgatGavG qqmlk DHAS_BACSU : 10- 17: lhvav Vgat-GavG qqmlk DHAS_BORPE : 5- 12: mtqa Vglv-GwrG mvgsv DHAS_BORPE : 8- 15: qavgl Vgwr-GmvG svlmq DHAS_CORFL : 6- 14: mttia VvgatGqvG qvmrt DHAS_CORFL : 7- 14: ttiav Vgat-GqvG qvmrt DHAS_CORFL : 160- 167: ssyqa Vsgs-GlaG vetla DHAS_CORGL : 6- 14: mttia VvgatGqvG qvmrt DHAS_CORGL : 7- 14: ttiav Vgat-GqvG qvmrt DHAS_CORGL : 160- 167: ssyqa Vsgs-GlaG vetla DHAS_ECOLI : 4- 11: mkn Vgfi-GwrG mvgsv DHAS_HAEIN : 4- 11: mkn Vgfi-GwrG mvgsv DHAS_LEPIN : 6- 13: msrvk Vavl-GatG svgqr DHAS_LEPIN : 8- 16: rvkva VlgatGsvG qrfiq DHAS_MYCSM : 160- 167: ssyqa Vsgs-GiaG veela DHAS_NEIME : 3- 10: mk Vgfv-GwrG mvgsv DHAS_NEIME : 6- 13: mkvgf Vgwr-GmvG svlmq DHAS_STRMU : 5- 12: mgyt Vaiv-GatG avgtr DHAS_STRMU : 8- 15: ytvai Vgat-GavG trmiq DHAS_VIBCH : 7- 14: sqqfn Vaif-GatG avget DHAS_VIBCH : 161- 168: ttyqs Vsga-GkaG idela DHAS_YEAST : 9- 17: kkiag VlgatGsvG qrfil P 16: 11.5102 12( 12) L-x(2,4)-V-N Occurences: 12(12) DHAS_BACSU : 108- 114: dentp LvvpeVN eadlh DHAS_BORPE : 112- 116: daiiv Ldp--VN rpvid DHAS_CORFL : 108- 114: ddevp LivseVN psdkd DHAS_CORGL : 108- 114: ddevp LivseVN psdkd DHAS_ECOLI : 111- 115: daiii Ldp--VN qdvit DHAS_HAEIN : 112- 116: daiiv Ldp--VN qhvis DHAS_LEPIN : 121- 126: ptvpi Lsae-VN sshle DHAS_MYCSM : 105- 111: dpdvp LvvseVN fdrdv DHAS_NEIME : 111- 115: daiiv Ldp--VN rnvid DHAS_STRMU : 106- 112: npdvp LvvpeVN ayamd DHAS_VIBCH : 108- 114: dydip LvvpeVN peaia DHAS_YEAST : 119- 125: eqdvp LivpvVN pehld Q 17: 11.5102 21( 12) A-x(4,5)-G-x(2,3)-G Occurences: 21(12) DHAS_BACSU : 8- 17: rglhv AvvgatGav-G qqmlk DHAS_BORPE : 4- 12: mtq Avglv-Gwr-G mvgsv DHAS_CORFL : 5- 14: mtti AvvgatGqv-G qvmrt DHAS_CORFL : 159- 167: vssyq Avsgs-Gla-G vetla DHAS_CORFL : 274- 283: itveq Aqeil-GaasG velvd DHAS_CORGL : 5- 14: mtti AvvgatGqv-G qvmrt DHAS_CORGL : 159- 167: vssyq Avsgs-Gla-G vetla DHAS_CORGL : 274- 283: itvdq Aqeil-GaasG vklvd DHAS_ECOLI : 43- 52: sqlgq AapsfgGtt-G tlqda DHAS_ECOLI : 43- 52: sqlgq Aapsf-GgttG tlqda DHAS_ECOLI : 44- 52: qlgqa Apsfg-Gtt-G tlqda DHAS_HAEIN : 44- 53: qagqk Apvfg-GkdaG dlksa DHAS_LEPIN : 7- 16: srvkv AvlgatGsv-G qrfiq DHAS_LEPIN : 36- 46: ithlc AsensaGktyG evmkt DHAS_LEPIN : 176- 184: lfsmq Aisga-Gyp-G vptmd DHAS_MYCSM : 159- 167: vssyq Avsgs-Gia-G veela DHAS_NEIME : 84- 92: ksvfq Alrds-Gwn-G ywida DHAS_STRMU : 6- 15: mgytv AivgatGav-G trmiq DHAS_VIBCH : 8- 17: qqfnv AifgatGav-G etmle DHAS_YEAST : 2- 11: m AgkkiaGvl-G atgsv DHAS_YEAST : 185- 194: tttlq Aisga-GfspG vpgid DHAS_YEAST : 189- 197: qaisg Agfsp-Gvp-G idild R 18: 11.5102 16( 12) Q-A-x(1,3)-S Occurences: 16(12) DHAS_BACSU : 157- 160: ivsty QAv--S gagne DHAS_BORPE : 163- 166: ssmty QAa--S gggaq DHAS_CORFL : 58- 63: vedit QAteeS lkgid DHAS_CORFL : 158- 161: hvssy QAv--S gsgla DHAS_CORFL : 158- 163: hvssy QAvsgS glagv DHAS_CORGL : 58- 63: vedit QAteeS lkdid DHAS_CORGL : 158- 161: hvssy QAv--S gsgla DHAS_CORGL : 158- 163: hvssy QAvsgS glagv DHAS_ECOLI : 42- 46: tsqlg QAap-S fggtt DHAS_ECOLI : 162- 165: svaty QAa--S gggar DHAS_HAEIN : 163- 166: svaty QAa--S gagak DHAS_HAEIN : 185- 188: mglle QAv--S selkd DHAS_HAEIN : 185- 189: mglle QAvs-S elkdp DHAS_LEPIN : 175- 178: mlfsm QAi--S gagyp DHAS_MYCSM : 158- 161: ivssy QAv--S gsgia DHAS_MYCSM : 158- 163: ivssy QAvsgS giagv DHAS_NEIME : 83- 88: tksvf QAlrdS gwngy DHAS_STRMU : 155- 158: ivsty QAv--S gagqs DHAS_VIBCH : 188- 191: ypaet QAf--S qqiaf DHAS_YEAST : 184- 187: ttttl QAi--S gagfs S 19: 11.5102 24( 12) V-x(2,4)-A-x(4)-G Occurences: 24(12) DHAS_BACSU : 7- 17: grglh VavvgAtgavG qqmlk DHAS_BACSU : 9- 17: glhva Vvg--AtgavG qqmlk DHAS_BACSU : 67- 75: esfeg Vni--AlfsaG gsvsq DHAS_BACSU : 153- 163: lnkvi VstyqAvsgaG neavk DHAS_BORPE : 119- 127: pvnrp Vid--AalkrG vrnfv DHAS_CORFL : 6- 14: mttia Vvg--AtgqvG qvmrt DHAS_CORFL : 154- 164: lvklh VssyqAvsgsG lagve DHAS_CORFL : 271- 279: dkait Veq--AqeilG aasgv DHAS_CORGL : 6- 14: mttia Vvg--AtgqvG qvmrt DHAS_CORGL : 154- 164: lvklh VssyqAvsgsG lagve DHAS_CORGL : 271- 279: dkait Vdq--AqeilG aasgv DHAS_ECOLI : 158- 168: vdwvs VatyqAasggG arhmr DHAS_HAEIN : 159- 169: vewis VatyqAasgaG aknmr DHAS_LEPIN : 6- 16: msrvk VavlgAtgsvG qrfiq DHAS_LEPIN : 8- 16: rvkva Vlg--AtgsvG qrfiq DHAS_MYCSM : 154- 164: lqrli VssyqAvsgsG iagve DHAS_NEIME : 40- 48: fttsn Vgg--ArpdfG qaakt DHAS_NEIME : 81- 89: dytks Vfq--AlrdsG wngyw DHAS_STRMU : 5- 15: mgyt VaivgAtgavG trmiq DHAS_STRMU : 65- 73: dsfea Vdi--AlfsaG gsvsa DHAS_STRMU : 151- 161: lsrvi VstyqAvsgaG qsain DHAS_VIBCH : 7- 17: sqqfn VaifgAtgavG etmle DHAS_VIBCH : 67- 75: fdwsq Vhi--AlfsaG gelsa DHAS_YEAST : 9- 17: kkiag Vlg--AtgsvG qrfil T 20: 11.5102 18( 12) G-x(1,2)-T-x(2,3)-V Occurences: 18(12) DHAS_BACSU : 11- 16: hvavv Ga-Tga-V gqqml DHAS_BORPE : 76- 82: vtaqg GdyTse-V ypklr DHAS_CORFL : 8- 13: tiavv Ga-Tgq-V gqvmr DHAS_CORGL : 8- 13: tiavv Ga-Tgq-V gqvmr DHAS_ECOLI : 323- 329: paavt GtlTtp-V grlrk DHAS_HAEIN : 76- 82: vtcqg GdyTne-V ypklk DHAS_LEPIN : 10- 15: kvavl Ga-Tgs-V gqrfi DHAS_LEPIN : 42- 48: sensa Gk-TygeV mktrw DHAS_LEPIN : 240- 245: vpvfd Gh-Tvc-V svkfk DHAS_MYCSM : 72- 78: alfsa Ga-TmsrV qaprf DHAS_NEIME : 75- 81: vtcqg GdyTks-V fqalr DHAS_STRMU : 2- 8: m Gy-TvaiV gatga DHAS_STRMU : 9- 14: tvaiv Ga-Tga-V gtrmi DHAS_VIBCH : 11- 16: nvaif Ga-Tga-V getml DHAS_VIBCH : 17- 23: atgav Ge-TmleV lqere DHAS_VIBCH : 51- 56: tyrfn Gk-Tvr-V qnvee DHAS_VIBCH : 320- 326: dnvrk GaaTna-V qiael DHAS_YEAST : 11- 16: iagvl Ga-Tgs-V gqrfi Number of patterns evaluated by Pratt:1707 Total running time: 2 seconds