------------------------------------------------------------ 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 11 sequences from file ILVD_EDD_1 PATTERN CONSERVATION: CM: min Nr of Seqs to Match 11 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 ILVD_EDD_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: EDD_ECOLI 603 EDD_PSEAE 610 EDD_ZYMMO 583 ILV3_YEAST 585 ILVD_CLOPA 286 ILVD_ECOLI 605 ILVD_HAEIN 612 ILVD_LACLA 570 ILVD_RHOCA 46 ILVD_SALTY 68 YJHG_ECOLI 655 Pratt run started at Thu Feb 6 20:05:06 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 12.0102 17( 11) A-x(3)-D-x(0,1)-G 2: 11.5102 21( 11) L-x(3,5)-I-A 3: 11.5102 16( 11) S-x(3,4)-G-x(0,1)-A 4: 11.5102 18( 11) A-x(1,2)-A-x(4,5)-G 5: 11.5102 16( 11) I-x(1,2)-A-x(2,3)-A 6: 11.5102 20( 11) V-x(1,3)-A-x(2)-A 7: 11.5102 18( 11) E-A-x(1,3)-G 8: 11.0102 32( 11) A-x(2,4)-G-x(2,3)-A 9: 11.0102 33( 11) L-x(0,1)-A-x(3,5)-G 10: 11.0102 20( 11) G-x(0,1)-A-x(0,2)-V 11: 11.0102 28( 11) A-x(0,1)-S-x(3,5)-G 12: 11.0102 22( 11) A-x(2,3)-A-x(3,5)-D 13: 11.0102 32( 11) S-x(1,2)-E-x(1,3)-A 14: 11.0102 28( 11) S-x(0,1)-E-x(1,3)-A 15: 11.0102 26( 11) S-x(3,4)-A-x(1,3)-S 16: 11.0102 25( 11) V-x(2,4)-A-x(2,3)-A 17: 11.0102 29( 11) V-x(2,4)-A-x(1,2)-A 18: 11.0102 43( 11) A-x(0,2)-G-x(0,1)-V 19: 11.0102 29( 11) A-x(0,1)-V-x(1,3)-S 20: 11.0102 20( 11) A-x(0,2)-I-x(1,2)-A Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 14.3959 14( 11) A-x(3)-D-x(0,1)-G-x-[FLMV] B 2: 13.6639 15( 11) A-x(2,4)-G-x(2,3)-A-x(4)-[GNV] C 3: 13.2648 14( 11) S-x(0,1)-E-x(1,3)-A-x(2)-[DHKR] D 4: 13.2274 18( 11) S-x(1,2)-E-x(1,3)-A-x(3)-[ADES] E 5: 13.2153 18( 11) V-x(2,4)-A-x(1,2)-A-x-[AEGS] F 6: 13.2086 15( 11) G-x(0,1)-A-x(0,2)-V-x(3)-[ENST] G 7: 13.1512 13( 11) I-x(1,2)-A-x(2,3)-A-x-[DEGQST] H 8: 12.8888 17( 11) A-x(2,3)-A-x(3,5)-D-x(3)-[AGLPV] I 9: 11.5102 21( 11) L-x(3,5)-I-A J 10: 11.5102 16( 11) S-x(3,4)-G-x(0,1)-A K 11: 11.5102 18( 11) A-x(1,2)-A-x(4,5)-G L 12: 11.5102 20( 11) V-x(1,3)-A-x(2)-A M 13: 11.5102 18( 11) E-A-x(1,3)-G N 14: 11.0102 33( 11) L-x(0,1)-A-x(3,5)-G O 15: 11.0102 28( 11) A-x(0,1)-S-x(3,5)-G P 16: 11.0102 26( 11) S-x(3,4)-A-x(1,3)-S Q 17: 11.0102 25( 11) V-x(2,4)-A-x(2,3)-A R 18: 11.0102 43( 11) A-x(0,2)-G-x(0,1)-V S 19: 11.0102 29( 11) A-x(0,1)-V-x(1,3)-S T 20: 11.0102 20( 11) A-x(0,2)-I-x(1,2)-A Best patterns with alignements: fitness hits(seqs) Pattern A 1: 14.3959 14( 11) A-x(3)-D-x(0,1)-G-x-[FLMV] Occurences: 14(11) EDD_ECOLI : 505- 512: rcfki AlvtD-GrL sgasg EDD_PSEAE : 507- 514: rgfkv AlvtD-GrM sgasg EDD_ZYMMO : 507- 514: ngykv AlvtD-GrM sgatg ILV3_YEAST : 492- 499: lgkdv AlltD-GrF sggsh ILVD_CLOPA : 107- 114: eivas AhafD-GiV lvpnc ILVD_ECOLI : 404- 411: rsleh AyskD-GgL avlyg ILVD_ECOLI : 498- 505: lgkac AlitD-GrF sggts ILVD_ECOLI : 589- 597: ayasl AtsaDkGaV rdksk ILVD_HAEIN : 509- 516: lgkkc AlltD-GrF sggts ILVD_HAEIN : 597- 605: vfghf AtsaDkGaV rdktl ILVD_LACLA : 477- 484: lgksc AlitD-GrF sggth ILVD_RHOCA : 30- 37: rsaeh AfskD-GgL avlfg ILVD_SALTY : 52- 60: ayasl AtsaDkGaV rdksk YJHG_ECOLI : 21- 28: tvrth AdgpD-GeL pltae B 2: 13.6639 15( 11) A-x(2,4)-G-x(2,3)-A-x(4)-[GNV] Occurences: 15(11) EDD_ECOLI : 529- 541: hvtpe Aydg-Gll-AkvrdG diirv EDD_ECOLI : 529- 541: hvtpe Ayd--GgllAkvrdG diirv EDD_PSEAE : 104- 117: rsvrs AsvagGvp-AmcdgV tqgep EDD_PSEAE : 104- 117: rsvrs Asva-GgvpAmcdgV tqgep EDD_PSEAE : 531- 543: hvspe Aiag-Gpl-ArlrdG drvrv EDD_PSEAE : 531- 543: hvspe Aia--GgplArlrdG drvrv EDD_ZYMMO : 53- 66: lahgf Aamn-GdkpAlrdfN rmnig EDD_ZYMMO : 54- 66: ahgfa Amn--GdkpAlrdfN rmnig ILV3_YEAST : 293- 305: ityvv Atg--GstnAvlhlV avahs ILVD_CLOPA : 56- 69: dkvvq Avkd-GvrmAggvpV tfgti ILVD_ECOLI : 404- 417: rsleh AyskdGgl-AvlygN faeng ILVD_ECOLI : 453- 466: ddave Ailg-GkvvAgdvvV iryeg ILVD_ECOLI : 560- 573: aarre AqdarGdk-AwtpkN rerqv ILVD_HAEIN : 415- 428: rnken AisqeGgl-AvlfgN laedg ILVD_LACLA : 470- 482: salig Agl--GkscAlitdG rfsgg ILVD_RHOCA : 30- 43: rsaeh AfskdGgl-AvlfgN iae ILVD_SALTY : 23- 36: aarre AqearGdk-AwtpkN rqrqv YJHG_ECOLI : 218- 230: lslqd Arra-Gck-AcassG ggcqf C 3: 13.2648 14( 11) S-x(0,1)-E-x(1,3)-A-x(2)-[DHKR] Occurences: 14(11) EDD_ECOLI : 210- 216: malle S-Ea--AsyH apgtc EDD_PSEAE : 211- 217: eella S-Em--AsyH apgtc EDD_PSEAE : 568- 575: ewqar SlEp--ApqD gnlgc EDD_ZYMMO : 19- 28: rvier SrEtrkAylD liqye ILV3_YEAST : 84- 91: nrcsq SiEk--AglK amqfn ILV3_YEAST : 251- 259: sfpav SkEkl-AecD nigey ILVD_CLOPA : 100- 108: qliad SvEiv-AsaH afdgi ILVD_ECOLI : 400- 407: ngcir SlEh--AysK dggla ILVD_HAEIN : 177- 186: adpnv SdEridAieR sacpt ILVD_HAEIN : 561- 569: inlei SnEel-AtrR aeqdq ILVD_LACLA : 529- 537: islkv SnEei-AkrR anyqk ILVD_RHOCA : 26- 33: agvir SaEh--AfsK dggla ILVD_SALTY : 13- 21: iqlql S-EaeiAarR eaqea YJHG_ECOLI : 478- 485: akvyl S-Eks-AiyD ikhdk D 4: 13.2274 18( 11) S-x(1,2)-E-x(1,3)-A-x(3)-[ADES] Occurences: 18(11) EDD_ECOLI : 128- 137: elsll Sr-Evi-AmsaA vglsh EDD_PSEAE : 260- 268: lrdel Sr-Ea--ArqaS rltpe EDD_ZYMMO : 6- 17: mtdlh StvEkvtArviE rsret ILV3_YEAST : 84- 92: nrcsq Si-Ek--AglkA mqfnt ILV3_YEAST : 117- 126: ryslq Sr-Eii-AdsfE timma ILVD_CLOPA : 100- 109: qliad Sv-Eiv-AsahA fdgiv ILVD_ECOLI : 85- 94: lyslp Sr-Eli-AdsvE ymvna ILVD_ECOLI : 400- 408: ngcir Sl-Eh--AyskD gglav ILVD_ECOLI : 518- 526: sighv Sp-Ea--AsggS iglie ILVD_ECOLI : 550- 559: iqlqv SdaEl--AarrE aqdar ILVD_ECOLI : 550- 560: iqlqv SdaEla-ArreA qdarg ILVD_HAEIN : 177- 187: adpnv Sd-EridAierS acptc ILVD_HAEIN : 529- 537: sighv Sp-Ea--AsggA iglvr ILVD_HAEIN : 561- 570: inlei SneEl--AtrrA eqdqk ILVD_HAEIN : 561- 570: inlei Sn-Eel-AtrrA eqdqk ILVD_LACLA : 109- 118: ryslv Sr-Evi-AdsiE tnaga ILVD_LACLA : 529- 538: islkv SneEi--AkrrA nyqkp ILVD_LACLA : 529- 538: islkv Sn-Eei-AkrrA nyqkp ILVD_RHOCA : 26- 34: agvir Sa-Eh--AfskD gglav ILVD_SALTY : 13- 22: iqlql SeaEi--AarrE aqear ILVD_SALTY : 13- 23: iqlql SeaEia-ArreA qearg YJHG_ECOLI : 593- 603: deqlp SqeEat-AilnA rpshq YJHG_ECOLI : 593- 603: deqlp Sq-EeatAilnA rpshq E 5: 13.2153 18( 11) V-x(2,4)-A-x(1,2)-A-x-[AEGS] Occurences: 18(11) EDD_ECOLI : 288- 298: dekvv VngivAllAtG gstnh EDD_ECOLI : 308- 315: htmhl Vam--Ar-AaG iqinw EDD_PSEAE : 101- 109: actrs Vrs--AsvAgG vpamc EDD_PSEAE : 290- 300: dekai VnsvvAllAtG gstnh EDD_PSEAE : 433- 442: nlgrg VmkvsAv-ApE hqvve EDD_PSEAE : 527- 535: paaih Vspe-Ai-AgG plarl EDD_ZYMMO : 459- 467: sdqdd Vqk--AfkAgE lnkdv ILV3_YEAST : 301- 310: gstna VlhlvAv-AhS agvkl ILVD_CLOPA : 101- 109: liads Veiv-As-AhA fdgiv ILVD_ECOLI : 271- 280: gstnt VlhllAa-AqE aeidf ILVD_ECOLI : 578- 586: nrerq Vsf--AlrAyA slats ILVD_HAEIN : 282- 291: gssnt VlhllAa-AqE agvdf ILVD_LACLA : 287- 296: gstna VlhiiAm-AnA igvei ILVD_RHOCA : 23- 32: drqag Virs-AehAfS kdggl ILVD_SALTY : 41- 49: nrqrq Vsf--AlrAyA slats YJHG_ECOLI : 201- 211: edngk VqtigArfAnG elslq YJHG_ECOLI : 265- 274: psgep VwreiAr-AsA raaln YJHG_ECOLI : 548- 556: acigh Vgpe-Al-AeA pigkl F 6: 13.2086 15( 11) G-x(0,1)-A-x(0,2)-V-x(3)-[ENST] Occurences: 15(11) EDD_ECOLI : 428- 435: lsgnl GrA--VmktS avpve EDD_PSEAE : 245- 253: glhlp G-AsfVnpnT plrde EDD_ZYMMO : 245- 253: glhmp GsAf-VtpgT plrqa ILV3_YEAST : 415- 422: gslap GgA--VgkiT gkegt ILV3_YEAST : 416- 422: slapg G-A--VgkiT gkegt ILV3_YEAST : 431- 439: gtyfk GrAr-VfeeE gafie ILVD_CLOPA : 165- 171: vfeav G-A--VkagN mteee ILVD_ECOLI : 410- 417: yskdg GlA--VlygN faeng ILVD_ECOLI : 595- 601: tsadk G-A--VrdkS klgg ILVD_HAEIN : 421- 428: isqeg GlA--VlfgN laedg ILVD_HAEIN : 603- 609: tsadk G-A--VrdkT llk ILVD_LACLA : 418- 426: geffk GtAr-VfdgE qhfid ILVD_RHOCA : 36- 43: fskdg GlA--VlfgN iae ILVD_SALTY : 58- 64: tsadk G-A--VrdkS klgg YJHG_ECOLI : 471- 479: iyyhk GvAk-VylsE ksaiy G 7: 13.1512 13( 11) I-x(1,2)-A-x(2,3)-A-x-[DEGQST] Occurences: 13(11) EDD_ECOLI : 291- 298: vvvng Iv-All-AtG gstnh EDD_PSEAE : 12- 19: evtrr Iq-Ars-AaT rqryl EDD_ZYMMO : 309- 317: nhtmh Ip-AiarAaG vivnw ILV3_YEAST : 85- 94: rcsqs IekAglkAmQ fntig ILVD_CLOPA : 103- 111: adsve Iv-AsahAfD givlv ILVD_CLOPA : 258- 265: afmna It-Adm-AlG cstns ILVD_ECOLI : 53- 62: lvaeq IeaAggvAkE fntia ILVD_HAEIN : 64- 73: lvaae IekAggvAkE fntia ILVD_LACLA : 173- 181: gekln IvsAfe-AlG qkitg ILVD_LACLA : 290- 298: navlh Ii-AmanAiG veitq ILVD_RHOCA : 24- 32: rqagv IrsAeh-AfS kdggl ILVD_SALTY : 17- 25: lseae Ia-ArreAqE argdk YJHG_ECOLI : 204- 211: gkvqt Ig-Arf-AnG elslq H 8: 12.8888 17( 11) A-x(2,3)-A-x(3,5)-D-x(3)-[AGLPV] Occurences: 17(11) EDD_ECOLI : 46- 60: acgnl AhgfAacqpeDkasL ksmlr EDD_ECOLI : 460- 471: hdvmp Afe-Agll--DrdcV vvvrh EDD_ECOLI : 460- 473: hdvmp Afe-AglldrDcvvV vrhqg EDD_PSEAE : 46- 60: pcgnl AhgvAacgesDkqtL rlmnq EDD_PSEAE : 461- 475: qasla AafkAgelerDlvaV vrfqg EDD_PSEAE : 462- 475: aslaa Afk-AgelerDlvaV vrfqg EDD_ZYMMO : 49- 62: scsnl AhgfAamng-DkpaL rdfnr EDD_ZYMMO : 462- 475: ddvqk Afk-AgelnkDvivV vrfqg ILV3_YEAST : 136- 148: aqhyd Ani-Aipsc-DknmP gvmma ILVD_CLOPA : 253- 265: iltee AfmnAita--DmalG cstns ILVD_ECOLI : 253- 265: iaska AfenAmtl--DiamG gstnt ILVD_ECOLI : 586- 597: alray Asl-Atsa--DkgaV rdksk ILVD_HAEIN : 264- 276: igtfd AfenAmsl--DiamG gssnt ILVD_LACLA : 128- 140: aeyyd Aiv-Aipgc-DknmP gsiig ILVD_RHOCA : 27- 38: gvirs Aeh-Afsk--DgglA vlfgn ILVD_SALTY : 49- 60: alray Asl-Atsa--DkgaV rdksk YJHG_ECOLI : 108- 121: ikanh AlpyAvyvs-DpcdG rtqgt YJHG_ECOLI : 188- 201: lvpgg AtlpAkdge-DngkV qtiga I 9: 11.5102 21( 11) L-x(3,5)-I-A Occurences: 21(11) EDD_ECOLI : 64- 69: slksm Lrnn--IA iitsy EDD_ECOLI : 126- 133: gmels LlsrevIA msaav EDD_ECOLI : 127- 133: melsl Lsrev-IA msaav EDD_ECOLI : 402- 408: gaeks Ldsnv-IA sfeqp EDD_ECOLI : 498- 505: plgvl LdrcfkIA lvtdg EDD_PSEAE : 128- 135: gmels LasrdvIA mstai EDD_PSEAE : 307- 313: stnht Lhlla-IA qaagi EDD_ZYMMO : 128- 135: gmees LfsrdvIA latsv ILV3_YEAST : 115- 122: gmrys LqsreiIA dsfet ILVD_CLOPA : 91- 98: gmsys LpsrqlIA dsvei ILVD_CLOPA : 271- 278: cstns LlhlpaIA nevgi ILVD_CLOPA : 272- 278: stnsl Lhlpa-IA nevgi ILVD_ECOLI : 83- 90: gmlys LpsrelIA dsvey ILVD_ECOLI : 244- 249: ndesa Lprn--IA skaaf ILVD_HAEIN : 94- 101: gmlys LpsrdlIA dsvey ILVD_LACLA : 107- 114: gmrys LvsrevIA dsiet ILVD_RHOCA : 40- 45: gglav Lfgn--IA e ILVD_SALTY : 12- 18: siqlq Lseae-IA arrea YJHG_ECOLI : 173- 180: atmma LaaqhnIA tvlvp YJHG_ECOLI : 313- 320: gstnl LlhipaIA hqagc YJHG_ECOLI : 314- 320: stnll Lhipa-IA hqagc J 10: 11.5102 16( 11) S-x(3,4)-G-x(0,1)-A Occurences: 16(11) EDD_ECOLI : 424- 430: gtkvl Sgnl-GrA vmkts EDD_ECOLI : 592- 598: lrekl SgaeqG-A tcitf EDD_PSEAE : 593- 599: mrnam SsaeeG-A csfte EDD_PSEAE : 594- 599: rnams Saee-G-A csfte EDD_ZYMMO : 46- 53: pnlsc SnlahGfA amngd ILV3_YEAST : 411- 417: qilyg SlapgG-A vgkit ILV3_YEAST : 411- 417: qilyg Slap-GgA vgkit ILVD_CLOPA : 204- 210: smncl Sevl-GlA lpyng ILVD_ECOLI : 406- 412: lehay Skdg-GlA vlygn ILVD_ECOLI : 490- 496: tsflk Smgl-GkA calit ILVD_ECOLI : 591- 596: aslat Sadk-G-A vrdks ILVD_HAEIN : 417- 423: kenai Sqeg-GlA vlfgn ILVD_HAEIN : 599- 604: ghfat Sadk-G-A vrdkt ILVD_LACLA : 465- 470: mlkpt Sali-G-A glgks ILVD_RHOCA : 32- 38: aehaf Skdg-GlA vlfgn ILVD_SALTY : 54- 59: aslat Sadk-G-A vrdks YJHG_ECOLI : 537- 543: tdarf SgvstG-A cighv K 11: 11.5102 18( 11) A-x(1,2)-A-x(4,5)-G Occurences: 18(11) EDD_ECOLI : 98- 106: kalhe An-AvgqvaG gvpam EDD_PSEAE : 457- 466: ifhdq AslAaafkaG elerd EDD_ZYMMO : 386- 393: eeyak Ap-Alnda-G elvwk ILV3_YEAST : 38- 47: pkgqg AsqAmlyatG fkked ILV3_YEAST : 231- 238: tantm As-Aaevl-G ltipn ILV3_YEAST : 379- 388: tlaer AkkApslpeG qeiik ILVD_CLOPA : 105- 112: sveiv As-Ahafd-G ivlvp ILVD_CLOPA : 257- 265: eafmn AitAdmal-G cstns ILVD_ECOLI : 496- 503: mglgk Ac-Alitd-G rfsgg ILVD_ECOLI : 586- 595: alray AslAtsadkG avrdk ILVD_HAEIN : 18- 26: rnmag Ar-AlwratG mkend ILVD_HAEIN : 461- 468: esqed Av-Agilg-G kvkeg ILVD_LACLA : 29- 38: rstqp AtqAmyygiG fkded ILVD_LACLA : 217- 224: tantl Aa-Aietl-G mslpy ILVD_RHOCA : 27- 35: gvirs AehAfskd-G glavl ILVD_RHOCA : 27- 36: gvirs AehAfskdgG lavlf ILVD_SALTY : 49- 58: alray AslAtsadkG avrdk YJHG_ECOLI : 225- 232: ragck Ac-Assgg-G cqflg YJHG_ECOLI : 552- 559: hvgpe Al-Aeapi-G klrtg L 12: 11.5102 20( 11) V-x(1,3)-A-x(2)-A Occurences: 20(11) EDD_ECOLI : 131- 136: llsre Vi--AmsA avgls EDD_ECOLI : 308- 314: htmhl Vam-AraA giqin EDD_ECOLI : 457- 463: esqhd Vmp-AfeA glldr EDD_ECOLI : 557- 563: eltll Vde-AelA areph EDD_PSEAE : 101- 107: actrs Vrs-AsvA ggvpa EDD_PSEAE : 293- 298: aivns Vv--AllA tggst EDD_ZYMMO : 459- 465: sdqdd Vqk-AfkA gelnk ILV3_YEAST : 305- 311: avlhl Vav-AhsA gvkls ILVD_CLOPA : 160- 166: tdlsg Vfe-AvgA vkagn ILVD_CLOPA : 164- 169: gvfea Vg--AvkA gnmte ILVD_ECOLI : 97- 102: sveym Vn--AhcA damvc ILVD_ECOLI : 549- 555: giqlq Vsd-AelA arrea ILVD_ECOLI : 578- 584: nrerq Vsf-AlrA yasla ILVD_HAEIN : 108- 113: sveym Vn--AhcA damvc ILVD_LACLA : 174- 179: eklni Vs--AfeA lgqki ILVD_LACLA : 551- 556: katrg Vl--AkfA kltrp ILVD_RHOCA : 23- 30: drqag VirsAehA fskdg ILVD_SALTY : 41- 47: nrqrq Vsf-AlrA yasla YJHG_ECOLI : 102- 108: kaaae Vik-AnhA lpyav YJHG_ECOLI : 357- 362: vyhpt Vn--AfmA ggvpe M 13: 11.5102 18( 11) E-A-x(1,3)-G Occurences: 18(11) EDD_ECOLI : 97- 102: rkalh EAnavG qvagg EDD_ECOLI : 528- 532: ihvtp EAyd-G gllak EDD_ECOLI : 528- 533: ihvtp EAydgG llakv EDD_PSEAE : 530- 534: ihvsp EAia-G gplar EDD_PSEAE : 530- 535: ihvsp EAiagG plarl EDD_ZYMMO : 530- 533: lhvsp EAl--G ggaig EDD_ZYMMO : 530- 534: lhvsp EAlg-G gaigk EDD_ZYMMO : 530- 535: lhvsp EAlggG aigkl ILV3_YEAST : 444- 449: egafi EAlerG eikkg ILV3_YEAST : 514- 518: ghivp EAae-G gpigl ILV3_YEAST : 514- 519: ghivp EAaegG piglv ILVD_CLOPA : 162- 165: lsgvf EAv--G avkag ILVD_ECOLI : 54- 57: vaeqi EAa--G gvake ILVD_ECOLI : 54- 58: vaeqi EAag-G vakef ILVD_ECOLI : 198- 201: mnclt EAl--G lsqpg ILVD_ECOLI : 452- 456: qddav EAil-G gkvva ILVD_ECOLI : 452- 457: qddav EAilgG kvvag ILVD_ECOLI : 520- 524: ghvsp EAas-G gsigl ILVD_ECOLI : 520- 525: ghvsp EAasgG sigli ILVD_HAEIN : 209- 212: mnclt EAl--G lslpg ILVD_HAEIN : 531- 535: ghvsp EAas-G gaigl ILVD_HAEIN : 531- 536: ghvsp EAasgG aiglv ILVD_LACLA : 178- 181: ivsaf EAl--G qkitg ILVD_LACLA : 499- 503: ghivp EAve-G gligl ILVD_LACLA : 499- 504: ghivp EAvegG liglv ILVD_RHOCA : 4- 9: rtt EAfstG nryke ILVD_SALTY : 25- 28: rreaq EAr--G dkawt YJHG_ECOLI : 555- 559: peala EApi-G klrtg N 14: 11.0102 33( 11) L-x(0,1)-A-x(3,5)-G Occurences: 33(11) EDD_ECOLI : 171- 179: lsfgh LpAvfvpsG pmasg EDD_ECOLI : 307- 315: nhtmh LvAmaraaG iqinw EDD_ECOLI : 332- 340: sdvvp LmArlypnG padin EDD_ECOLI : 534- 541: aydgg LlAkvrd-G diirv EDD_ECOLI : 535- 541: ydggl L-Akvrd-G diirv EDD_ECOLI : 572- 578: phipd LsAsrv--G tgrel EDD_ECOLI : 572- 580: phipd LsAsrvgtG relfs EDD_PSEAE : 164- 170: ivpgl LsAasf--G hlptv EDD_PSEAE : 309- 317: nhtlh LlAiaqaaG iqltw EDD_PSEAE : 310- 317: htlhl L-AiaqaaG iqltw EDD_PSEAE : 335- 342: hvvpt L-AriypnG qadin EDD_PSEAE : 459- 466: hdqas LaAafka-G elerd EDD_PSEAE : 459- 466: hdqas L-AaafkaG elerd EDD_PSEAE : 472- 480: elerd LvAvvrfqG prang EDD_PSEAE : 537- 543: iaggp L-Arlrd-G drvrv EDD_ZYMMO : 198- 205: irirq LyAqgki-G qkell EDD_ZYMMO : 334- 342: sevvp LiAriypnG prdin ILV3_YEAST : 255- 262: vskek L-AecdniG eyikk ILV3_YEAST : 304- 312: navlh LvAvahsaG vklsp ILV3_YEAST : 412- 419: ilygs L-ApggavG kitgk ILVD_CLOPA : 146- 152: sggpm L-Agntc-G katdl ILVD_CLOPA : 209- 215: sevlg L-Alpyn-G tipav ILVD_CLOPA : 227- 232: serlr L-Akts--G mkivd ILVD_CLOPA : 274- 282: nsllh LpAianevG itid ILVD_ECOLI : 411- 416: skdgg L-Avly--G nfaen ILVD_ECOLI : 588- 595: rayas L-AtsadkG avrdk ILVD_HAEIN : 285- 293: ntvlh LlAaaqeaG vdfkm ILVD_HAEIN : 286- 293: tvlhl LaAaqea-G vdfkm ILVD_HAEIN : 286- 293: tvlhl L-AaaqeaG vdfkm ILVD_HAEIN : 422- 427: sqegg L-Avlf--G nlaed ILVD_LACLA : 216- 224: ytant LaAaietlG mslpy ILVD_RHOCA : 37- 42: skdgg L-Avlf--G niae ILVD_SALTY : 51- 58: rayas L-AtsadkG avrdk YJHG_ECOLI : 83- 88: gkpva L-Alhq--G hyeld YJHG_ECOLI : 553- 559: vgpea L-Aeapi-G klrtg YJHG_ECOLI : 626- 632: rlwam LqAvsg--G twtgc O 15: 11.0102 28( 11) A-x(0,1)-S-x(3,5)-G Occurences: 28(11) EDD_ECOLI : 133- 139: srevi AmSaav--G lshnm EDD_ECOLI : 212- 219: llese AaSyhap-G tctfy EDD_ECOLI : 213- 219: lesea A-Syhap-G tctfy EDD_ECOLI : 574- 580: ipdls A-Srvgt-G relfs EDD_PSEAE : 30- 38: emvra AaSkgphrG tlpcg EDD_PSEAE : 31- 38: mvraa A-SkgphrG tlpcg EDD_PSEAE : 104- 109: rsvrs A-Svag--G vpamc EDD_PSEAE : 214- 220: lasem A-Syhap-G tctfy EDD_PSEAE : 591- 598: afmrn AmSsaee-G acsft EDD_ZYMMO : 137- 145: dvial AtSvslshG mfega ILV3_YEAST : 231- 238: tantm A-SaaevlG ltipn ILV3_YEAST : 382- 388: erakk ApSlpe--G qeiik ILVD_CLOPA : 105- 112: sveiv A-SahafdG ivlvp ILVD_ECOLI : 404- 410: rsleh AySkdg--G lavly ILVD_ECOLI : 521- 528: hvspe AaSggsi-G liedg ILVD_ECOLI : 522- 528: vspea A-Sggsi-G liedg ILVD_ECOLI : 589- 595: ayasl AtSadk--G avrdk ILVD_HAEIN : 268- 276: dafen AmSldiamG gssnt ILVD_HAEIN : 415- 421: rnken AiSqeg--G lavlf ILVD_HAEIN : 532- 539: hvspe AaSggai-G lvrng ILVD_HAEIN : 533- 539: vspea A-Sggai-G lvrng ILVD_HAEIN : 597- 603: vfghf AtSadk--G avrdk ILVD_LACLA : 114- 122: srevi AdSietnaG aeyyd ILVD_RHOCA : 30- 36: rsaeh AfSkdg--G lavlf ILVD_SALTY : 52- 58: ayasl AtSadk--G avrdk YJHG_ECOLI : 160- 165: avigv A-Scdk--G lpatm YJHG_ECOLI : 227- 232: gckac A-Ssgg--G cqflg YJHG_ECOLI : 628- 636: wamlq AvSggtwtG ciydv P 16: 11.0102 26( 11) S-x(3,4)-A-x(1,3)-S Occurences: 26(11) EDD_ECOLI : 128- 135: elsll SreviAm--S aavgl EDD_PSEAE : 130- 137: elsla SrdviAm--S taial EDD_PSEAE : 137- 143: dviam Stai-Al--S hnmfd EDD_PSEAE : 260- 268: lrdel Srea-ArqaS rltpe EDD_PSEAE : 594- 601: rnams SaeegAc--S ftesl EDD_ZYMMO : 130- 139: eeslf SrdviAlatS vslsh ILV3_YEAST : 117- 124: ryslq SreiiAd--S fetim ILV3_YEAST : 244- 251: ltipn SssfpAv--S kekla ILV3_YEAST : 245- 251: tipns Ssfp-Av--S kekla ILVD_CLOPA : 93- 100: syslp SrqliAd--S veiva ILVD_CLOPA : 192- 199: tcgsc SgmytAn--S mncls ILVD_ECOLI : 85- 92: lyslp SreliAd--S veymv ILVD_ECOLI : 185- 192: tcgsc SgmftAn--S mnclt ILVD_ECOLI : 400- 406: ngcir Sleh-Ay--S kdggl ILVD_ECOLI : 518- 526: sighv Spea-AsggS iglie ILVD_ECOLI : 579- 587: rerqv SfalrAya-S latsa ILVD_HAEIN : 96- 103: lyslp SrdliAd--S veymv ILVD_HAEIN : 196- 203: tcgsc SgmftAn--S mnclt ILVD_HAEIN : 270- 278: fenam Sldi-AmggS sntvl ILVD_LACLA : 109- 116: ryslv SreviAd--S ietna ILVD_LACLA : 230- 237: mslpy SssnpAv--S qekqe ILVD_LACLA : 231- 237: slpys Ssnp-Av--S qekqe ILVD_RHOCA : 26- 32: agvir Saeh-Af--S kdggl ILVD_SALTY : 42- 50: rqrqv SfalrAya-S latsa YJHG_ECOLI : 273- 281: eiara Sara-AlnlS qkgit YJHG_ECOLI : 529- 537: ygkhv SlitdArf-S gvstg Q 17: 11.0102 25( 11) V-x(2,4)-A-x(2,3)-A Occurences: 25(11) EDD_ECOLI : 288- 296: dekvv VngivAll-A tggst EDD_ECOLI : 308- 314: htmhl Vam--Ara-A giqin EDD_ECOLI : 457- 463: esqhd Vmp--Afe-A glldr EDD_ECOLI : 557- 563: eltll Vde--Ael-A areph EDD_ECOLI : 557- 564: eltll Vde--AelaA rephi EDD_PSEAE : 101- 107: actrs Vrs--Asv-A ggvpa EDD_PSEAE : 194- 203: kekaa VrqlfAegkA treel EDD_PSEAE : 290- 298: dekai VnsvvAll-A tggst EDD_PSEAE : 557- 566: ngelr VlvddAewqA rslep EDD_PSEAE : 559- 566: elrvl Vdd--AewqA rslep EDD_ZYMMO : 459- 465: sdqdd Vqk--Afk-A gelnk ILV3_YEAST : 305- 311: avlhl Vav--Ahs-A gvkls ILVD_CLOPA : 101- 109: liads Veiv-AsahA fdgiv ILVD_CLOPA : 160- 166: tdlsg Vfe--Avg-A vkagn ILVD_ECOLI : 549- 555: giqlq Vsd--Ael-A arrea ILVD_ECOLI : 549- 556: giqlq Vsd--AelaA rreaq ILVD_ECOLI : 578- 584: nrerq Vsf--Alr-A yasla ILVD_HAEIN : 528- 537: lsigh VspeaAsggA iglvr ILVD_HAEIN : 592- 600: sfalk VfghfAts-A dkgav ILVD_LACLA : 287- 296: gstna VlhiiAmanA igvei ILVD_RHOCA : 23- 30: drqag Virs-Aeh-A fskdg ILVD_SALTY : 41- 47: nrqrq Vsf--Alr-A yasla YJHG_ECOLI : 102- 108: kaaae Vik--Anh-A lpyav YJHG_ECOLI : 184- 192: iatvl Vpgg-AtlpA kdged YJHG_ECOLI : 201- 209: edngk VqtigArf-A ngels YJHG_ECOLI : 265- 274: psgep VwreiArasA raaln YJHG_ECOLI : 548- 556: acigh Vgpe-AlaeA pigkl R 18: 11.0102 43( 11) A-x(0,2)-G-x(0,1)-V Occurences: 43(11) EDD_ECOLI : 100- 104: lhean Av-GqV aggvp EDD_ECOLI : 105- 108: avgqv Ag-G-V pamcd EDD_ECOLI : 105- 108: avgqv A--GgV pamcd EDD_ECOLI : 198- 202: irqly Ae-GkV drmal EDD_ECOLI : 349- 353: inhfq AagG-V pvlvr EDD_ECOLI : 349- 353: inhfq Aa-GgV pvlvr EDD_ECOLI : 350- 353: nhfqa Ag-G-V pvlvr EDD_ECOLI : 350- 353: nhfqa A--GgV pvlvr EDD_ECOLI : 515- 519: grlsg As-GkV psaih EDD_PSEAE : 46- 49: pcgnl Ah-G-V aacge EDD_PSEAE : 107- 110: rsasv Ag-G-V pamcd EDD_PSEAE : 107- 110: rsasv A--GgV pamcd EDD_PSEAE : 517- 521: grmsg As-GkV paaih EDD_ZYMMO : 107- 110: atvqv Ag-G-V pamcd EDD_ZYMMO : 107- 110: atvqv A--GgV pamcd EDD_ZYMMO : 315- 318: paiar Aa-G-V ivnwn EDD_ZYMMO : 316- 318: aiara A--G-V ivnwn EDD_ZYMMO : 495- 498: hkltp Al-G-V lqdng EDD_ZYMMO : 517- 521: grmsg At-GkV pvalh ILV3_YEAST : 311- 313: avahs A--G-V klspd ILV3_YEAST : 413- 418: lygsl ApgGaV gkitg ILV3_YEAST : 577- 582: klvsn AsnGcV lda ILVD_CLOPA : 64- 67: dgvrm Ag-G-V pvtfg ILVD_CLOPA : 64- 67: dgvrm A--GgV pvtfg ILVD_CLOPA : 109- 114: vasah AfdGiV lvpnc ILVD_CLOPA : 163- 167: sgvfe Av-GaV kagnm ILVD_ECOLI : 55- 59: aeqie AagG-V akefn ILVD_ECOLI : 55- 59: aeqie Aa-GgV akefn ILVD_ECOLI : 56- 59: eqiea Ag-G-V akefn ILVD_ECOLI : 56- 59: eqiea A--GgV akefn ILVD_ECOLI : 318- 321: edvhr Ag-G-V igilg ILVD_ECOLI : 318- 321: edvhr A--GgV igilg ILVD_ECOLI : 428- 430: civkt A--G-V ddsil ILVD_ECOLI : 461- 464: ggkvv A--GdV vviry ILVD_ECOLI : 592- 597: slats AdkGaV rdksk ILVD_HAEIN : 67- 70: aeiek Ag-G-V akefn ILVD_HAEIN : 67- 70: aeiek A--GgV akefn ILVD_HAEIN : 292- 294: aaaqe A--G-V dfkme ILVD_HAEIN : 439- 441: civkt A--G-V desiw ILVD_HAEIN : 537- 541: aasgg Ai-GlV rngdi ILVD_HAEIN : 600- 605: hfats AdkGaV rdktl ILVD_LACLA : 47- 52: edfkk AqvGiV smdwd ILVD_LACLA : 296- 299: iaman Ai-G-V eitqd ILVD_LACLA : 400- 405: lygnl AqgGsV akisg ILVD_LACLA : 440- 443: sgrlh A--GdV avirn ILVD_LACLA : 547- 551: kptpk AtrG-V lakfa ILVD_LACLA : 562- 567: kltrp AseGcV tdl ILVD_RHOCA : 21- 23: drdrq A--G-V irsae ILVD_SALTY : 55- 60: slats AdkGaV rdksk YJHG_ECOLI : 155- 159: lpdak AviG-V ascdk YJHG_ECOLI : 362- 365: vnafm Ag-G-V pevml YJHG_ECOLI : 362- 365: vnafm A--GgV pevml YJHG_ECOLI : 445- 450: pvgni ApeGsV iksta YJHG_ECOLI : 543- 548: gvstg AciGhV gpeal S 19: 11.0102 29( 11) A-x(0,1)-V-x(1,3)-S Occurences: 29(11) EDD_ECOLI : 136- 141: viams AaVgl-S hnmfd EDD_ECOLI : 137- 141: iamsa A-Vgl-S hnmfd EDD_ECOLI : 173- 178: fghlp A-VfvpS gpmas EDD_ECOLI : 430- 435: gnlgr A-VmktS avpve EDD_ECOLI : 448- 453: vieap AvVfe-S qhdvm EDD_ECOLI : 448- 453: vieap A-VvfeS qhdvm EDD_PSEAE : 66- 72: rlmnq AnVaivS ayndm EDD_PSEAE : 288- 292: ivdek AiVn--S vvall EDD_ZYMMO : 13- 19: vekvt ArVierS retrk EDD_ZYMMO : 448- 454: fwtie ApVrvfS dqddv ILV3_YEAST : 306- 310: vlhlv A-Vah-S agvkl ILV3_YEAST : 311- 316: avahs AgVkl-S pddfq ILVD_CLOPA : 137- 141: rldip AiVi--S ggpml ILVD_CLOPA : 219- 222: ngtip A-Vy--S erlrl ILVD_ECOLI : 27- 31: gkpii AvVn--S ftqfv ILVD_ECOLI : 27- 31: gkpii A-Vvn-S ftqfv ILVD_ECOLI : 104- 109: ahcad AmVci-S ncdki ILVD_ECOLI : 428- 433: civkt AgVdd-S ilkft ILVD_ECOLI : 441- 446: kftgp AkVye-S qddav ILVD_ECOLI : 596- 601: sadkg A-VrdkS klgg ILVD_HAEIN : 38- 42: gkpii AvVn--S ftqfv ILVD_HAEIN : 38- 42: gkpii A-Vvn-S ftqfv ILVD_HAEIN : 115- 120: ahcad AmVci-S ncdki ILVD_HAEIN : 252- 258: yeqdd AsVlprS igtfd ILVD_HAEIN : 439- 444: civkt AgVde-S iwkft ILVD_HAEIN : 452- 457: kftgt AiVfe-S qedav ILVD_LACLA : 47- 53: edfkk AqVgivS mdwdg ILVD_LACLA : 519- 523: iieid A-Vnn-S islkv ILVD_RHOCA : 21- 26: drdrq AgVir-S aehaf ILVD_SALTY : 59- 64: sadkg A-VrdkS klgg YJHG_ECOLI : 112- 116: halpy A-Vyv-S dpcdg YJHG_ECOLI : 473- 478: yhkgv AkVyl-S eksai T 20: 11.0102 20( 11) A-x(0,2)-I-x(1,2)-A Occurences: 20(11) EDD_ECOLI : 25- 30: rsayl Ar-IeqA ktstv EDD_PSEAE : 69- 73: nqanv A--IvsA yndml EDD_PSEAE : 311- 315: tlhll A--IaqA agiql EDD_ZYMMO : 311- 315: tmhip A--IarA agviv ILV3_YEAST : 441- 445: feeeg Af-Ie-A lerge ILVD_CLOPA : 257- 260: eafmn A--It-A dmalg ILVD_ECOLI : 50- 55: lgklv AeqIe-A aggva ILVD_ECOLI : 50- 56: lgklv AeqIeaA ggvak ILVD_ECOLI : 156- 161: ldlvd Am-IqgA dpkvs ILVD_HAEIN : 61- 67: mgqlv AaeIekA ggvak ILVD_HAEIN : 62- 67: gqlva Ae-IekA ggvak ILVD_HAEIN : 167- 171: ldlvd Am-Ie-A adpnv ILVD_HAEIN : 167- 172: ldlvd Am-IeaA dpnvs ILVD_LACLA : 128- 131: aeyyd A--Iv-A ipgcd ILVD_LACLA : 466- 470: lkpts Al-Ig-A glgks ILVD_RHOCA : 21- 27: drdrq AgvIrsA ehafs ILVD_SALTY : 15- 19: lqlse Ae-Ia-A rreaq YJHG_ECOLI : 100- 105: qmkaa AevIk-A nhalp YJHG_ECOLI : 155- 160: lpdak Av-IgvA scdkg YJHG_ECOLI : 295- 299: iltdk A--IenA mtvha YJHG_ECOLI : 597- 603: psqee AtaIlnA rpshq YJHG_ECOLI : 599- 603: qeeat A--IlnA rpshq Number of patterns evaluated by Pratt:441 Total running time: 1 seconds