------------------------------------------------------------ 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 HOMOSER_DHGENASE 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 HOMOSER_DHGENASE.pratt2 OP: PROSITE Pattern Format on ON: max number patterns 20 OA: max number Alignments 20 M: Print Patterns in sequences off Sequence lengths: AK1H_ECOLI 820 AK1H_SERMA 819 AK2H_ECOLI 809 AKH_DAUCA 921 AKH_HAEIN 815 DHOM_BACSU 433 DHOM_CORGL 445 DHOM_METGL 435 DHOM_MYCLE 441 DHOM_PSEAE 439 DHOM_YEAST 359 DHON_METGL 412 Pratt run started at Thu Feb 6 19:55:43 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 15.6802 14( 12) A-x(0,1)-G-x(3,4)-A-x(5)-D 2: 15.6802 15( 12) G-x-G-x(1,2)-G-x(3,4)-T 3: 15.6802 14( 12) G-x(1,2)-G-x-G-x(2,3)-T 4: 15.6802 12( 12) G-x(0,1)-A-G-x(1,2)-P 5: 15.1802 16( 12) A-x(0,2)-G-x(3,4)-A-x(5)-D 6: 12.5102 23( 12) G-A-G 7: 12.5102 14( 12) D-x(2)-G-x-D 8: 12.5102 21( 12) A-x(2)-A-G 9: 12.5102 12( 12) K-x(2)-I-L 10: 12.5102 20( 12) L-A-x-A 11: 12.5102 28( 12) A-x(5)-L-A 12: 12.0102 16( 12) A-x(2)-L-x(0,1)-G 13: 12.0102 15( 12) A-x(2)-V-x(1,2)-D 14: 12.0102 22( 12) V-x(2)-A-x(2,3)-L 15: 12.0102 29( 12) V-x(2,3)-A-x(3)-G 16: 12.0102 23( 12) A-x(2)-A-x(0,1)-G 17: 12.0102 34( 12) A-x(3)-A-x(1,2)-L 18: 12.0102 39( 12) A-x(2,3)-A-G 19: 12.0102 46( 12) A-A-x(2,3)-A 20: 12.0102 22( 12) G-x(2,3)-V-T Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 31.7635 12( 12) G-A-G-x(2)-[PV]-[ST]-[AS]-x-[AGSV]-[ILV]-x-[ADGS]-x-[ILV] B 2: 29.6322 12( 12) G-x(1,2)-G-[AG]-G-x(2,3)-T-[AV]-x-[AGST]-x(2)-[AGQS]-[DE] C 3: 26.4621 12( 12) G-x-G-x(1,2)-G-x(3,4)-T-[AV]-x-[AGST]-x(2)-[AGQS]-[DE] D 4: 22.4055 12( 12) G-x(0,1)-A-G-x(1,2)-P-x(4)-[ALV]-x(3)-[AILV]-x(2)-[ADGTV] E 5: 20.0732 12( 12) A-x(0,1)-G-x(3,4)-A-x-[AGST]-x(2)-[AGPS]-D F 6: 19.5732 14( 12) A-x(0,2)-G-x(3,4)-A-x-[AGST]-x(2)-[AGPS]-D G 7: 17.8830 13( 12) A-x(0,1)-G-x(3,4)-A-x(4)-[AGPS]-D H 8: 15.6960 12( 12) K-x(2)-I-L-[AV] I 9: 15.6802 14( 12) A-x(0,1)-G-x(3,4)-A-x(5)-D J 10: 15.1091 12( 12) D-x(2)-G-x-D-[AGV] K 11: 14.7514 19( 12) A-x(4)-[AGIL]-L-A L 12: 14.6136 13( 12) V-x-[DST]-A-x(2,3)-L M 13: 13.8776 14( 12) A-[AGSTV]-x-V-x(1,2)-D N 14: 12.5102 21( 12) A-x(2)-A-G O 15: 12.5102 20( 12) L-A-x-A P 16: 12.0102 16( 12) A-x(2)-L-x(0,1)-G Q 17: 12.0102 29( 12) V-x(2,3)-A-x(3)-G R 18: 12.0102 23( 12) A-x(2)-A-x(0,1)-G S 19: 12.0102 34( 12) A-x(3)-A-x(1,2)-L T 20: 12.0102 39( 12) A-x(2,3)-A-G Best patterns with alignements: fitness hits(seqs) Pattern A 1: 31.7635 12( 12) G-A-G-x(2)-[PV]-[ST]-[AS]-x-[AGSV]-[ILV]-x-[ADGS]-x-[ILV] Occurences: 12(12) AK1H_ECOLI : 796- 810: vlrgy GAGndVTAaGVfAdL lrtls AK1H_SERMA : 795- 809: vlrgy GAGndVTAaGVfAdL lrtls AK2H_ECOLI : 788- 802: virgp GAGrdVTAgAIqSdI nrlaq AKH_DAUCA : 896- 910: iirgp GAGaeVTAgGVfSdI lrlas AKH_HAEIN : 795- 809: llrgy GAGnaVTAaGIfAdI lrtlq DHOM_BACSU : 300- 314: mfygp GAGsmPTAtSVvSdL vavmk DHOM_CORGL : 319- 333: mfygn GAGgaPTAsAVlGdV vgaar DHOM_METGL : 145- 159: kavaa GAGrqPSSrVLrAiI ngttn DHOM_MYCLE : 307- 321: mfygq GAGgaPTAsAVtGdL vmaar DHOM_PSEAE : 303- 317: lyyga GAGmePTAsSVvAdL vdvvr DHOM_YEAST : 338- 352: viqga GAGaaVTAaGVlGdV ikiaq DHON_METGL : 281- 295: lyyga GAGaePTAsAVaDlV dgtdr B 2: 29.6322 12( 12) G-x(1,2)-G-[AG]-G-x(2,3)-T-[AV]-x-[AGST]-x(2)-[AGQS]-[DE] Occurences: 12(12) AK1H_ECOLI : 794- 809: plvlr Gy-GAGndvTAaGvfAD llrtl AK1H_SERMA : 793- 808: plvlr Gy-GAGndvTAaGvfAD llrtl AK2H_ECOLI : 786- 801: plvir Gp-GAGrdvTAgAiqSD inrla AKH_DAUCA : 894- 909: ppiir Gp-GAGaevTAgGvfSD ilrla AKH_HAEIN : 793- 808: plllr Gy-GAGnavTAaGifAD ilrtl DHOM_BACSU : 298- 313: etmfy Gp-GAGsmpTAtSvvSD lvavm DHOM_CORGL : 317- 332: rlmfy Gn-GAGgapTAsAvlGD vvgaa DHOM_METGL : 12- 27: gllgi GtvGGGty-TVlTrnQE gnrap DHOM_MYCLE : 305- 320: rlmfy Gq-GAGgapTAsAvtGD lvmaa DHOM_PSEAE : 301- 316: stlyy Ga-GAGmepTAsSvvAD lvdvv DHOM_YEAST : 336- 351: pvviq Ga-GAGaavTAaGvlGD vikia DHON_METGL : 12- 27: gllgi GtvGGGty-TVlTrnQE eiarr C 3: 26.4621 12( 12) G-x-G-x(1,2)-G-x(3,4)-T-[AV]-x-[AGST]-x(2)-[AGQS]-[DE] Occurences: 12(12) AK1H_ECOLI : 794- 809: plvlr GyGa-Gndv-TAaGvfAD llrtl AK1H_SERMA : 793- 808: plvlr GyGa-Gndv-TAaGvfAD llrtl AK2H_ECOLI : 786- 801: plvir GpGa-Grdv-TAgAiqSD inrla AKH_DAUCA : 894- 909: ppiir GpGa-Gaev-TAgGvfSD ilrla AKH_HAEIN : 793- 808: plllr GyGa-Gnav-TAaGifAD ilrtl DHOM_BACSU : 298- 313: etmfy GpGa-Gsmp-TAtSvvSD lvavm DHOM_CORGL : 317- 332: rlmfy GnGa-Ggap-TAsAvlGD vvgaa DHOM_METGL : 10- 27: nvgll GiGtvGggtyTVlTrnQE gnrap DHOM_MYCLE : 305- 320: rlmfy GqGa-Ggap-TAsAvtGD lvmaa DHOM_PSEAE : 301- 316: stlyy GaGa-Gmep-TAsSvvAD lvdvv DHOM_YEAST : 336- 351: pvviq GaGa-Gaav-TAaGvlGD vikia DHON_METGL : 10- 27: nvgll GiGtvGggtyTVlTrnQE eiarr D 4: 22.4055 12( 12) G-x(0,1)-A-G-x(1,2)-P-x(4)-[ALV]-x(3)-[AILV]-x(2)-[ADGTV] Occurences: 12(12) AK1H_ECOLI : 610- 626: ydinv G-AGl-PvienLqnlLnaG delmk AK1H_SERMA : 610- 626: ydtnv G-AGl-PvienLqnlLnaG delvr AK2H_ECOLI : 603- 619: ynatv G-AGl-PinhtVrdlIdsG dtils AKH_DAUCA : 421- 438: nvegt GmAGv-PgtatAifgAvkD vganv AKH_HAEIN : 610- 626: yetnv G-AGl-PvienLqnlLaaG deley DHOM_BACSU : 300- 317: mfygp G-AGsmPtatsVvsdLvaV mknmr DHOM_CORGL : 319- 336: mfygn G-AGgaPtasaVlgdVvgA arnkv DHOM_METGL : 145- 162: kavaa G-AGrqPssrvLraiIngT tnfil DHOM_MYCLE : 307- 324: mfygq G-AGgaPtasaVtgdLvmA arnrv DHOM_PSEAE : 303- 320: lyyga G-AGmePtassVvadLvdV vramt DHOM_YEAST : 147- 163: heatv G-AGl-PiisfLreiIqtG devek DHON_METGL : 281- 298: lyyga G-AGaePtasaVadlVdgT drgis E 5: 20.0732 12( 12) A-x(0,1)-G-x(3,4)-A-x-[AGST]-x(2)-[AGPS]-D Occurences: 12(12) AK1H_ECOLI : 797- 809: lrgyg A-GndvtAaGvfAD llrtl AK1H_SERMA : 796- 808: lrgyg A-GndvtAaGvfAD llrtl AK2H_ECOLI : 789- 801: irgpg A-GrdvtAgAiqSD inrla AKH_DAUCA : 897- 909: irgpg A-GaevtAgGvfSD ilrla AKH_HAEIN : 796- 808: lrgyg A-GnavtAaGifAD ilrtl DHOM_BACSU : 301- 313: fygpg A-GsmptAtSvvSD lvavm DHOM_CORGL : 320- 332: fygng AgGapt-AsAvlGD vvgaa DHOM_CORGL : 320- 332: fygng A-GgaptAsAvlGD vvgaa DHOM_METGL : 255- 267: apsap ArGvel-ArApdPD pretp DHOM_MYCLE : 308- 320: fygqg AgGapt-AsAvtGD lvmaa DHOM_MYCLE : 308- 320: fygqg A-GgaptAsAvtGD lvmaa DHOM_PSEAE : 304- 316: yygag A-GmeptAsSvvAD lvdvv DHOM_YEAST : 339- 351: iqgag A-GaavtAaGvlGD vikia DHON_METGL : 33- 44: eiarr A-Grpi-AiTrvAD rnlel F 6: 19.5732 14( 12) A-x(0,2)-G-x(3,4)-A-x-[AGST]-x(2)-[AGPS]-D Occurences: 14(12) AK1H_ECOLI : 797- 809: lrgyg A--GndvtAaGvfAD llrtl AK1H_SERMA : 796- 808: lrgyg A--GndvtAaGvfAD llrtl AK2H_ECOLI : 789- 801: irgpg A--GrdvtAgAiqSD inrla AKH_DAUCA : 897- 909: irgpg A--GaevtAgGvfSD ilrla AKH_HAEIN : 796- 808: lrgyg A--GnavtAaGifAD ilrtl DHOM_BACSU : 301- 313: fygpg A--GsmptAtSvvSD lvavm DHOM_CORGL : 320- 332: fygng Ag-Gapt-AsAvlGD vvgaa DHOM_CORGL : 320- 332: fygng A--GgaptAsAvlGD vvgaa DHOM_METGL : 255- 267: apsap Ar-Gvel-ArApdPD pretp DHOM_MYCLE : 308- 320: fygqg Ag-Gapt-AsAvtGD lvmaa DHOM_MYCLE : 308- 320: fygqg A--GgaptAsAvtGD lvmaa DHOM_PSEAE : 302- 316: tlyyg AgaGmeptAsSvvAD lvdvv DHOM_PSEAE : 304- 316: yygag A--GmeptAsSvvAD lvdvv DHOM_YEAST : 337- 351: vviqg AgaGaavtAaGvlGD vikia DHOM_YEAST : 339- 351: iqgag A--GaavtAaGvlGD vikia DHON_METGL : 33- 44: eiarr A--Grpi-AiTrvAD rnlel G 7: 17.8830 13( 12) A-x(0,1)-G-x(3,4)-A-x(4)-[AGPS]-D Occurences: 13(12) AK1H_ECOLI : 797- 809: lrgyg A-GndvtAagvfAD llrtl AK1H_SERMA : 796- 808: lrgyg A-GndvtAagvfAD llrtl AK2H_ECOLI : 789- 801: irgpg A-GrdvtAgaiqSD inrla AKH_DAUCA : 897- 909: irgpg A-GaevtAggvfSD ilrla AKH_HAEIN : 796- 808: lrgyg A-GnavtAagifAD ilrtl DHOM_BACSU : 301- 313: fygpg A-GsmptAtsvvSD lvavm DHOM_CORGL : 320- 332: fygng AgGapt-AsavlGD vvgaa DHOM_CORGL : 320- 332: fygng A-GgaptAsavlGD vvgaa DHOM_CORGL : 346- 359: vhggr ApGestyAnlpiAD fgett DHOM_METGL : 255- 267: apsap ArGvel-ArapdPD pretp DHOM_MYCLE : 308- 320: fygqg AgGapt-AsavtGD lvmaa DHOM_MYCLE : 308- 320: fygqg A-GgaptAsavtGD lvmaa DHOM_PSEAE : 304- 316: yygag A-GmeptAssvvAD lvdvv DHOM_YEAST : 339- 351: iqgag A-GaavtAagvlGD vikia DHON_METGL : 33- 44: eiarr A-Grpi-AitrvAD rnlel H 8: 15.6960 12( 12) K-x(2)-I-L-[AV] Occurences: 12(12) AK1H_ECOLI : 682- 687: mdvar KllILA retgr AK1H_SERMA : 682- 687: mdvar KllILA reagy AK2H_ECOLI : 675- 680: kdvmr KlvILA reagy AKH_DAUCA : 781- 786: tdvar KviILA rgsgl AKH_HAEIN : 682- 687: qdvar KllILA reagi DHOM_BACSU : 205- 210: ldaar KmaILA rlgfs DHOM_CORGL : 219- 224: hdaas KaaILA siafh DHOM_METGL : 204- 209: awtah KlmILA aigfg DHOM_MYCLE : 207- 212: hdaaa KaaILA siafh DHOM_PSEAE : 209- 214: idaat KltILA smlrh DHOM_YEAST : 85- 90: lktsp KpvILV dntss DHON_METGL : 205- 210: idaah KlmILA amlwl I 9: 15.6802 14( 12) A-x(0,1)-G-x(3,4)-A-x(5)-D Occurences: 14(12) AK1H_ECOLI : 797- 809: lrgyg A-GndvtAagvfaD llrtl AK1H_SERMA : 796- 808: lrgyg A-GndvtAagvfaD llrtl AK2H_ECOLI : 789- 801: irgpg A-GrdvtAgaiqsD inrla AKH_DAUCA : 897- 909: irgpg A-GaevtAggvfsD ilrla AKH_HAEIN : 111- 123: eeirq A-GkvedAvkatiD crgek AKH_HAEIN : 796- 808: lrgyg A-GnavtAagifaD ilrtl DHOM_BACSU : 301- 313: fygpg A-GsmptAtsvvsD lvavm DHOM_CORGL : 320- 332: fygng AgGapt-AsavlgD vvgaa DHOM_CORGL : 320- 332: fygng A-GgaptAsavlgD vvgaa DHOM_CORGL : 346- 359: vhggr ApGestyAnlpiaD fgett DHOM_METGL : 255- 267: apsap ArGvel-ArapdpD pretp DHOM_MYCLE : 308- 320: fygqg AgGapt-AsavtgD lvmaa DHOM_MYCLE : 308- 320: fygqg A-GgaptAsavtgD lvmaa DHOM_PSEAE : 304- 316: yygag A-GmeptAssvvaD lvdvv DHOM_YEAST : 339- 351: iqgag A-GaavtAagvlgD vikia DHON_METGL : 33- 44: eiarr A-Grpi-AitrvaD rnlel J 10: 15.1091 12( 12) D-x(2)-G-x-D-[AGV] Occurences: 12(12) AK1H_ECOLI : 673- 679: pdprd DlsGmDV arkll AK1H_SERMA : 673- 679: pdprd DlsGmDV arkll AK2H_ECOLI : 666- 672: pdprd DlsGkDV mrklv AKH_DAUCA : 772- 778: pdprd DlaGtDV arkvi AKH_HAEIN : 673- 679: pdprd DlsGqDV arkll DHOM_BACSU : 196- 202: adpts DveGlDA arkma DHOM_CORGL : 210- 216: adpta DveGhDA askaa DHOM_METGL : 358- 364: rlrav DkpGrDG hvtri DHOM_MYCLE : 198- 204: adpta DveGhDA aakaa DHOM_PSEAE : 200- 206: rsptf DveGiDA atklt DHOM_YEAST : 214- 220: pdprd DlnGlDV arkvt DHON_METGL : 196- 202: adptf DveGiDA ahklm K 11: 14.7514 19( 12) A-x(4)-[AGIL]-L-A Occurences: 19(12) AK1H_ECOLI : 72- 79: aerif AelltGLA aaqpg AK1H_ECOLI : 414- 421: lrgis AkffaALA ranin AK1H_ECOLI : 680- 687: sgmdv ArkllILA retgr AK1H_SERMA : 72- 79: aerif AdllsGLA qalpg AK1H_SERMA : 414- 421: lrgis ArffsALA ranin AK1H_SERMA : 680- 687: sgmdv ArkllILA reagy AK2H_ECOLI : 213- 220: gsdys AtqigALA gvsrv AKH_DAUCA : 511- 518: tpgvs AtlfnALA kanin AKH_DAUCA : 779- 786: agtdv ArkviILA rgsgl AKH_HAEIN : 414- 421: akgia ArffsALA qanis AKH_HAEIN : 680- 687: sgqdv ArkllILA reagi DHOM_BACSU : 203- 210: eglda ArkmaILA rlgfs DHOM_CORGL : 217- 224: eghda AskaaILA siafh DHOM_METGL : 202- 209: srawt AhklmILA aigfg DHOM_MYCLE : 176- 183: mdstg AdydsALA garal DHOM_MYCLE : 205- 212: eghda AakaaILA siafh DHOM_PSEAE : 207- 214: egida AtkltILA smlrh DHOM_YEAST : 19- 26: gvvgs AfldqLLA mksti DHON_METGL : 203- 210: egida AhklmILA amlwl L 12: 14.6136 13( 12) V-x-[DST]-A-x(2,3)-L Occurences: 13(12) AK1H_ECOLI : 240- 246: cdprq VpDArl-L ksmsy AK1H_SERMA : 240- 246: cdprt VpDArl-L ksmsy AK2H_ECOLI : 242- 248: adprk VkDAcl-L pllrl AK2H_ECOLI : 567- 573: shgfh ViSAnk-L agasd AKH_DAUCA : 70- 77: yiaas VtTAvpsL ddsve AKH_HAEIN : 240- 246: cdprl VpDArl-L ptlsy DHOM_BACSU : 100- 107: rskkh VvTAnkdL mavyg DHOM_CORGL : 114- 121: kagks VvTAnkaL vaahs DHOM_METGL : 346- 352: faige VsSAyy-L rlrav DHOM_MYCLE : 102- 109: ehgks VvTAnkaL laast DHOM_PSEAE : 103- 110: engkh VvTAnkaL iavhg DHOM_YEAST : 254- 261: kples VkSAdefL eklsd DHON_METGL : 100- 107: engkh VvTAnkaL iacma M 13: 13.8776 14( 12) A-[AGSTV]-x-V-x(1,2)-D Occurences: 14(12) AK1H_ECOLI : 803- 809: gndvt AAgVfaD llrtl AK1H_SERMA : 802- 808: gndvt AAgVfaD llrtl AK2H_ECOLI : 349- 355: qvrpl AVgVhnD rqllq AKH_DAUCA : 903- 909: gaevt AGgVfsD ilrla AKH_HAEIN : 111- 116: eeirq AGkVe-D avkat DHOM_BACSU : 307- 313: gsmpt ATsVvsD lvavm DHOM_CORGL : 326- 332: ggapt ASaVlgD vvgaa DHOM_METGL : 282- 287: qrrhn AVlVs-D acrsh DHOM_METGL : 304- 310: acrrh ASaVvaD ivdgt DHOM_MYCLE : 314- 320: ggapt ASaVtgD lvmaa DHOM_PSEAE : 286- 292: tavmn AVmVngD avgst DHOM_PSEAE : 310- 316: gmept ASsVvaD lvdvv DHOM_YEAST : 345- 351: gaavt AAgVlgD vikia DHON_METGL : 288- 293: gaept ASaVa-D lvdgt N 14: 12.5102 21( 12) A-x(2)-A-G Occurences: 21(12) AK1H_ECOLI : 132- 136: ekmsi AimAG vlear AK1H_SERMA : 594- 598: yqqlr AaaAG shrkf AK1H_SERMA : 687- 691: kllil AreAG yklel AK2H_ECOLI : 680- 684: klvil AreAG yniep AKH_DAUCA : 478- 482: arfrq AldAG rlsqv AKH_DAUCA : 759- 763: evvse AkaAG ytepd AKH_DAUCA : 835- 839: rkred AenAG evlry AKH_HAEIN : 687- 691: kllil AreAG ielel DHOM_BACSU : 130- 134: diyfe AsvAG gipil DHOM_CORGL : 107- 111: evvla AlkAG ksvvt DHOM_CORGL : 144- 148: dlyfe AavAG aipvv DHOM_CORGL : 253- 257: adiea AqqAG htikl DHOM_CORGL : 307- 311: aifve AeaAG rlmfy DHOM_METGL : 130- 134: ivafe AavAG gipii DHOM_METGL : 141- 145: ipiik AvaAG agrqp DHOM_METGL : 143- 147: iikav AagAG rqpss DHOM_MYCLE : 132- 136: dlyfe AavAG aipvi DHOM_MYCLE : 295- 299: avvve AeaAG rlmfy DHOM_PSEAE : 133- 137: drafe AavAG gipvi DHOM_YEAST : 96- 100: dntss AyiAG fytkf DHON_METGL : 30- 34: nqeei ArrAG rpiai O 15: 12.5102 20( 12) L-A-x-A Occurences: 20(12) AK1H_ECOLI : 78- 81: elltg LAaA qpgfp AK1H_ECOLI : 390- 393: gllep LAvA erlai AK1H_ECOLI : 420- 423: kffaa LArA niniv AK1H_ECOLI : 525- 528: nwqee LAqA kepfn AK1H_SERMA : 78- 81: dllsg LAqA lpgfe AK1H_SERMA : 420- 423: rffsa LArA niniv AK1H_SERMA : 525- 528: swrda LAgA qepfn AK2H_ECOLI : 573- 576: isank LAgA sdsnk AKH_DAUCA : 517- 520: tlfna LAkA ninvr AKH_HAEIN : 420- 423: rffsa LAqA nisiv DHOM_BACSU : 116- 119: ygsel LAeA kengc DHOM_CORGL : 129- 132: ahsae LAdA aeaan DHOM_CORGL : 194- 197: dyads LAeA trlgy DHOM_METGL : 175- 178: mrekg LAfA dvlke DHOM_METGL : 260- 263: argve LArA pdpdp DHOM_MYCLE : 117- 120: astge LAqA aesah DHOM_MYCLE : 182- 185: dydsa LAgA ralgy DHOM_PSEAE : 183- 186: tfpdv LAeA qalgy DHOM_YEAST : 38- 41: ynlvl LAeA ersli DHON_METGL : 174- 177: mrekg LAfA dvlke P 16: 12.0102 16( 12) A-x(2)-L-x(0,1)-G Occurences: 16(12) AK1H_ECOLI : 72- 77: aerif AelLtG laaaq AK1H_SERMA : 72- 77: aerif AdlLsG laqal AK1H_SERMA : 79- 84: llsgl AqaLpG feydr AK2H_ECOLI : 570- 575: fhvis AnkLaG asdsn AKH_DAUCA : 914- 918: dilrl AsyL-G aps AKH_HAEIN : 215- 219: saacl AacL-G asvce DHOM_BACSU : 183- 187: evlke AqdL-G faead DHOM_CORGL : 197- 201: dslae AtrL-G yaead DHOM_METGL : 238- 242: ldiry AeeL-G yrqaa DHOM_MYCLE : 185- 189: salag AraL-G yaead DHOM_MYCLE : 241- 245: adfvs AraL-G ctikl DHOM_PSEAE : 186- 190: dvlae AqaL-G ygrgr DHOM_PSEAE : 242- 246: advny AdaL-G yrikh DHOM_YEAST : 201- 205: dvvkv AkkL-G ytepd DHOM_YEAST : 346- 350: aavta AgvL-G dviki DHON_METGL : 183- 187: dvlke AqrL-G yaead Q 17: 12.0102 29( 12) V-x(2,3)-A-x(3)-G Occurences: 29(12) AK1H_ECOLI : 733- 740: lfaar Vak-ArdeG kvlry AK1H_ECOLI : 757- 764: dgvcr Vki-AevdG ndplf AK1H_SERMA : 733- 740: efarn Van-AaeqG kvlry AK2H_ECOLI : 2- 10: s ViaqAgakG rqlhk AK2H_ECOLI : 650- 657: pftel Vdq-AwqqG ltepd AK2H_ECOLI : 677- 684: vmrkl Vil-AreaG yniep AKH_DAUCA : 755- 763: tpfse VvseAkaaG ytepd AKH_DAUCA : 756- 763: pfsev Vse-AkaaG ytepd AKH_DAUCA : 782- 790: dvark ViilArgsG lklel AKH_HAEIN : 656- 664: lslse VtalArekG ftepd AKH_HAEIN : 733- 740: efktr Vat-AkaeG kvlry DHOM_BACSU : 179- 187: spyee VlkeAqdlG faead DHOM_CORGL : 103- 111: eypre VvlaAlkaG ksvvt DHOM_CORGL : 104- 111: yprev Vla-AlkaG ksvvt DHOM_METGL : 126- 134: qkgvi VafeAavaG gipii DHOM_METGL : 154- 161: qpssr Vlr-AiinG ttnfi DHOM_MYCLE : 48- 56: lrgig VrrvAvdrG vpvdl DHOM_MYCLE : 291- 299: gafna VvveAeaaG rlmfy DHOM_MYCLE : 292- 299: afnav Vve-AeaaG rlmfy DHOM_PSEAE : 93- 100: wpiel Vlk-AienG khvvt DHOM_PSEAE : 141- 148: aggip Vik-AireG lsanr DHOM_PSEAE : 182- 190: rtfpd VlaeAqalG ygrgr DHOM_PSEAE : 239- 246: ltsad Vny-AdalG yrikh DHOM_YEAST : 10- 17: vvnva Vig-AgvvG safld DHOM_YEAST : 197- 205: vkfsd VvkvAkklG ytepd DHOM_YEAST : 198- 205: kfsdv Vkv-AkklG ytepd DHOM_YEAST : 343- 350: gagaa Vta-AgvlG dviki DHON_METGL : 90- 97: varel Vlk-AienG khvvt DHON_METGL : 179- 187: lafad VlkeAqrlG yaead R 18: 12.0102 23( 12) A-x(2)-A-x(0,1)-G Occurences: 23(12) AK1H_ECOLI : 132- 136: ekmsi AimA-G vlear AK1H_SERMA : 594- 598: yqqlr AaaA-G shrkf AK1H_SERMA : 687- 691: kllil AreA-G yklel AK2H_ECOLI : 680- 684: klvil AreA-G yniep AKH_DAUCA : 478- 482: arfrq AldA-G rlsqv AKH_DAUCA : 759- 763: evvse AkaA-G ytepd AKH_DAUCA : 835- 839: rkred AenA-G evlry AKH_HAEIN : 687- 691: kllil AreA-G ielel AKH_HAEIN : 799- 804: ygagn AvtAaG ifadi DHOM_BACSU : 130- 134: diyfe AsvA-G gipil DHOM_BACSU : 130- 135: diyfe AsvAgG ipilr DHOM_CORGL : 107- 111: evvla AlkA-G ksvvt DHOM_CORGL : 144- 148: dlyfe AavA-G aipvv DHOM_CORGL : 253- 257: adiea AqqA-G htikl DHOM_CORGL : 307- 311: aifve AeaA-G rlmfy DHOM_METGL : 130- 134: ivafe AavA-G gipii DHOM_METGL : 130- 135: ivafe AavAgG ipiik DHOM_METGL : 141- 145: ipiik AvaA-G agrqp DHOM_METGL : 143- 147: iikav AagA-G rqpss DHOM_MYCLE : 132- 136: dlyfe AavA-G aipvi DHOM_MYCLE : 295- 299: avvve AeaA-G rlmfy DHOM_PSEAE : 133- 137: drafe AavA-G gipvi DHOM_PSEAE : 133- 138: drafe AavAgG ipvik DHOM_YEAST : 96- 100: dntss AyiA-G fytkf DHOM_YEAST : 342- 347: agaga AvtAaG vlgdv DHON_METGL : 30- 34: nqeei ArrA-G rpiai S 19: 12.0102 34( 12) A-x(3)-A-x(1,2)-L Occurences: 34(12) AK1H_ECOLI : 211- 218: gsdys AavlAacL radcc AK1H_ECOLI : 212- 218: sdysa AvlaAc-L radcc AK1H_ECOLI : 414- 420: lrgis AkffAa-L arani AK1H_ECOLI : 504- 510: rvcgv AnskAl-L tnvhg AK1H_ECOLI : 561- 568: ssqav AdqyAdfL regfh AK1H_ECOLI : 716- 722: aegdv AafmAn-L sqldd AK1H_ECOLI : 804- 810: ndvta AgvfAd-L lrtls AK1H_ECOLI : 804- 811: ndvta AgvfAdlL rtlsw AK1H_SERMA : 211- 218: gsdys AavlAacL radcc AK1H_SERMA : 212- 218: sdysa AvlaAc-L radcc AK1H_SERMA : 803- 809: ndvta AgvfAd-L lrtls AK1H_SERMA : 803- 810: ndvta AgvfAdlL rtlsw AK2H_ECOLI : 256- 262: lrlde AselAr-L aapvl AK2H_ECOLI : 260- 267: easel ArlaApvL hartl AK2H_ECOLI : 600- 606: hwlyn AtvgAg-L pinht AKH_DAUCA : 302- 308: sdfsa AimgAl-L ragqv AKH_DAUCA : 706- 712: hyfye AtvvAg-L piitt AKH_HAEIN : 211- 218: gsdys AaclAacL gasvc AKH_HAEIN : 212- 218: sdysa AclaAc-L gasvc AKH_HAEIN : 557- 563: vdcts AesvAg-L yaral AKH_HAEIN : 561- 568: saesv AglyAraL kegfh AKH_HAEIN : 803- 810: navta AgifAdiL rtlqh DHOM_BACSU : 203- 209: eglda ArkmAi-L arlgf DHOM_CORGL : 18- 24: kgpgs AvgiAl-L gfgtv DHOM_CORGL : 123- 129: nkalv AahsAe-L adaae DHOM_CORGL : 216- 223: veghd AaskAaiL asiaf DHOM_CORGL : 217- 223: eghda AskaAi-L asiaf DHOM_METGL : 102- 109: rqarv AankAlmL awqrd DHOM_MYCLE : 35- 41: addla ArigAp-L mlrgi DHOM_MYCLE : 181- 188: adyds AlagAraL gyaea DHOM_MYCLE : 204- 211: veghd AaakAaiL asiaf DHOM_MYCLE : 205- 211: eghda AakaAi-L asiaf DHOM_PSEAE : 352- 359: ilpie AcesAyyL riqak DHOM_YEAST : 144- 150: fvyhe AtvgAg-L piisf DHOM_YEAST : 342- 349: agaga AvtaAgvL gdvik DHON_METGL : 288- 294: gaept AsavAd-L vdgtd T 20: 12.0102 39( 12) A-x(2,3)-A-G Occurences: 39(12) AK1H_ECOLI : 132- 136: ekmsi Aim-AG vlear AK1H_ECOLI : 188- 193: hmvlm AgftAG nekge AK1H_SERMA : 188- 193: hivlm AgftAG ndkge AK1H_SERMA : 594- 598: yqqlr Aaa-AG shrkf AK1H_SERMA : 687- 691: kllil Are-AG yklel AK2H_ECOLI : 394- 399: glalv AmvgAG vtrnp AK2H_ECOLI : 570- 575: fhvis AnklAG asdsn AK2H_ECOLI : 600- 605: hwlyn AtvgAG lpinh AK2H_ECOLI : 680- 684: klvil Are-AG yniep AKH_DAUCA : 195- 200: kamlr AiyiAG hates AKH_DAUCA : 306- 311: aaimg AllrAG qvtiw AKH_DAUCA : 478- 482: arfrq Ald-AG rlsqv AKH_DAUCA : 706- 711: hyfye AtvvAG lpiit AKH_DAUCA : 759- 763: evvse Aka-AG ytepd AKH_DAUCA : 835- 839: rkred Aen-AG evlry AKH_DAUCA : 899- 904: gpgag AevtAG gvfsd AKH_HAEIN : 188- 193: kvvlm AgftAG nekge AKH_HAEIN : 338- 343: srvfs AmsgAG isvil AKH_HAEIN : 557- 562: vdcts AesvAG lyara AKH_HAEIN : 687- 691: kllil Are-AG ielel AKH_HAEIN : 799- 804: ygagn AvtaAG ifadi DHOM_BACSU : 130- 134: diyfe Asv-AG gipil DHOM_CORGL : 106- 111: revvl AalkAG ksvvt DHOM_CORGL : 107- 111: evvla Alk-AG ksvvt DHOM_CORGL : 144- 148: dlyfe Aav-AG aipvv DHOM_CORGL : 252- 257: aadie AaqqAG htikl DHOM_CORGL : 253- 257: adiea Aqq-AG htikl DHOM_CORGL : 307- 311: aifve Aea-AG rlmfy DHOM_METGL : 130- 134: ivafe Aav-AG gipii DHOM_METGL : 141- 145: ipiik Ava-AG agrqp DHOM_METGL : 143- 147: iikav Aag-AG rqpss DHOM_MYCLE : 132- 136: dlyfe Aav-AG aipvi DHOM_MYCLE : 295- 299: avvve Aea-AG rlmfy DHOM_PSEAE : 133- 137: drafe Aav-AG gipvi DHOM_YEAST : 9- 14: kvvnv AvigAG vvgsa DHOM_YEAST : 96- 100: dntss Ayi-AG fytkf DHOM_YEAST : 144- 149: fvyhe AtvgAG lpiis DHOM_YEAST : 342- 347: agaga AvtaAG vlgdv DHON_METGL : 30- 34: nqeei Arr-AG rpiai Number of patterns evaluated by Pratt:9370 Total running time: 12 seconds