------------------------------------------------------------ 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 DHDPS_1 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 DHDPS_1.pratt2 OP: PROSITE Pattern Format on ON: max number patterns 20 OA: max number Alignments 20 M: Print Patterns in sequences off Sequence lengths: DAP1_WHEAT 388 DAP2_WHEAT 377 DAPA_BACSU 290 DAPA_BRELA 301 DAPA_CORGL 301 DAPA_ECOLI 292 DAPA_HAEIN 298 DAPA_MAIZE 380 MOSA_RHIME 333 NPL_ECOLI 296 NPL_HAEIN 293 YJHH_ECOLI 319 Pratt run started at Thu Feb 6 19:17:55 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 15.6802 15( 12) G-x(0,1)-T-x(0,1)-G-E 2: 15.6802 12( 12) G-x(0,1)-T-G-x(0,1)-E 3: 14.6802 19( 12) V-x(0,2)-G-x(1,3)-T-x-E 4: 12.5102 13( 12) I-x(3)-G-x(3)-T 5: 12.0102 18( 12) G-x(2)-A-x(1,2)-A 6: 12.0102 19( 12) G-x(2,3)-A-x-A 7: 12.0102 18( 12) G-x(2)-G-x(2,3)-S 8: 12.0102 14( 12) A-x(1,2)-T-P 9: 12.0102 12( 12) P-x(0,1)-Y-Y 10: 12.0102 15( 12) V-x(3,4)-Y-x(5)-E 11: 12.0102 20( 12) G-x(0,1)-T-G 12: 12.0102 16( 12) T-G-x(0,1)-E 13: 12.0102 22( 12) T-x(0,1)-G-E 14: 11.5102 19( 12) A-x(1,2)-L-x(2,3)-L 15: 11.5102 18( 12) A-x(3,4)-G-x(2,3)-G 16: 11.5102 16( 12) A-x(0,1)-V-x(0,1)-T 17: 11.5102 21( 12) A-x(4)-A-x(0,2)-L 18: 11.5102 21( 12) A-x(3,4)-A-x(0,1)-L 19: 11.5102 19( 12) A-x(5)-L-x(0,2)-L 20: 11.5102 18( 12) L-x(3,4)-L-x(0,1)-L Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 28.9670 15( 12) G-x(0,1)-T-x(0,1)-G-E-x(4)-[NST]-x-[ADES]-[EQ]-x(3)-[ILV]-x(3)-[ATV] B 2: 28.9670 12( 12) G-x(0,1)-T-G-x(0,1)-E-x(4)-[NST]-x-[ADES]-[EQ]-x(3)-[ILV]-x(3)-[ATV] C 3: 27.8364 18( 12) V-x(0,2)-G-x(1,3)-T-[DG]-E-[AGNS]-x(3)-[ANST]-x(2)-[AE]-x(3)-[GILV] D 4: 25.2970 21( 12) T-x(0,1)-G-E-x(4)-[NST]-x-[ADES]-[EQ]-x(3)-[ILV]-x(3)-[ATV] E 5: 24.8753 12( 12) T-G-x(0,1)-E-x(4)-[NSTV]-x-[ADES]-[EQ]-x(3)-[ILV]-x(3)-[ATV] F 6: 16.6318 13( 12) I-x(2)-[ANSTV]-G-x(3)-T-x(2)-[AENS] G 7: 16.5452 16( 12) G-x(0,1)-T-G-[EGS]-[AEGNS] H 8: 15.5524 15( 12) G-[AGNTV]-x-G-x(2,3)-S-x(2)-[AEGNST] I 9: 12.0102 18( 12) G-x(2)-A-x(1,2)-A J 10: 12.0102 19( 12) G-x(2,3)-A-x-A K 11: 12.0102 14( 12) A-x(1,2)-T-P L 12: 12.0102 12( 12) P-x(0,1)-Y-Y M 13: 12.0102 15( 12) V-x(3,4)-Y-x(5)-E N 14: 11.5102 15( 12) G-x(0,1)-T-x(0,1)-G O 15: 11.5102 19( 12) A-x(1,2)-L-x(2,3)-L P 16: 11.5102 18( 12) A-x(3,4)-G-x(2,3)-G Q 17: 11.5102 16( 12) A-x(0,1)-V-x(0,1)-T R 18: 11.5102 21( 12) A-x(4)-A-x(0,2)-L S 19: 11.5102 21( 12) A-x(3,4)-A-x(0,1)-L T 20: 11.5102 19( 12) A-x(5)-L-x(0,2)-L Best patterns with alignements: fitness hits(seqs) Pattern A 1: 28.9670 15( 12) G-x(0,1)-T-x(0,1)-G-E-x(4)-[NST]-x-[ADES]-[EQ]-x(3)-[ILV]-x(3)-[ATV] Occurences: 15(12) DAP1_WHEAT : 128- 149: egviv GgTtGEghlmSwDEhimLighT vncfg DAP1_WHEAT : 129- 149: gvivg GtT-GEghlmSwDEhimLighT vncfg DAP1_WHEAT : 129- 149: gvivg G-TtGEghlmSwDEhimLighT vncfg DAP2_WHEAT : 117- 138: egviv GgTtGEghlmSwDEhimLighT vncfg DAP2_WHEAT : 118- 138: gvivg GtT-GEghlmSwDEhimLighT vncfg DAP2_WHEAT : 118- 138: gvivg G-TtGEghlmSwDEhimLighT vncfg DAPA_BACSU : 44- 64: slvva GtT-GEsptlStEEkiaLfeyT vkevn DAPA_BACSU : 44- 64: slvva G-TtGEsptlStEEkiaLfeyT vkevn DAPA_BRELA : 55- 75: slvla GtT-GEspttTaAEkleLlkaV reevg DAPA_BRELA : 55- 75: slvla G-TtGEspttTaAEkleLlkaV reevg DAPA_CORGL : 55- 75: slvla GtT-GEspttTaAEkleLlkaV reevg DAPA_CORGL : 55- 75: slvla G-TtGEspttTaAEkleLlkaV reevg DAPA_ECOLI : 43- 63: aivsv GtT-GEsatlNhDEhadVvmmT ldlad DAPA_ECOLI : 43- 63: aivsv G-TtGEsatlNhDEhadVvmmT ldlad DAPA_HAEIN : 49- 69: alvsv GtT-GEsatlSiEEnvkViekT vefak DAPA_HAEIN : 49- 69: alvsv G-TtGEsatlSiEEnvkViekT vefak DAPA_MAIZE : 120- 141: egviv GgTtGEghlmSwDEhimLighT vncfg DAPA_MAIZE : 121- 141: gvivg GtT-GEghlmSwDEhimLighT vncfg DAPA_MAIZE : 121- 141: gvivg G-TtGEghlmSwDEhimLighT vncfg MOSA_RHIME : 42- 62: glvpc GtT-GEsptlSkSEheqVveiT iktan MOSA_RHIME : 42- 62: glvpc G-TtGEsptlSkSEheqVveiT iktan NPL_ECOLI : 45- 65: glyvg GsT-GEafvqSlSEreqVleiV aeeak NPL_HAEIN : 46- 66: glyvg GsT-GEnfmlStEEkkeIfriA kdeak YJHH_ECOLI : 63- 83: glfyl G-TgGEfsqmNtAQrmaLaeeA vtivd B 2: 28.9670 12( 12) G-x(0,1)-T-G-x(0,1)-E-x(4)-[NST]-x-[ADES]-[EQ]-x(3)-[ILV]-x(3)-[ATV] Occurences: 12(12) DAP1_WHEAT : 129- 149: gvivg GtTG-EghlmSwDEhimLighT vncfg DAP2_WHEAT : 118- 138: gvivg GtTG-EghlmSwDEhimLighT vncfg DAPA_BACSU : 44- 64: slvva GtTG-EsptlStEEkiaLfeyT vkevn DAPA_BRELA : 55- 75: slvla GtTG-EspttTaAEkleLlkaV reevg DAPA_CORGL : 55- 75: slvla GtTG-EspttTaAEkleLlkaV reevg DAPA_ECOLI : 43- 63: aivsv GtTG-EsatlNhDEhadVvmmT ldlad DAPA_HAEIN : 49- 69: alvsv GtTG-EsatlSiEEnvkViekT vefak DAPA_MAIZE : 121- 141: gvivg GtTG-EghlmSwDEhimLighT vncfg MOSA_RHIME : 42- 62: glvpc GtTG-EsptlSkSEheqVveiT iktan NPL_ECOLI : 45- 65: glyvg GsTG-EafvqSlSEreqVleiV aeeak NPL_HAEIN : 46- 66: glyvg GsTG-EnfmlStEEkkeIfriA kdeak YJHH_ECOLI : 63- 83: glfyl G-TGgEfsqmNtAQrmaLaeeA vtivd C 3: 27.8364 18( 12) V-x(0,2)-G-x(1,3)-T-[DG]-E-[AGNS]-x(3)-[ANST]-x(2)-[AE]-x(3)-[GILV] Occurences: 18(12) DAP1_WHEAT : 125- 145: ggaeg VivGgt-TGEGhlmSwdEhimL ightv DAP1_WHEAT : 127- 145: aegvi Vg-Gt--TGEGhlmSwdEhimL ightv DAP1_WHEAT : 127- 145: aegvi V--Ggt-TGEGhlmSwdEhimL ightv DAP2_WHEAT : 114- 134: ggaeg VivGgt-TGEGhlmSwdEhimL ightv DAP2_WHEAT : 116- 134: aegvi Vg-Gt--TGEGhlmSwdEhimL ightv DAP2_WHEAT : 116- 134: aegvi V--Ggt-TGEGhlmSwdEhimL ightv DAPA_BACSU : 41- 60: gtdsl VvaGt--TGESptlSteEkiaL feytv DAPA_BACSU : 42- 60: tdslv Va-Gt--TGESptlSteEkiaL feytv DAPA_BRELA : 52- 71: gldsl VlaGt--TGESpttTaaEkleL lkavr DAPA_CORGL : 52- 71: gldsl VlaGt--TGESpttTaaEkleL lkavr DAPA_ECOLI : 40- 59: gtsai VsvGt--TGESatlNhdEhadV vmmtl DAPA_ECOLI : 42- 59: saivs V--Gt--TGESatlNhdEhadV vmmtl DAPA_HAEIN : 46- 65: gsnal VsvGt--TGESatlSieEnvkV iektv DAPA_HAEIN : 48- 65: nalvs V--Gt--TGESatlSieEnvkV iektv DAPA_MAIZE : 117- 137: ggaeg VivGgt-TGEGhlmSwdEhimL ightv DAPA_MAIZE : 119- 137: aegvi Vg-Gt--TGEGhlmSwdEhimL ightv DAPA_MAIZE : 119- 137: aegvi V--Ggt-TGEGhlmSwdEhimL ightv MOSA_RHIME : 39- 58: gsfgl VpcGt--TGESptlSksEheqV veiti NPL_ECOLI : 43- 61: idgly Vg-Gs--TGEAfvqSlsEreqV leiva NPL_ECOLI : 43- 61: idgly V--Ggs-TGEAfvqSlsEreqV leiva NPL_HAEIN : 44- 62: vdgly Vg-Gs--TGENfmlSteEkkeI friak NPL_HAEIN : 44- 62: vdgly V--Ggs-TGENfmlSteEkkeI friak YJHH_ECOLI : 97- 116: pvlig V--GspsTDEAvklAqhAqayG adgiv D 4: 25.2970 21( 12) T-x(0,1)-G-E-x(4)-[NST]-x-[ADES]-[EQ]-x(3)-[ILV]-x(3)-[ATV] Occurences: 21(12) DAP1_WHEAT : 130- 149: vivgg TtGEghlmSwDEhimLighT vncfg DAP1_WHEAT : 131- 149: ivggt T-GEghlmSwDEhimLighT vncfg DAP2_WHEAT : 119- 138: vivgg TtGEghlmSwDEhimLighT vncfg DAP2_WHEAT : 120- 138: ivggt T-GEghlmSwDEhimLighT vncfg DAPA_BACSU : 45- 64: lvvag TtGEsptlStEEkiaLfeyT vkevn DAPA_BACSU : 46- 64: vvagt T-GEsptlStEEkiaLfeyT vkevn DAPA_BRELA : 56- 75: lvlag TtGEspttTaAEkleLlkaV reevg DAPA_BRELA : 57- 75: vlagt T-GEspttTaAEkleLlkaV reevg DAPA_CORGL : 56- 75: lvlag TtGEspttTaAEkleLlkaV reevg DAPA_CORGL : 57- 75: vlagt T-GEspttTaAEkleLlkaV reevg DAPA_ECOLI : 44- 63: ivsvg TtGEsatlNhDEhadVvmmT ldlad DAPA_ECOLI : 45- 63: vsvgt T-GEsatlNhDEhadVvmmT ldlad DAPA_HAEIN : 50- 69: lvsvg TtGEsatlSiEEnvkViekT vefak DAPA_HAEIN : 51- 69: vsvgt T-GEsatlSiEEnvkViekT vefak DAPA_MAIZE : 122- 141: vivgg TtGEghlmSwDEhimLighT vncfg DAPA_MAIZE : 123- 141: ivggt T-GEghlmSwDEhimLighT vncfg MOSA_RHIME : 43- 62: lvpcg TtGEsptlSkSEheqVveiT iktan MOSA_RHIME : 44- 62: vpcgt T-GEsptlSkSEheqVveiT iktan NPL_ECOLI : 47- 65: yvggs T-GEafvqSlSEreqVleiV aeeak NPL_HAEIN : 48- 66: yvggs T-GEnfmlStEEkkeIfriA kdeak YJHH_ECOLI : 64- 83: lfylg TgGEfsqmNtAQrmaLaeeA vtivd E 5: 24.8753 12( 12) T-G-x(0,1)-E-x(4)-[NSTV]-x-[ADES]-[EQ]-x(3)-[ILV]-x(3)-[ATV] Occurences: 12(12) DAP1_WHEAT : 131- 149: ivggt TG-EghlmSwDEhimLighT vncfg DAP2_WHEAT : 120- 138: ivggt TG-EghlmSwDEhimLighT vncfg DAPA_BACSU : 46- 64: vvagt TG-EsptlStEEkiaLfeyT vkevn DAPA_BRELA : 57- 75: vlagt TG-EspttTaAEkleLlkaV reevg DAPA_CORGL : 57- 75: vlagt TG-EspttTaAEkleLlkaV reevg DAPA_ECOLI : 45- 63: vsvgt TG-EsatlNhDEhadVvmmT ldlad DAPA_HAEIN : 51- 69: vsvgt TG-EsatlSiEEnvkViekT vefak DAPA_MAIZE : 123- 141: ivggt TG-EghlmSwDEhimLighT vncfg MOSA_RHIME : 44- 62: vpcgt TG-EsptlSkSEheqVveiT iktan NPL_ECOLI : 47- 65: yvggs TG-EafvqSlSEreqVleiV aeeak NPL_HAEIN : 48- 66: yvggs TG-EnfmlStEEkkeIfriA kdeak YJHH_ECOLI : 64- 83: lfylg TGgEfsqmNtAQrmaLaeeA vtivd F 6: 16.6318 13( 12) I-x(2)-[ANSTV]-G-x(3)-T-x(2)-[AENS] Occurences: 13(12) DAP1_WHEAT : 160- 171: anikv IgnTGsnsTreA vhate DAP2_WHEAT : 149- 160: tnikv IgnTGsnsTreA ihase DAPA_BACSU : 75- 86: grvpv IagTGsnnTkdS ikltk DAPA_BRELA : 86- 97: drakl IagVGtnnTrtS velae DAPA_CORGL : 86- 97: drakl IagVGtnnTrtS velae DAPA_ECOLI : 74- 85: gripv IagTGanaTaeA isltq DAPA_HAEIN : 80- 91: gripi IagAGanaTseA itmtk DAPA_HAEIN : 188- 199: agknf IvlSGddaTglE aiklg DAPA_MAIZE : 152- 163: srikv IgnTGsnsTreA vhate MOSA_RHIME : 73- 84: grvpv IagAGsnsTaeA iafvr NPL_ECOLI : 76- 87: gkikl IahVGcvsTaeS qqlaa NPL_HAEIN : 245- 256: dlieg IlaNGlylTikE llkle YJHH_ECOLI : 185- 196: gikdt IdsVGhlrTmiN tvksv G 7: 16.5452 16( 12) G-x(0,1)-T-G-[EGS]-[AEGNS] Occurences: 16(12) DAP1_WHEAT : 129- 134: gvivg GtTGEG hlmsw DAP1_WHEAT : 161- 166: nikvi GnTGSN strea DAP2_WHEAT : 118- 123: gvivg GtTGEG hlmsw DAP2_WHEAT : 150- 155: nikvi GnTGSN strea DAPA_BACSU : 44- 49: slvva GtTGES ptlst DAPA_BACSU : 77- 81: vpvia G-TGSN ntkds DAPA_BRELA : 55- 60: slvla GtTGES pttta DAPA_CORGL : 55- 60: slvla GtTGES pttta DAPA_ECOLI : 43- 48: aivsv GtTGES atlnh DAPA_HAEIN : 49- 54: alvsv GtTGES atlsi DAPA_MAIZE : 121- 126: gvivg GtTGEG hlmsw DAPA_MAIZE : 153- 158: rikvi GnTGSN strea MOSA_RHIME : 42- 47: glvpc GtTGES ptlsk NPL_ECOLI : 45- 50: glyvg GsTGEA fvqsl NPL_HAEIN : 46- 51: glyvg GsTGEN fmlst YJHH_ECOLI : 63- 67: glfyl G-TGGE fsqmn H 8: 15.5524 15( 12) G-[AGNTV]-x-G-x(2,3)-S-x(2)-[AEGNST] Occurences: 15(12) DAP1_WHEAT : 161- 170: nikvi GNtGsn-StrE avhat DAP1_WHEAT : 279- 288: srwky GAtGvi-SvaS nlvpg DAP2_WHEAT : 150- 159: nikvi GNtGsn-StrE aihas DAP2_WHEAT : 268- 277: srwky GAtGvi-SvtS nlvpg DAPA_BACSU : 200- 209: pilsv GGrGvv-SvaS hiagt DAPA_BRELA : 208- 217: vwlal GGsGfi-SviG haapt DAPA_CORGL : 208- 217: vwlal GGsGfi-SviG haapt DAPA_ECOLI : 198- 207: dfmql GGhGvi-SvtT nvaar DAPA_HAEIN : 204- 213: eaikl GAeGvi-SvtN niaak DAPA_MAIZE : 153- 162: rikvi GNtGsn-StrE avhat DAPA_MAIZE : 271- 280: skwkh GAtGvi-SvtS nlvpg MOSA_RHIME : 198- 207: gymah GGhGci-SvtA nvapa NPL_ECOLI : 200- 210: sglla GAdGgigStyN imgwr NPL_HAEIN : 200- 210: paasl GVdGaigStfN vngvr YJHH_ECOLI : 63- 72: glfyl GTgGef-SqmN taqrm I 9: 12.0102 18( 12) G-x(2)-A-x(1,2)-A Occurences: 18(12) DAP1_WHEAT : 57- 62: srvsk GkfAv-A avtld DAP1_WHEAT : 57- 63: srvsk GkfAvaA vtldd DAP2_WHEAT : 15- 21: pgvrl GwkApgA laspp DAPA_BACSU : 226- 231: knytn GqtAn-A alihq DAPA_BACSU : 226- 232: knytn GqtAnaA lihqk DAPA_BRELA : 132- 137: llahf GaiAa-A tevpi DAPA_BRELA : 217- 223: fisvi GhaAptA lrely DAPA_CORGL : 132- 137: llahf GaiAa-A tevpi DAPA_CORGL : 217- 223: fisvi GhaAptA lrely DAPA_ECOLI : 76- 81: ipvia GtgAn-A taeai DAPA_ECOLI : 78- 83: viagt GanAt-A eaisl DAPA_ECOLI : 186- 191: fvlls GddAs-A ldfmq DAPA_HAEIN : 82- 87: ipiia GagAn-A tseai DAPA_MAIZE : 19- 24: tpvsn GgaAt-A spssp MOSA_RHIME : 224- 229: qacln GdfAa-A lklqd NPL_ECOLI : 98- 104: sakry GfdAvsA vtpfy NPL_ECOLI : 196- 201: eifas GllAg-A dggig NPL_HAEIN : 226- 231: eltka GklAe-A leiqh YJHH_ECOLI : 223- 229: tmllg GdgAitA sanfa YJHH_ECOLI : 248- 253: rawre GdlAt-A atlnk YJHH_ECOLI : 248- 254: rawre GdlAtaA tlnkk J 10: 12.0102 19( 12) G-x(2,3)-A-x-A Occurences: 19(12) DAP1_WHEAT : 57- 62: srvsk Gkf-AvA avtld DAP1_WHEAT : 326- 332: epnpi GlntAlA qlgvv DAP2_WHEAT : 46- 52: hrvgr GkfsAaA ittdd DAP2_WHEAT : 315- 321: epnpi GlntAlA qlgvv DAPA_BACSU : 226- 231: knytn Gqt-AnA alihq DAPA_BRELA : 132- 137: llahf Gai-AaA tevpi DAPA_BRELA : 258- 264: qgrlg GvslAkA alrlq DAPA_CORGL : 132- 137: llahf Gai-AaA tevpi DAPA_CORGL : 258- 264: qgrlg GvslAkA asrlq DAPA_ECOLI : 76- 81: ipvia Gtg-AnA taeai DAPA_ECOLI : 78- 83: viagt Gan-AtA eaisl DAPA_ECOLI : 186- 191: fvlls Gdd-AsA ldfmq DAPA_HAEIN : 82- 87: ipiia Gag-AnA tseai DAPA_MAIZE : 19- 24: tpvsn Gga-AtA spssp MOSA_RHIME : 224- 229: qacln Gdf-AaA lklqd NPL_ECOLI : 196- 201: eifas Gll-AgA dggig NPL_HAEIN : 226- 231: eltka Gkl-AeA leiqh YJHH_ECOLI : 225- 231: llggd GaitAsA nfape YJHH_ECOLI : 248- 253: rawre Gdl-AtA atlnk K 11: 12.0102 14( 12) A-x(1,2)-T-P Occurences: 14(12) DAP1_WHEAT : 94- 98: lrlit AvkTP ylpdg DAP2_WHEAT : 83- 87: lrlit AvkTP ylpdg DAPA_BACSU : 9- 13: gnvst AmiTP fdnkg DAPA_BACSU : 177- 180: itkii Ae-TP edfyv DAPA_BRELA : 20- 24: gtvgv AmvTP ftesg DAPA_CORGL : 20- 24: gtvgv AmvTP ftesg DAPA_ECOLI : 8- 12: tgsiv AivTP mdekg DAPA_HAEIN : 14- 18: sgsiv AlvTP mnhyg DAPA_MAIZE : 86- 90: lrlit AvkTP ylpdg MOSA_RHIME : 8- 12: egsit AlvTP faddr NPL_ECOLI : 10- 14: rgvma AllTP fdqqq NPL_ECOLI : 104- 107: fdavs Av-TP fyypf NPL_HAEIN : 105- 108: ydcls Av-TP fyykf YJHH_ECOLI : 268- 272: lpaiy AleTP fvsli L 12: 12.0102 12( 12) P-x(0,1)-Y-Y Occurences: 12(12) DAP1_WHEAT : 191- 193: alhvn P-YY gktst DAP2_WHEAT : 180- 182: alhvn P-YY gktst DAPA_BACSU : 106- 108: vmlvt P-YY nkpsq DAPA_BRELA : 117- 119: llvvt P-YY skpsq DAPA_CORGL : 117- 119: llvvt P-YY skpsq DAPA_ECOLI : 105- 107: cltvt P-YY nrpsq DAPA_HAEIN : 111- 113: clsvv P-YY nkptq DAPA_MAIZE : 183- 185: alhin P-YY gktsa MOSA_RHIME : 104- 106: vlivs P-YY nkptq NPL_ECOLI : 107- 110: vsavt PfYY pfsfe NPL_HAEIN : 108- 111: lsavt PfYY kfsfp YJHH_ECOLI : 125- 127: ivain P-YY wkvap M 13: 12.0102 15( 12) V-x(3,4)-Y-x(5)-E Occurences: 15(12) DAP1_WHEAT : 189- 199: haalh Vnpy-YgktstE glish DAP1_WHEAT : 340- 351: gvvrp VfrlpYtplplE krvef DAP2_WHEAT : 329- 340: gvvrp VfrrpYaplslE krtef DAPA_BACSU : 104- 114: davml Vtpy-YnkpsqE gmyqh DAPA_BRELA : 114- 125: adgll VvtpyYskpsqE gllah DAPA_BRELA : 115- 125: dgllv Vtpy-YskpsqE gllah DAPA_CORGL : 114- 125: adgll VvtpyYskpsqE gllah DAPA_CORGL : 115- 125: dgllv Vtpy-YskpsqE gllah DAPA_ECOLI : 103- 113: vgclt Vtpy-YnrpsqE glyqh DAPA_HAEIN : 109- 119: agcls Vvpy-YnkptqE gmyqh DAPA_MAIZE : 332- 343: gvarp VfrlpYvplplE kraef MOSA_RHIME : 102- 112: dgvli Vspy-YnkptqE giyqh NPL_ECOLI : 105- 115: davsa Vtpf-YypfsfE ehcdh NPL_ECOLI : 105- 116: davsa VtpfyYpfsfeE hcdhy NPL_HAEIN : 106- 117: dclsa VtpfyYkfsfpE ikhyy YJHH_ECOLI : 56- 67: linkg VdglfYlgtggE fsqmn N 14: 11.5102 15( 12) G-x(0,1)-T-x(0,1)-G Occurences: 15(12) DAP1_WHEAT : 128- 132: egviv GgTtG eghlm DAP1_WHEAT : 129- 132: gvivg GtT-G eghlm DAP1_WHEAT : 129- 132: gvivg G-TtG eghlm DAP2_WHEAT : 117- 121: egviv GgTtG eghlm DAP2_WHEAT : 118- 121: gvivg GtT-G eghlm DAP2_WHEAT : 118- 121: gvivg G-TtG eghlm DAPA_BACSU : 44- 47: slvva GtT-G esptl DAPA_BACSU : 44- 47: slvva G-TtG esptl DAPA_BRELA : 55- 58: slvla GtT-G esptt DAPA_BRELA : 55- 58: slvla G-TtG esptt DAPA_CORGL : 55- 58: slvla GtT-G esptt DAPA_CORGL : 55- 58: slvla G-TtG esptt DAPA_ECOLI : 43- 46: aivsv GtT-G esatl DAPA_ECOLI : 43- 46: aivsv G-TtG esatl DAPA_HAEIN : 49- 52: alvsv GtT-G esatl DAPA_HAEIN : 49- 52: alvsv G-TtG esatl DAPA_MAIZE : 120- 124: egviv GgTtG eghlm DAPA_MAIZE : 121- 124: gvivg GtT-G eghlm DAPA_MAIZE : 121- 124: gvivg G-TtG eghlm MOSA_RHIME : 42- 45: glvpc GtT-G esptl MOSA_RHIME : 42- 45: glvpc G-TtG esptl NPL_ECOLI : 45- 48: glyvg GsT-G eafvq NPL_HAEIN : 46- 49: glyvg GsT-G enfml YJHH_ECOLI : 63- 66: glfyl G-TgG efsqm O 15: 11.5102 19( 12) A-x(1,2)-L-x(2,3)-L Occurences: 19(12) DAP1_WHEAT : 63- 70: kfava AvtLddyL pmrst DAP1_WHEAT : 287- 294: gvisv AsnLvpgL mhslm DAP1_WHEAT : 305- 311: fegen Aa-LnekL lplmk DAP2_WHEAT : 294- 300: fegen Aa-LnekL lplmk DAPA_BACSU : 191- 197: ysgdd AltLpi-L svggr DAPA_BACSU : 257- 263: apvkt AlqLrg-L dvgsv DAPA_BRELA : 66- 72: pttta AekLel-L kavre DAPA_BRELA : 244- 249: arein Ak-Lsp-L vaaqg DAPA_CORGL : 66- 72: pttta AekLel-L kavre DAPA_CORGL : 244- 249: arein Ak-Lsp-L vaaqg DAPA_ECOLI : 22- 27: gnvcr As-Lkk-L idyhv DAPA_HAEIN : 240- 245: aeein Ar-Lmr-L hhdlf DAPA_MAIZE : 55- 62: kvsla AitLddyL pmrst DAPA_MAIZE : 297- 303: ykgen At-LnekL splmk MOSA_RHIME : 229- 236: gdfaa AlkLqdrL mplhr NPL_ECOLI : 24- 29: qaldk As-Lrr-L vqfni NPL_HAEIN : 225- 232: feltk AgkLaeaL eiqhv YJHH_ECOLI : 253- 260: gdlat AatLnkkL lqlpa YJHH_ECOLI : 254- 260: dlata At-LnkkL lqlpa P 16: 11.5102 18( 12) A-x(3,4)-G-x(2,3)-G Occurences: 18(12) DAP1_WHEAT : 174- 182: reavh Ateq-GfavG mhaal DAP2_WHEAT : 163- 171: reaih Aseq-GfavG mhaal DAPA_BACSU : 257- 266: apvkt AlqlrGldvG svrlp DAPA_BRELA : 103- 111: velae AaasaGad-G llvvt DAPA_BRELA : 104- 111: elaea Aasa-Gad-G llvvt DAPA_BRELA : 265- 274: slaka AlrlqGinvG dprlp DAPA_CORGL : 103- 111: velae AaasaGad-G llvvt DAPA_CORGL : 104- 111: elaea Aasa-Gad-G llvvt DAPA_CORGL : 265- 274: slaka AsrlqGinvG dprlp DAPA_ECOLI : 38- 46: asgts AivsvGtt-G esatl DAPA_HAEIN : 44- 52: eagsn AlvsvGtt-G esatl DAPA_HAEIN : 200- 207: atgle Aikl-Gae-G visvt DAPA_MAIZE : 166- 174: reavh Ateq-GfavG mhaal MOSA_RHIME : 91- 98: afvrh Aqna-Gad-G vlivs MOSA_RHIME : 255- 264: agaky AlqrlGrmrG dlrlp NPL_ECOLI : 199- 206: asgll Agad-Ggi-G styni NPL_HAEIN : 196- 203: emmlp Aasl-Gvd-G aigst YJHH_ECOLI : 112- 119: klaqh Aqay-Gad-G ivain Q 17: 11.5102 16( 12) A-x(0,1)-V-x(0,1)-T Occurences: 16(12) DAP1_WHEAT : 62- 65: gkfav AaV-T lddyl DAP1_WHEAT : 63- 65: kfava A-V-T lddyl DAP1_WHEAT : 94- 97: lrlit A-VkT pylpd DAP2_WHEAT : 83- 86: lrlit A-VkT pylpd DAPA_BACSU : 252- 256: kapnp ApVkT alqlr DAPA_BRELA : 20- 23: gtvgv AmV-T pftes DAPA_BRELA : 87- 91: rakli AgVgT nntrt DAPA_CORGL : 20- 23: gtvgv AmV-T pftes DAPA_CORGL : 87- 91: rakli AgVgT nntrt DAPA_ECOLI : 8- 11: tgsiv AiV-T pmdek DAPA_HAEIN : 14- 17: sgsiv AlV-T pmnhy DAPA_MAIZE : 86- 89: lrlit A-VkT pylpd MOSA_RHIME : 8- 11: egsit AlV-T pfadd NPL_ECOLI : 104- 106: fdavs A-V-T pfyyp NPL_HAEIN : 105- 107: ydcls A-V-T pfyyk YJHH_ECOLI : 83- 85: alaee A-V-T ivdgr R 18: 11.5102 21( 12) A-x(4)-A-x(0,2)-L Occurences: 21(12) DAP1_WHEAT : 180- 187: teqgf AvgmhAa-L hvnpy DAP2_WHEAT : 169- 176: seqgf AvgmhAa-L hvnpy DAPA_BACSU : 252- 258: kapnp ApvktA--L qlrgl DAPA_BACSU : 252- 260: kapnp ApvktAlqL rgldv DAPA_BRELA : 35- 43: didia AgrevAayL vdkgl DAPA_BRELA : 104- 112: elaea AasagAdgL lvvtp DAPA_BRELA : 239- 246: gdlvr AreinAk-L splva DAPA_CORGL : 35- 43: didia AgrevAayL vdkgl DAPA_CORGL : 104- 112: elaea AasagAdgL lvvtp DAPA_CORGL : 239- 246: gdlvr AreinAk-L splva DAPA_ECOLI : 284- 291: retvr AalkhAg-L l DAPA_ECOLI : 284- 292: retvr AalkhAglL DAPA_HAEIN : 195- 203: lsgdd AtgleAikL gaegv DAPA_HAEIN : 235- 242: gdfdk AeeinAr-L mrlhh DAPA_MAIZE : 172- 179: teqgf AvgmhAa-L hinpy MOSA_RHIME : 207- 213: cisvt AnvapA--L cadfq MOSA_RHIME : 215- 222: apalc AdfqqAc-L ngdfa MOSA_RHIME : 250- 256: letnp AgakyA--L qrlgr NPL_ECOLI : 123- 131: cdhyr AiidsAdgL pmvvy NPL_HAEIN : 70- 76: iakde AkdqiA--L iaqvg NPL_HAEIN : 284- 292: eqlak AkdlkAkfL s YJHH_ECOLI : 43- 51: tldkk AmrevAdfL inkgv YJHH_ECOLI : 229- 237: dgait AsanfApeL svgiy S 19: 11.5102 21( 12) A-x(3,4)-A-x(0,1)-L Occurences: 21(12) DAP1_WHEAT : 180- 187: teqgf AvgmhAaL hvnpy DAP2_WHEAT : 169- 176: seqgf AvgmhAaL hvnpy DAP2_WHEAT : 219- 224: qdipp Avie-A-L stypn DAPA_BACSU : 252- 258: kapnp ApvktA-L qlrgl DAPA_BRELA : 219- 224: svigh Aapt-A-L relyt DAPA_BRELA : 239- 246: gdlvr AreinAkL splva DAPA_CORGL : 219- 224: svigh Aapt-A-L relyt DAPA_CORGL : 239- 246: gdlvr AreinAkL splva DAPA_ECOLI : 284- 291: retvr AalkhAgL l DAPA_ECOLI : 285- 291: etvra Alkh-AgL l DAPA_HAEIN : 40- 45: ehhie Agsn-A-L vsvgt DAPA_HAEIN : 235- 242: gdfdk AeeinArL mrlhh DAPA_HAEIN : 291- 297: pkvgd Alki-AgL l DAPA_MAIZE : 172- 179: teqgf AvgmhAaL hinpy DAPA_MAIZE : 318- 323: qpnpi Alnt-A-L aqlgv MOSA_RHIME : 207- 213: cisvt AnvapA-L cadfq MOSA_RHIME : 215- 222: apalc AdfqqAcL ngdfa MOSA_RHIME : 250- 256: letnp AgakyA-L qrlgr NPL_ECOLI : 20- 26: fdqqq Aldk-AsL rrlvq NPL_HAEIN : 70- 76: iakde AkdqiA-L iaqvg YJHH_ECOLI : 74- 79: sqmnt Aqrm-A-L aeeav T 20: 11.5102 19( 12) A-x(5)-L-x(0,2)-L Occurences: 19(12) DAP1_WHEAT : 305- 312: fegen AalnekL--L plmkw DAP1_WHEAT : 305- 314: fegen AalnekLlpL mkwlf DAP1_WHEAT : 306- 314: egena AlneklLp-L mkwlf DAP2_WHEAT : 294- 301: fegen AalnekL--L plmkw DAP2_WHEAT : 294- 303: fegen AalnekLlpL mkwlf DAP2_WHEAT : 295- 303: egena AlneklLp-L mkwlf DAPA_BACSU : 232- 239: qtana AlihqkL--L pimke DAPA_BACSU : 252- 260: kapnp ApvktaLq-L rgldv DAPA_BRELA : 65- 72: spttt AaekleL--L kavre DAPA_BRELA : 282- 291: rlpim ApneqeLeaL redmk DAPA_CORGL : 65- 72: spttt AaekleL--L kavre DAPA_CORGL : 282- 291: rlpim ApneqeLeaL redmk DAPA_ECOLI : 285- 292: etvra AlkhagL--L DAPA_HAEIN : 91- 98: natse AitmtkL--L rdsgv DAPA_HAEIN : 291- 298: pkvgd AlkiagL--L DAPA_MAIZE : 297- 306: ykgen AtlnekLspL mkwlf MOSA_RHIME : 250- 259: letnp AgakyaLqrL grmrg NPL_ECOLI : 20- 29: fdqqq AldkasLrrL vqfni NPL_ECOLI : 140- 148: vynip AlsgvkLt-L dqint NPL_HAEIN : 167- 176: gvkft AgdfylLerL kkayp YJHH_ECOLI : 254- 261: dlata AtlnkkL--L qlpai YJHH_ECOLI : 254- 263: dlata AtlnkkLlqL paiya Number of patterns evaluated by Pratt:4026 Total running time: 4 seconds