------------------------------------------------------------ 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 TOPOISOMERASE_I_PROK 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 TOPOISOMERASE_I_PROK.pratt2 OP: PROSITE Pattern Format on ON: max number patterns 20 OA: max number Alignments 20 M: Print Patterns in sequences off Sequence lengths: TOP1_BACAN 887 TOP1_BACFI 505 TOP1_BACSU 691 TOP1_ECOLI 865 TOP1_HAEIN 868 TOP1_KLEAE 18 TOP1_SALTY 10 TOP1_SYNP7 839 TOP1_THEMA 633 TOP3_ECOLI 653 TOP3_HAEIN 651 TOP3_SALTY 49 TOP3_YEAST 656 Pratt run started at Thu Feb 6 21:28:27 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 11.0102 36( 13) K-x(3,4)-K-x(0,2)-K 2: 11.0102 21( 13) D-x(0,2)-K-x(3,4)-K 3: 8.3401 79( 13) K-K 4: 8.3401 56( 13) G-K 5: 8.3401 62( 13) E-x(2)-K 6: 8.3401 66( 13) K-x(4)-K 7: 8.3401 41( 13) G-x(3)-E 8: 8.3401 44( 13) G-x(5)-K 9: 8.3401 41( 13) D-x-K 10: 7.8401 108( 13) E-x(1,2)-K Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 11.0102 36( 13) K-x(3,4)-K-x(0,2)-K B 2: 11.0102 21( 13) D-x(0,2)-K-x(3,4)-K C 3: 10.5453 23( 13) K-x(2)-[AEGS]-x-K D 4: 8.3401 79( 13) K-K E 5: 8.3401 56( 13) G-K F 6: 8.3401 62( 13) E-x(2)-K G 7: 8.3401 41( 13) G-x(3)-E H 8: 8.3401 44( 13) G-x(5)-K I 9: 8.3401 41( 13) D-x-K J 10: 7.8401 108( 13) E-x(1,2)-K Best patterns with alignements: fitness hits(seqs) Pattern A 1: 11.0102 36( 13) K-x(3,4)-K-x(0,2)-K Occurences: 36(13) TOP1_BACAN : 505- 511: ddehl Kelm-Kg-K rigtv TOP1_BACAN : 646- 653: hpncn Kglp-KrvK ektip TOP1_BACAN : 670- 678: lfeen KtdiiKgfK sngke TOP1_BACAN : 741- 746: fmlpa Kikg-K--K lsdsq TOP1_BACAN : 855- 861: mtdtv KgfvsK--K tgksf TOP1_BACFI : 54- 60: dlfqy KvvsdK--K evlqr TOP1_BACSU : 60- 68: itirg KgpvlKelK taakk TOP1_BACSU : 68- 73: vlkel Ktaa-K--K akkvy TOP1_BACSU : 68- 75: vlkel KtaakKa-K kvyla TOP1_BACSU : 68- 75: vlkel Ktaa-KkaK kvyla TOP1_BACSU : 68- 76: vlkel KtaakKakK vylaa TOP1_BACSU : 240- 247: qytve Kvtk-KerK rnpal TOP1_BACSU : 330- 336: eflgg KrkpaK--K nenaq TOP1_BACSU : 654- 662: fvswd KpierKcpK cgkml TOP1_BACSU : 665- 671: cpkcg KmlveK--K lkkgi TOP1_BACSU : 665- 673: cpkcg KmlveKklK kgiqv TOP1_ECOLI : 54- 60: dstst Ktak-Kp-K kderg TOP1_ECOLI : 54- 61: dstst Ktak-KpkK derga TOP1_ECOLI : 859- 865: fyvdg KwvegK--K TOP1_HAEIN : 61- 68: mdaee Kaki-KaeK ernal TOP1_HAEIN : 103- 108: vvsel Ksla-K--K adhiy TOP1_HAEIN : 250- 258: tdykg KkfdpKnqK eaqsa TOP1_HAEIN : 251- 258: dykgk Kfdp-KnqK eaqsa TOP1_HAEIN : 862- 868: dftng KwverK--K TOP1_KLEAE : 12- 18: ffidg KwteaK--K TOP1_SALTY : 4- 10: vdg KwvegK--K TOP1_SYNP7 : 71- 78: lyivp Kdkk-KivK tlkda TOP1_SYNP7 : 73- 81: ivpkd KkkivKtlK dalkd TOP1_SYNP7 : 74- 81: vpkdk Kkiv-KtlK dalkd TOP1_THEMA : 65- 71: ikgke Kvve-Kl-K dlakk TOP1_THEMA : 71- 76: vvekl Kdla-K--K gelli TOP1_THEMA : 232- 238: lvvee KkvsvK--K fappe TOP1_THEMA : 233- 238: vveek Kvsv-K--K fappe TOP1_THEMA : 395- 401: gkyrf KgtvlK--K ifdgy TOP1_THEMA : 625- 631: gnlse KrrkgK--K gs TOP3_ECOLI : 635- 640: kaapr Krsa-K--K sppad TOP3_HAEIN : 268- 276: grvls KglaeKvvK ritnq TOP3_HAEIN : 630- 637: rikmi KsdraKp-K savkk TOP3_HAEIN : 637- 642: drakp Ksav-K--K ssksn TOP3_HAEIN : 637- 645: drakp KsavkKssK snget TOP3_SALTY : 32- 37: ksapr Krag-K--K sppaa TOP3_YEAST : 625- 633: ktdvv KdiveKyrK ywhkt B 2: 11.0102 21( 13) D-x(0,2)-K-x(3,4)-K Occurences: 21(13) TOP1_BACAN : 267- 274: yltve Df-KegtrK qnpkl TOP1_BACAN : 852- 860: eknmt DtvKgfvsK ktgks TOP1_BACFI : 356- 362: allit D--KipkdK dlsed TOP1_BACSU : 116- 123: neitk DaiKesf-K hprmi TOP1_BACSU : 553- 560: dnfyt DfeKrvk-K aesem TOP1_BACSU : 653- 659: efvsw D--KpierK cpkcg TOP1_BACSU : 684- 691: qcvec Dy-KeepqK TOP1_ECOLI : 273- 279: vlere D--KpttsK pgapf TOP1_ECOLI : 857- 864: safyv Dg-KwvegK k TOP1_HAEIN : 663- 669: tkalm Dr-Krct-K cgtam TOP1_KLEAE : 10- 17: saffi Dg-KwteaK k TOP1_SALTY : 2- 9: v Dg-KwvegK k TOP1_SYNP7 : 72- 78: yivpk Dk-Kkiv-K tlkda TOP1_SYNP7 : 72- 78: yivpk D--KkkivK tlkda TOP1_THEMA : 389- 395: vlrtk Dg-Kyrf-K gtvlk TOP3_ECOLI : 509- 514: arfvq D--Kdlk-K ilrat TOP3_ECOLI : 627- 635: sggsa DkkKaaprK rsakk TOP3_HAEIN : 518- 523: arfvq D--Kelk-K ilret TOP3_SALTY : 24- 32: apggg DkkKsaprK ragkk TOP3_YEAST : 369- 376: fpham Dl-KslveK qaqld TOP3_YEAST : 514- 521: mnalv DiaKaem-K agtta TOP3_YEAST : 622- 630: haskt DvvKdiveK yrkyw C 3: 10.5453 23( 13) K-x(2)-[AEGS]-x-K Occurences: 23(13) TOP1_BACAN : 28- 33: frhsq KyiGsK pyygy TOP1_BACAN : 741- 746: fmlpa KikGkK lsdsq TOP1_BACFI : 54- 59: dlfqy KvvSdK kevlq TOP1_BACSU : 68- 73: vlkel KtaAkK akkvy TOP1_BACSU : 355- 360: tsvlr KpsElK avlgr TOP1_BACSU : 613- 618: tkpiv KqiGvK cpscg TOP1_BACSU : 654- 659: fvswd KpiErK cpkcg TOP1_ECOLI : 97- 102: vvsel KqlAeK adhiy TOP1_ECOLI : 859- 864: fyvdg KwvEgK k TOP1_HAEIN : 49- 54: tgeka KpiStK gmdae TOP1_HAEIN : 63- 68: aeeka KikAeK ernal TOP1_HAEIN : 103- 108: vvsel KslAkK adhiy TOP1_HAEIN : 862- 867: dftng KwvErK k TOP1_KLEAE : 12- 17: ffidg KwtEaK k TOP1_SALTY : 4- 9: vdg KwvEgK k TOP1_SYNP7 : 271- 276: palas KvaEeK pthca TOP1_THEMA : 71- 76: vvekl KdlAkK gelli TOP1_THEMA : 232- 237: lvvee KkvSvK kfapp TOP1_THEMA : 582- 587: kcecg KtrSvK ndeia TOP3_ECOLI : 635- 640: kaapr KrsAkK sppad TOP3_HAEIN : 268- 273: grvls KglAeK vvkri TOP3_SALTY : 32- 37: ksapr KraGkK sppaa TOP3_YEAST : 637- 642: rkywh KtnAcK ntllq D 4: 8.3401 79( 13) K-K Occurences: 79(13) TOP1_BACAN : 132- 133: yagvn KK qsrvy TOP1_BACAN : 302- 303: naeta KK hiqnl TOP1_BACAN : 478- 479: qeskt KK palht TOP1_BACAN : 614- 615: lietw KK qievc TOP1_BACAN : 663- 664: ptaqv KK lfeen TOP1_BACAN : 745- 746: akikg KK lsdsq TOP1_BACAN : 753- 754: sdsqi KK lvnnh TOP1_BACAN : 843- 844: tasqi KK llekn TOP1_BACAN : 860- 861: kgfvs KK tgksf TOP1_BACAN : 885- 886: tfiye KK k TOP1_BACAN : 886- 887: fiyek KK TOP1_BACFI : 59- 60: kvvsd KK evlqr TOP1_BACFI : 102- 103: yrlhc KK tikrl TOP1_BACSU : 23- 24: erylg KK ykvka TOP1_BACSU : 72- 73: lktaa KK akkvy TOP1_BACSU : 75- 76: aakka KK vylaa TOP1_BACSU : 156- 157: spilw KK vkkgl TOP1_BACSU : 159- 160: lwkkv KK glsag TOP1_BACSU : 214- 215: fgkng KK lplns TOP1_BACSU : 243- 244: vekvt KK erkrn TOP1_BACSU : 272- 273: lnfra KK tmmia TOP1_BACSU : 335- 336: krkpa KK nenaq TOP1_BACSU : 559- 560: fekrv KK aesem TOP1_BACSU : 633- 634: verks KK krvfy TOP1_BACSU : 634- 635: erksk KK rvfyg TOP1_BACSU : 670- 671: kmlve KK lkkgi TOP1_BACSU : 673- 674: vekkl KK giqvq TOP1_ECOLI : 45- 46: sgsaa KK sadst TOP1_ECOLI : 57- 58: stkta KK pkkde TOP1_ECOLI : 60- 61: takkp KK derga TOP1_ECOLI : 185- 186: spllw KK iargl TOP1_ECOLI : 302- 303: lgfgv KK tmmma TOP1_ECOLI : 345- 346: sdnfg KK ylpes TOP1_ECOLI : 864- 865: kwveg KK TOP1_HAEIN : 107- 108: lksla KK adhiy TOP1_HAEIN : 191- 192: spllw KK vargl TOP1_HAEIN : 250- 251: tdykg KK fdpkn TOP1_HAEIN : 308- 309: lgfgv KK tmmla TOP1_HAEIN : 839- 840: fsrke KK qyvts TOP1_HAEIN : 867- 868: kwver KK TOP1_KLEAE : 17- 18: kwtea KK TOP1_SALTY : 9- 10: kwveg KK TOP1_SYNP7 : 73- 74: ivpkd KK kivkt TOP1_SYNP7 : 74- 75: vpkdk KK ivktl TOP1_SYNP7 : 654- 655: ehycg KK pkgrt TOP1_SYNP7 : 780- 781: llaqp KK srgrg TOP1_THEMA : 3- 4: ms KK vkkyi TOP1_THEMA : 6- 7: mskkv KK yivve TOP1_THEMA : 75- 76: lkdla KK gelli TOP1_THEMA : 132- 133: reidm KK vraql TOP1_THEMA : 189- 190: lrfvp KK yhrit TOP1_THEMA : 210- 211: idvke KK ffdae TOP1_THEMA : 232- 233: lvvee KK vsvkk TOP1_THEMA : 237- 238: kkvsv KK fappe TOP1_THEMA : 358- 359: lnsdq KK lyeli TOP1_THEMA : 400- 401: kgtvl KK ifdgy TOP1_THEMA : 479- 480: nrgyi KK irgyl TOP1_THEMA : 500- 501: mdyle KK ysdvv TOP1_THEMA : 525- 526: eveqg KK tdkiv TOP1_THEMA : 630- 631: krrkg KK gs TOP3_ECOLI : 376- 377: rcwdd KK vdahh TOP3_ECOLI : 513- 514: qdkdl KK ilrat TOP3_ECOLI : 543- 544: rgflt KK gryih TOP3_ECOLI : 628- 629: ggsad KK kaapr TOP3_ECOLI : 629- 630: gsadk KK aaprk TOP3_ECOLI : 639- 640: rkrsa KK sppad TOP3_HAEIN : 82- 83: prkev KK qlsvv TOP3_HAEIN : 147- 148: vekav KK lqpnr TOP3_HAEIN : 386- 387: rcwnd KK veahh TOP3_HAEIN : 477- 478: llpiv KK gqilh TOP3_HAEIN : 492- 493: gevms KK tqppk TOP3_HAEIN : 522- 523: qdkel KK ilret TOP3_HAEIN : 552- 553: rgflt KK grnih TOP3_HAEIN : 641- 642: pksav KK ssksn TOP3_SALTY : 25- 26: pgggd KK ksapr TOP3_SALTY : 26- 27: gggdk KK saprk TOP3_SALTY : 36- 37: rkrag KK sppaa TOP3_YEAST : 99- 100: mnnnq KK iasni TOP3_YEAST : 611- 612: meqdl KK icegh E 5: 8.3401 56( 13) G-K Occurences: 56(13) TOP1_BACAN : 2- 3: m GK tlfia TOP1_BACAN : 510- 511: kelmk GK rigtv TOP1_BACAN : 537- 538: idiek GK iittp TOP1_BACAN : 633- 634: iildr GK ffgcs TOP1_BACAN : 681- 682: gfksn GK efsay TOP1_BACAN : 716- 717: pkcqk GK ilnrk TOP1_BACAN : 744- 745: pakik GK klsds TOP1_BACAN : 799- 800: ddrtv GK cplcq TOP1_BACAN : 811- 812: srvii GK tnylc TOP1_BACAN : 863- 864: vskkt GK sfdak TOP1_BACFI : 408- 409: tfrsk GK ellsk TOP1_BACSU : 22- 23: ieryl GK kykvk TOP1_BACSU : 59- 60: yitir GK gpvlk TOP1_BACSU : 210- 211: easff GK ngkkl TOP1_BACSU : 213- 214: ffgkn GK klpln TOP1_BACSU : 323- 324: idqty GK eflgg TOP1_BACSU : 329- 330: keflg GK rkpak TOP1_BACSU : 421- 422: kvyve GK ddqme TOP1_BACSU : 594- 595: kmgry GK flacs TOP1_BACSU : 664- 665: kcpkc GK mlvek TOP1_ECOLI : 2- 3: m GK alviv TOP1_ECOLI : 88- 89: yevlp GK ekvvs TOP1_ECOLI : 344- 345: isdnf GK kylpe TOP1_ECOLI : 726- 727: kmgrf GK ymact TOP1_ECOLI : 846- 847: ssekd GK atgws TOP1_ECOLI : 858- 859: afyvd GK wvegk TOP1_ECOLI : 863- 864: gkwve GK k TOP1_HAEIN : 94- 95: yqilp GK ekvvs TOP1_HAEIN : 249- 250: vtdyk GK kfdpk TOP1_HAEIN : 448- 449: vlpqi GK npedq TOP1_HAEIN : 731- 732: klgrf GK ymgct TOP1_HAEIN : 849- 850: tseke GK atkwi TOP1_HAEIN : 861- 862: vdftn GK wverk TOP1_KLEAE : 11- 12: affid GK wteak TOP1_SALTY : 3- 4: vd GK wvegk TOP1_SALTY : 8- 9: gkwve GK k TOP1_SYNP7 : 100- 101: dedre GK viswh TOP1_SYNP7 : 347- 348: veqmy GK nylsp TOP1_SYNP7 : 653- 654: vehyc GK kpkgr TOP1_SYNP7 : 786- 787: ksrgr GK epirr TOP1_THEMA : 62- 63: favik GK ekvve TOP1_THEMA : 350- 351: tpeea GK ylnsd TOP1_THEMA : 390- 391: lrtkd GK yrfkg TOP1_THEMA : 524- 525: deveq GK ktdki TOP1_THEMA : 562- 563: qkcsc GK emrls TOP1_THEMA : 570- 571: mrlsf GK ygfyl TOP1_THEMA : 581- 582: lkcec GK trsvk TOP1_THEMA : 597- 598: avidd GK iflgr TOP1_THEMA : 618- 619: grsve GK gnlse TOP1_THEMA : 629- 630: ekrrk GK kgs TOP3_ECOLI : 432- 433: ldiak GK fvaka TOP3_ECOLI : 554- 555: hstda GK alfhs TOP3_HAEIN : 461- 462: wkell GK eddte TOP3_SALTY : 35- 36: prkra GK ksppa TOP3_YEAST : 78- 79: dshgw GK caiqe TOP3_YEAST : 570- 571: rsekv GK etylq F 6: 8.3401 62( 13) E-x(2)-K Occurences: 62(13) TOP1_BACAN : 9- 12: tlfia EkpK vanei TOP1_BACAN : 16- 19: pkvan EimK sprfr TOP1_BACAN : 256- 259: lkslg EnlK dqylt TOP1_BACAN : 266- 269: qyltv EdfK egtrk TOP1_BACAN : 299- 302: lqina EtaK khiqn TOP1_BACAN : 388- 391: eegrp EieK qlysl TOP1_BACAN : 444- 447: levfq EevK eesve TOP1_BACAN : 452- 455: keesv EtfK vpilq TOP1_BACAN : 502- 505: rkidd EhlK elmkg TOP1_BACAN : 506- 509: dehlk ElmK gkrig TOP1_BACAN : 535- 538: nfidi EkgK iittp TOP1_BACAN : 611- 614: synli EtwK kqiev TOP1_BACAN : 667- 670: vkklf EenK tdiik TOP1_BACAN : 818- 821: tnylc EqyK rgcdf TOP1_BACAN : 884- 887: vtfiy EkkK TOP1_BACFI : 34- 37: pgeln EkyK sysld TOP1_BACFI : 184- 187: tplla EivK rerll TOP1_BACFI : 280- 283: gfkpa EtlK yaqsl TOP1_BACFI : 366- 369: dkdls EdeK siyhl TOP1_BACFI : 476- 479: qaied EdrK sisnl TOP1_BACSU : 112- 115: rvvfn EitK daike TOP1_BACSU : 120- 123: kdaik EsfK hprmi TOP1_BACSU : 542- 545: eegnt EwvK iidnf TOP1_BACSU : 688- 691: cdyke EpqK TOP1_ECOLI : 141- 144: rvvfn EitK nairq TOP1_ECOLI : 378- 381: vnvma EslK dmead TOP1_ECOLI : 485- 488: aslvk EleK rgigr TOP1_ECOLI : 628- 631: alppk ErcK ttinl TOP1_ECOLI : 710- 713: dgpiv EceK cgsem TOP1_ECOLI : 734- 737: mactn EecK ntrki TOP1_ECOLI : 823- 826: pqqdp EgnK tmvrf TOP1_ECOLI : 862- 865: dgkwv EgkK TOP1_HAEIN : 46- 49: gsstg EkaK pistk TOP1_HAEIN : 60- 63: gmdae EkaK ikaek TOP1_HAEIN : 147- 150: rvvfn EitK naikq TOP1_HAEIN : 491- 494: aalvk EleK rgigr TOP1_HAEIN : 634- 637: alppk ErcK ttinl TOP1_HAEIN : 715- 718: dgpvv EcdK cgadm TOP1_HAEIN : 865- 868: ngkwv ErkK TOP1_KLEAE : 15- 18: dgkwt EakK TOP1_SALTY : 7- 10: dgkwv EgkK TOP1_SYNP7 : 628- 631: aeadg EpiK anlpk TOP1_THEMA : 68- 71: kekvv EklK dlakk TOP1_THEMA : 121- 124: prvir EavK nprei TOP1_THEMA : 216- 219: kffda EtlK eiqsi TOP1_THEMA : 230- 233: delvv EekK vsvkk TOP1_THEMA : 243- 246: kfapp EpfK tstlq TOP1_THEMA : 322- 325: vgskr ErrK snaki TOP1_THEMA : 348- 351: fmtpe EagK ylnsd TOP1_THEMA : 425- 428: pfeeg EsvK pvvvk TOP1_THEMA : 513- 516: vsfta EmeK dldev TOP1_THEMA : 522- 525: dldev EqgK ktdki TOP1_THEMA : 579- 582: fylkc EcgK trsvk TOP3_ECOLI : 300- 303: salqi EaaK rfgls TOP3_ECOLI : 321- 324: cqkly EthK lityp TOP3_HAEIN : 80- 83: llprk EvkK qlsvv TOP3_HAEIN : 429- 432: fcpda EyrK skitl TOP3_HAEIN : 520- 523: fvqdk ElkK ilret TOP3_SALTY : 4- 7: qli EqaK rtpvk TOP3_YEAST : 325- 328: plttv ElqK ncary TOP3_YEAST : 459- 462: laccs EdaK gqsmt TOP3_YEAST : 499- 502: pwarw EttK qlprl G 7: 8.3401 41( 13) G-x(3)-E Occurences: 41(13) TOP1_BACAN : 51- 55: vswcr GhllE lknpe TOP1_BACAN : 766- 770: tdfin GfsgE kgeft TOP1_BACAN : 769- 773: ingfs GekgE ftaai TOP1_BACAN : 830- 834: dfivs GmilE krita TOP1_BACFI : 21- 25: icaav GhilE flepg TOP1_BACFI : 30- 34: eflep GelnE kyksy TOP1_BACFI : 211- 215: tfnnq GnvyE gewfh TOP1_BACSU : 43- 47: pksqm GvdiE qnfep TOP1_BACSU : 576- 580: epeya GedcE lcssp TOP1_BACSU : 625- 629: pscge GnivE rkskk TOP1_ECOLI : 648- 652: lnvle GedaE tnalr TOP1_ECOLI : 691- 695: nptcd GyeiE egefr TOP1_ECOLI : 706- 710: ikgyd GpivE cekcg TOP1_ECOLI : 858- 862: afyvd GkwvE gkk TOP1_HAEIN : 55- 59: pistk GmdaE ekaki TOP1_HAEIN : 448- 452: vlpqi GknpE dqelp TOP1_HAEIN : 696- 700: npncd GyliE egsfk TOP1_HAEIN : 711- 715: ikgyd GpvvE cdkcg TOP1_HAEIN : 861- 865: vdftn GkwvE rkk TOP1_KLEAE : 11- 15: affid GkwtE akk TOP1_SALTY : 3- 7: vd GkwvE gkk TOP1_SYNP7 : 56- 60: kwsnl GvdvE nnfap TOP1_SYNP7 : 165- 169: glhpv GpalE knclg TOP1_SYNP7 : 473- 477: sphls GtgrE svmkp TOP1_SYNP7 : 702- 706: gffak GmslE tisle TOP1_SYNP7 : 724- 728: lprtl GehpE tgrri TOP1_SYNP7 : 784- 788: pkksr GrgkE pirrl TOP1_THEMA : 25- 29: iksil GneyE vfasm TOP1_THEMA : 46- 50: pkskf GvdlE kdfep TOP1_THEMA : 200- 204: tvnfd GltaE idvke TOP1_THEMA : 318- 322: geeyv GskrE rrksn TOP1_THEMA : 613- 617: sgspd GrsvE gkgnl TOP1_THEMA : 620- 624: svegk GnlsE krrkg TOP3_ECOLI : 43- 47: vtwci GhllE qaqpd TOP3_ECOLI : 478- 482: llcek GevvE rqtqp TOP3_ECOLI : 521- 525: lratd GlgtE atrag TOP3_HAEIN : 43- 47: vtwcv GhllE qaepd TOP3_HAEIN : 530- 534: lretd GlgtE atrag TOP3_SALTY : 45- 49: paaet GrqtE TOP3_YEAST : 51- 55: pfarn GancE vtmts TOP3_YEAST : 180- 184: svhav GtriE idlra H 8: 8.3401 44( 13) G-x(5)-K Occurences: 44(13) TOP1_BACAN : 51- 57: vswcr GhllelK npeem TOP1_BACAN : 162- 168: askyd GlaysaK arqyl TOP1_BACAN : 234- 240: litdl GlkpvmK tedqv TOP1_BACAN : 385- 391: qyqee GrpeieK qlysl TOP1_BACAN : 423- 429: lidam GntyqiK esvlr TOP1_BACAN : 647- 653: pncnk GlpkrvK ektip TOP1_BACAN : 676- 682: tdiik GfksngK efsay TOP1_BACAN : 716- 722: pkcqk GkilnrK tffgc TOP1_BACAN : 863- 869: vskkt GksfdaK ltyds TOP1_BACFI : 216- 222: gnvye GewfheK enrif TOP1_BACFI : 271- 277: lqmda GnafgfK paetl TOP1_BACFI : 408- 414: tfrsk GkellsK grhhi TOP1_BACSU : 22- 28: ieryl GkkykvK asmgh TOP1_BACSU : 59- 65: yitir GkgpvlK elkta TOP1_BACSU : 329- 335: keflg GkrkpaK knena TOP1_BACSU : 439- 445: pdlqe GdtvlsK diepe TOP1_BACSU : 539- 545: dhvee GntewvK iidnf TOP1_BACSU : 625- 631: pscge GniverK skkkr TOP1_BACSU : 664- 670: kcpkc GkmlveK klkkg TOP1_ECOLI : 22- 28: inkyl GsdyvvK ssvgh TOP1_ECOLI : 621- 627: flgcs GyalppK erckt TOP1_ECOLI : 715- 721: ecekc GsemhlK mgrfg TOP1_ECOLI : 746- 752: kilrn GevappK edpvp TOP1_ECOLI : 858- 864: afyvd GkwvegK k TOP1_HAEIN : 22- 28: inkyl GsqyvvK ssvgh TOP1_HAEIN : 41- 47: dlptv GsstgeK akpis TOP1_HAEIN : 55- 61: pistk GmdaeeK akika TOP1_HAEIN : 249- 255: vtdyk GkkfdpK nqkea TOP1_HAEIN : 627- 633: flgct GyalppK erckt TOP1_HAEIN : 720- 726: ecdkc GadmhlK lgrfg TOP1_HAEIN : 749- 755: kilkn GevappK eepvh TOP1_HAEIN : 861- 867: vdftn GkwverK k TOP1_KLEAE : 11- 17: affid GkwteaK k TOP1_SALTY : 3- 9: vd GkwvegK k TOP1_SYNP7 : 201- 207: rafrq GsywdlK aqltv TOP1_SYNP7 : 475- 481: hlsgt GresvmK pqppa TOP1_THEMA : 405- 411: kkifd GyekvwK ternt TOP1_THEMA : 581- 587: lkcec GktrsvK ndeia TOP1_THEMA : 613- 619: sgspd GrsvegK gnlse TOP3_ECOLI : 623- 629: vapgs GgsadkK kaapr TOP3_ECOLI : 624- 630: apgsg GsadkkK aaprk TOP3_HAEIN : 487- 493: lhcer GevmskK tqppk TOP3_SALTY : 21- 27: givap GggdkkK saprk TOP3_YEAST : 523- 529: aemka GttappK pmtes I 9: 8.3401 41( 13) D-x-K Occurences: 41(13) TOP1_BACAN : 63- 65: npeem DpK yklfq TOP1_BACAN : 267- 269: yltve DfK egtrk TOP1_BACAN : 357- 359: didai DiK hktfd TOP1_BACAN : 867- 869: tgksf DaK ltyds TOP1_BACFI : 58- 60: ykvvs DkK evlqr TOP1_BACFI : 367- 369: kdlse DeK siyhl TOP1_BACFI : 477- 479: aiede DrK sisnl TOP1_BACSU : 184- 186: ekein DfK peeyw TOP1_BACSU : 223- 225: lnsea DvK eilsq TOP1_BACSU : 496- 498: gyval DnK rfvpt TOP1_BACSU : 684- 686: qcvec DyK eepqk TOP1_ECOLI : 675- 677: dsyli DpK rklhv TOP1_ECOLI : 845- 847: vssek DgK atgws TOP1_ECOLI : 857- 859: safyv DgK wvegk TOP1_HAEIN : 84- 86: idpyh DwK anyqi TOP1_HAEIN : 246- 248: rldvt DyK gkkfd TOP1_HAEIN : 253- 255: kgkkf DpK nqkea TOP1_HAEIN : 602- 604: slvet DiK cptcg TOP1_HAEIN : 663- 665: tkalm DrK rctkc TOP1_KLEAE : 10- 12: saffi DgK wteak TOP1_SALTY : 2- 4: v DgK wvegk TOP1_SYNP7 : 72- 74: yivpk DkK kivkt TOP1_SYNP7 : 205- 207: qgsyw DlK aqltv TOP1_THEMA : 130- 132: nprei DmK kvraq TOP1_THEMA : 206- 208: ltaei DvK ekkff TOP1_THEMA : 356- 358: kylns DqK klyel TOP1_THEMA : 389- 391: vlrtk DgK yrfkg TOP1_THEMA : 596- 598: iavid DgK iflgr TOP3_ECOLI : 374- 376: rnrcw DdK kvdah TOP3_ECOLI : 375- 377: nrcwd DkK vdahh TOP3_ECOLI : 511- 513: fvqdk DlK kilra TOP3_ECOLI : 627- 629: sggsa DkK kaapr TOP3_HAEIN : 55- 57: epday DpK fkqwr TOP3_HAEIN : 385- 387: nrcwn DkK veahh TOP3_SALTY : 24- 26: apggg DkK ksapr TOP3_YEAST : 172- 174: npsrl DmK svhav TOP3_YEAST : 307- 309: vaqvv DlK skptt TOP3_YEAST : 369- 371: fpham DlK slvek TOP3_YEAST : 419- 421: rsgsh DdK ahppi TOP3_YEAST : 460- 462: accse DaK gqsmt TOP3_YEAST : 609- 611: remeq DlK kiceg J 10: 7.8401 108( 13) E-x(1,2)-K Occurences: 108(13) TOP1_BACAN : 9- 12: tlfia EkpK vanei TOP1_BACAN : 16- 19: pkvan EimK sprfr TOP1_BACAN : 55- 57: rghll El-K npeem TOP1_BACAN : 256- 259: lkslg EnlK dqylt TOP1_BACAN : 266- 269: qyltv EdfK egtrk TOP1_BACAN : 299- 302: lqina EtaK khiqn TOP1_BACAN : 388- 391: eegrp EieK qlysl TOP1_BACAN : 444- 447: levfq EevK eesve TOP1_BACAN : 445- 447: evfqe Ev-K eesve TOP1_BACAN : 452- 455: keesv EtfK vpilq TOP1_BACAN : 474- 476: dfelq Es-K tkkpa TOP1_BACAN : 502- 505: rkidd EhlK elmkg TOP1_BACAN : 506- 509: dehlk ElmK gkrig TOP1_BACAN : 535- 538: nfidi EkgK iittp TOP1_BACAN : 611- 614: synli EtwK kqiev TOP1_BACAN : 667- 670: vkklf EenK tdiik TOP1_BACAN : 668- 670: kklfe En-K tdiik TOP1_BACAN : 818- 821: tnylc EqyK rgcdf TOP1_BACAN : 884- 886: vtfiy Ek-K k TOP1_BACAN : 884- 887: vtfiy EkkK TOP1_BACFI : 34- 37: pgeln EkyK sysld TOP1_BACFI : 184- 187: tplla EivK rerll TOP1_BACFI : 248- 250: sstim Em-K eemrt TOP1_BACFI : 280- 283: gfkpa EtlK yaqsl TOP1_BACFI : 366- 369: dkdls EdeK siyhl TOP1_BACFI : 476- 479: qaied EdrK sisnl TOP1_BACSU : 51- 53: ieqnf Ep-K yitir TOP1_BACSU : 66- 68: gpvlk El-K taakk TOP1_BACSU : 112- 115: rvvfn EitK daike TOP1_BACSU : 120- 123: kdaik EsfK hprmi TOP1_BACSU : 245- 247: kvtkk Er-K rnpal TOP1_BACSU : 358- 360: lrkps El-K avlgr TOP1_BACSU : 420- 422: mkvyv Eg-K ddqme TOP1_BACSU : 427- 429: kddqm Ee-K drmlp TOP1_BACSU : 542- 545: eegnt EwvK iidnf TOP1_BACSU : 564- 566: kkaes Em-K eveie TOP1_BACSU : 629- 631: egniv Er-K skkkr TOP1_BACSU : 657- 659: wdkpi Er-K cpkcg TOP1_BACSU : 669- 671: gkmlv Ek-K lkkgi TOP1_BACSU : 688- 691: cdyke EpqK TOP1_ECOLI : 95- 97: ekvvs El-K qlaek TOP1_ECOLI : 141- 144: rvvfn EitK nairq TOP1_ECOLI : 210- 212: verer Ei-K afvpe TOP1_ECOLI : 272- 274: svler Ed-K pttsk TOP1_ECOLI : 378- 381: vnvma EslK dmead TOP1_ECOLI : 485- 488: aslvk EleK rgigr TOP1_ECOLI : 559- 561: anhea Ew-K avldh TOP1_ECOLI : 628- 631: alppk ErcK ttinl TOP1_ECOLI : 710- 713: dgpiv EceK cgsem TOP1_ECOLI : 734- 737: mactn EecK ntrki TOP1_ECOLI : 735- 737: actne Ec-K ntrki TOP1_ECOLI : 823- 826: pqqdp EgnK tmvrf TOP1_ECOLI : 862- 864: dgkwv Eg-K k TOP1_ECOLI : 862- 865: dgkwv EgkK TOP1_HAEIN : 46- 49: gsstg EkaK pistk TOP1_HAEIN : 59- 61: kgmda Ee-K akika TOP1_HAEIN : 60- 63: gmdae EkaK ikaek TOP1_HAEIN : 101- 103: ekvvs El-K slakk TOP1_HAEIN : 147- 150: rvvfn EitK naikq TOP1_HAEIN : 216- 218: verer Ei-K afqpe TOP1_HAEIN : 278- 280: vvtdl Et-K ptssr TOP1_HAEIN : 491- 494: aalvk EleK rgigr TOP1_HAEIN : 634- 637: alppk ErcK ttinl TOP1_HAEIN : 657- 659: ldess Et-K almdr TOP1_HAEIN : 715- 718: dgpvv EcdK cgadm TOP1_HAEIN : 763- 765: pvhfp El-K ceksd TOP1_HAEIN : 838- 840: rfsrk Ek-K qyvts TOP1_HAEIN : 848- 850: vtsek Eg-K atkwi TOP1_HAEIN : 865- 867: ngkwv Er-K k TOP1_HAEIN : 865- 868: ngkwv ErkK TOP1_KLEAE : 15- 17: dgkwt Ea-K k TOP1_KLEAE : 15- 18: dgkwt EakK TOP1_SALTY : 7- 9: dgkwv Eg-K k TOP1_SALTY : 7- 10: dgkwv EgkK TOP1_SYNP7 : 46- 48: sdipt El-K gekws TOP1_SYNP7 : 99- 101: tdedr Eg-K viswh TOP1_SYNP7 : 218- 220: eagqf Ea-K lwtla TOP1_SYNP7 : 274- 276: askva Ee-K pthca TOP1_SYNP7 : 628- 631: aeadg EpiK anlpk TOP1_THEMA : 68- 71: kekvv EklK dlakk TOP1_THEMA : 121- 124: prvir EavK nprei TOP1_THEMA : 209- 211: eidvk Ek-K ffdae TOP1_THEMA : 216- 219: kffda EtlK eiqsi TOP1_THEMA : 230- 232: delvv Ee-K kvsvk TOP1_THEMA : 230- 233: delvv EekK vsvkk TOP1_THEMA : 231- 233: elvve Ek-K vsvkk TOP1_THEMA : 243- 246: kfapp EpfK tstlq TOP1_THEMA : 277- 279: lyegv Et-K dghia TOP1_THEMA : 322- 325: vgskr ErrK snaki TOP1_THEMA : 348- 351: fmtpe EagK ylnsd TOP1_THEMA : 425- 428: pfeeg EsvK pvvvk TOP1_THEMA : 438- 440: kieeq Et-K pkpry TOP1_THEMA : 499- 501: vmdyl Ek-K ysdvv TOP1_THEMA : 513- 516: vsfta EmeK dldev TOP1_THEMA : 522- 525: dldev EqgK ktdki TOP1_THEMA : 579- 582: fylkc EcgK trsvk TOP1_THEMA : 617- 619: dgrsv Eg-K gnlse TOP3_ECOLI : 223- 225: akdff Ev-K ahivt TOP3_ECOLI : 300- 303: salqi EaaK rfgls TOP3_ECOLI : 321- 324: cqkly EthK lityp TOP3_ECOLI : 399- 401: nlten Ea-K vynli TOP3_HAEIN : 80- 82: llprk Ev-K kqlsv TOP3_HAEIN : 80- 83: llprk EvkK qlsvv TOP3_HAEIN : 231- 233: awvnp Es-K eektp TOP3_HAEIN : 234- 236: npesk Ee-K tpeks TOP3_HAEIN : 287- 289: paevt Ey-K dvrek TOP3_HAEIN : 429- 432: fcpda EyrK skitl TOP3_HAEIN : 520- 522: fvqdk El-K kilre TOP3_HAEIN : 520- 523: fvqdk ElkK ilret TOP3_SALTY : 4- 7: qli EqaK rtpvk TOP3_YEAST : 135- 137: weiwq Ea-K rgnrl TOP3_YEAST : 265- 267: iqlvv En-K dnggt TOP3_YEAST : 325- 328: plttv ElqK ncary TOP3_YEAST : 459- 462: laccs EdaK gqsmt TOP3_YEAST : 499- 502: pwarw EttK qlprl TOP3_YEAST : 519- 521: diaka Em-K agtta Number of patterns evaluated by Pratt:28 Total running time: 0 seconds