------------------------------------------------------------ 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 DIHYDROOROTASE_2 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 DIHYDROOROTASE_2.pratt2 OP: PROSITE Pattern Format on ON: max number patterns 20 OA: max number Alignments 20 M: Print Patterns in sequences off Sequence lengths: ALLA_RANCA 484 ALLA_YEAST 460 PYR1_DICDI 2185 PYR1_DROME 2236 PYR1_HUMAN 474 PYR1_MESAU 2225 PYRC_BACCL 427 PYRC_BACSU 428 PYRC_ECOLI 347 PYRC_SALTY 347 PYRC_USTMA 391 PYRC_YEAST 364 Pratt run started at Thu Feb 6 19:18:28 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 12.0102 20( 12) A-x(0,1)-G-x(2)-V 2: 12.0102 19( 12) D-x(2)-V-x(4,5)-G 3: 12.0102 21( 12) L-x(3,4)-G-x-V 4: 12.0102 24( 12) E-x(3,4)-A-L 5: 12.0102 13( 12) G-x(1,2)-D-x(3)-H 6: 12.0102 13( 12) V-x(3)-A-x(0,1)-K 7: 12.0102 22( 12) A-x(0,1)-P-x-T 8: 11.5102 27( 12) A-G-x(0,2)-V 9: 11.5102 21( 12) L-x(0,1)-V-x(0,1)-P 10: 11.5102 26( 12) L-x(3,4)-A-x(2,3)-T 11: 11.5102 25( 12) D-x(2,3)-V-x(4,5)-G 12: 11.5102 25( 12) G-x(3,4)-L-x(0,1)-V 13: 11.5102 38( 12) A-x(0,1)-L-x(3,4)-A 14: 11.5102 29( 12) E-x(2,4)-A-L 15: 11.5102 43( 12) L-x(2,3)-A-x(0,1)-A 16: 11.5102 28( 12) A-L-x(1,3)-A 17: 11.5102 36( 12) A-x(0,1)-L-x(2,3)-A 18: 11.5102 22( 12) A-x(1,3)-G-x(2)-A 19: 11.5102 19( 12) A-x(4)-A-x(0,2)-V 20: 11.5102 33( 12) A-x(3,4)-G-x(3,4)-V Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 13.1290 21( 12) L-x(2,3)-A-x(0,1)-A-[ADGSTV] B 2: 12.0102 20( 12) A-x(0,1)-G-x(2)-V C 3: 12.0102 19( 12) D-x(2)-V-x(4,5)-G D 4: 12.0102 21( 12) L-x(3,4)-G-x-V E 5: 12.0102 24( 12) E-x(3,4)-A-L F 6: 12.0102 13( 12) G-x(1,2)-D-x(3)-H G 7: 12.0102 13( 12) V-x(3)-A-x(0,1)-K H 8: 12.0102 22( 12) A-x(0,1)-P-x-T I 9: 11.5102 27( 12) A-G-x(0,2)-V J 10: 11.5102 21( 12) L-x(0,1)-V-x(0,1)-P K 11: 11.5102 26( 12) L-x(3,4)-A-x(2,3)-T L 12: 11.5102 25( 12) D-x(2,3)-V-x(4,5)-G M 13: 11.5102 25( 12) G-x(3,4)-L-x(0,1)-V N 14: 11.5102 38( 12) A-x(0,1)-L-x(3,4)-A O 15: 11.5102 29( 12) E-x(2,4)-A-L P 16: 11.5102 28( 12) A-L-x(1,3)-A Q 17: 11.5102 36( 12) A-x(0,1)-L-x(2,3)-A R 18: 11.5102 22( 12) A-x(1,3)-G-x(2)-A S 19: 11.5102 19( 12) A-x(4)-A-x(0,2)-V T 20: 11.5102 33( 12) A-x(3,4)-G-x(3,4)-V Best patterns with alignements: fitness hits(seqs) Pattern A 1: 13.1290 21( 12) L-x(2,3)-A-x(0,1)-A-[ADGSTV] Occurences: 21(12) ALLA_RANCA : 95- 100: yrtat Laa-A-AG gitai ALLA_YEAST : 259- 266: mkaip LirkArAS glpvt PYR1_DICDI : 226- 232: rkvla Lpv-AkAV fgvcm PYR1_DICDI : 241- 247: cmgnq LlglA-AG aqthk PYR1_DICDI : 242- 247: mgnql Lgl-A-AG aqthk PYR1_DICDI : 549- 556: eqlta LvteAmAT ssqvl PYR1_DICDI : 1089- 1094: dletf Lte-A-AA vsrdh PYR1_DICDI : 1089- 1095: dletf LteaA-AV srdhp PYR1_DICDI : 1089- 1095: dletf Lte-AaAV srdhp PYR1_DROME : 119- 126: rkwkt LpelAeAT trcpe PYR1_HUMAN : 69- 76: gavpq LppsApAT semtt PYR1_MESAU : 538- 544: eaans Leq-AqAA aerlg PYR1_MESAU : 1111- 1116: dlerf Lss-A-AA vskeh PYR1_MESAU : 1111- 1117: dlerf LssaA-AV skehp PYR1_MESAU : 1111- 1117: dlerf Lss-AaAV skehp PYRC_BACCL : 219- 225: iardv LlaeA-AG chyhv PYRC_BACCL : 220- 225: ardvl Lae-A-AG chyhv PYRC_BACCL : 369- 376: lkagr LavgApAD iavid PYRC_BACSU : 343- 349: cqkwq LvteA-AD ltymt PYRC_ECOLI : 103- 109: ftaak Lyp-AnAT tnssh PYRC_SALTY : 103- 109: ftaak Lyp-AnAT tnssh PYRC_SALTY : 275- 281: napsa LgsyA-AV feemn PYRC_USTMA : 59- 65: qamey LerlA-AV apqtm PYRC_USTMA : 138- 145: nlhge LpsnAdAG icvln PYRC_YEAST : 242- 247: ndkra Lvk-A-AV sgkpy B 2: 12.0102 20( 12) A-x(0,1)-G-x(2)-V Occurences: 20(12) ALLA_RANCA : 49- 54: issvl AwGkhV tsgak ALLA_YEAST : 265- 270: irkar AsGlpV ttetc PYR1_DICDI : 2004- 2008: kpiin A-GdgV gehpt PYR1_DROME : 366- 370: ascwt A-GhgV pvrcl PYR1_DROME : 1371- 1376: hcdfy AnGvnV esvqw PYR1_HUMAN : 294- 298: rpvin A-GdgV gehpt PYR1_MESAU : 24- 28: aavst A-GevV fqtgm PYR1_MESAU : 84- 88: senhv A-GlvV geccp PYR1_MESAU : 608- 613: evvrd AyGncV tvcnm PYR1_MESAU : 819- 823: aaalw A-GysV erlye PYR1_MESAU : 1272- 1276: sfsrl A-GadV vlgve PYR1_MESAU : 1629- 1634: iktak AqGlpV tceva PYR1_MESAU : 2045- 2049: rpvin A-GdgV gehpt PYRC_BACCL : 248- 252: rdakr A-GirV taevt PYRC_BACSU : 46- 51: etvid AkGllV spgfv PYRC_BACSU : 246- 250: rdakk A-GirV taevs PYRC_ECOLI : 337- 341: lvpfl A-GetV rwsvk PYRC_SALTY : 337- 341: lvpfl A-GetV rwsvk PYRC_USTMA : 144- 148: psnad A-GicV lnaee PYRC_YEAST : 222- 226: tiddw A-GnpV nfckp C 3: 12.0102 19( 12) D-x(2)-V-x(4,5)-G Occurences: 19(12) ALLA_RANCA : 74- 83: magii DphVhvnepG rtdwe ALLA_YEAST : 68- 77: lpglv DshVhlnepG rtswe PYR1_DICDI : 337- 345: teylf DnfVdnvc-G eqqhk PYR1_DICDI : 758- 767: irmvm DgaVegfqaG vfpts PYR1_DICDI : 1437- 1446: lpglv DvhVhlrepG athke PYR1_DROME : 1953- 1961: lrgtk DrpVallp-G kimas PYR1_DROME : 2060- 2069: ldift DprVggtvnG ltitm PYR1_HUMAN : 45- 53: evayi DgqVlvpp-G ygqdv PYR1_MESAU : 1469- 1478: lpgli DvhVhlrepG gthke PYR1_MESAU : 1796- 1804: evayi DgqVlvpp-G ygqdv PYRC_BACCL : 58- 67: vpgli DlhVhlrepG geake PYRC_BACCL : 151- 160: afaft DdgVgvqsaG mmfea PYRC_BACSU : 57- 66: spgfv DlhVhfrepG gekke PYRC_BACSU : 150- 159: afaft DdgVgiqtaG mmyea PYRC_ECOLI : 330- 338: ialtd DtlVpfla-G etvrw PYRC_SALTY : 14- 22: irrpd DwhVhlrd-G dmlkt PYRC_SALTY : 330- 338: ialad DslVpfla-G etvrw PYRC_USTMA : 13- 21: ipapg DfhVhlrq-G kmsel PYRC_YEAST : 12- 20: lgltc DmhVhvre-G amcel D 4: 12.0102 21( 12) L-x(3,4)-G-x-V Occurences: 21(12) ALLA_RANCA : 382- 388: sntak Lcgl-GiV keplk ALLA_YEAST : 32- 39: esgti LdvleGsV vmekt ALLA_YEAST : 236- 243: lilec LrarnGpV ppvhi PYR1_DICDI : 1746- 1752: tpfeg Lqvr-GkV vkvvl PYR1_DROME : 8- 15: stdcy LaledGtV lpgys PYR1_DROME : 1413- 1419: dlvin Lpms-GgV prrvs PYR1_DROME : 1984- 1990: faaam Lrlg-GrV ismdn PYR1_HUMAN : 206- 213: qkers LdilkGkV masmf PYR1_MESAU : 4- 11: maa LvledGsV lqgrp PYR1_MESAU : 1252- 1259: vepig LmtgsGvV gvkvp PYR1_MESAU : 1653- 1660: edler LgpgrGeV rpelg PYR1_MESAU : 1957- 1964: qkers LdilkGkV masmf PYRC_BACCL : 185- 191: ceddt Ltng-GaV hdgef PYRC_BACSU : 49- 56: idakg LlvspGfV dlhvh PYRC_BACSU : 50- 56: dakgl Lvsp-GfV dlhvh PYRC_BACSU : 184- 190: cedns Liyg-GsV hegtf PYRC_ECOLI : 136- 142: kigmp Llvh-GeV thadi PYRC_SALTY : 136- 142: klgip Llvh-GeV thadv PYRC_SALTY : 305- 312: pqfyg LpmntGwV elvrd PYRC_USTMA : 276- 282: sgsdh Leat-GvV scgca PYRC_YEAST : 297- 304: eeqna LenlkGfV sdfgi E 5: 12.0102 24( 12) E-x(3,4)-A-L Occurences: 24(12) ALLA_RANCA : 307- 313: ghrnk EalwnAL lqghi ALLA_YEAST : 174- 180: ppigk EyieeAL kvlae PYR1_DICDI : 544- 549: fadnk Eqlt-AL vteam PYR1_DICDI : 1636- 1642: pklgt EedlnAL wdnid PYR1_DICDI : 1637- 1642: klgte Edln-AL wdnid PYR1_DICDI : 2010- 2016: gdgvg EhptqAL ldvft PYR1_DROME : 235- 240: arled Eqfd-AL flsng PYR1_DROME : 1685- 1690: llcsp Edqe-AL wenid PYR1_DROME : 2048- 2054: pacrr EhshqAL ldift PYR1_DROME : 2079- 2085: mwrle ErtdrAL agppa PYR1_HUMAN : 300- 306: gdgvg EhptqAL ldift PYR1_HUMAN : 379- 385: kqeef EsieeAL pdtdv PYR1_MESAU : 572- 577: fastk Eels-AL vapaf PYR1_MESAU : 774- 780: grsfe EafqkAL rmvde PYR1_MESAU : 1668- 1673: elgsr Edme-AL wenma PYR1_MESAU : 2051- 2057: gdgvg EhptqAL ldift PYR1_MESAU : 2130- 2136: kqeef EsieeAL pdtdv PYRC_BACCL : 285- 290: plrsr Edrd-AL iegll PYRC_BACSU : 283- 288: plrsp Edra-AL iegll PYRC_ECOLI : 283- 288: yatvf Eemn-AL qhfea PYRC_SALTY : 283- 288: yaavf Eemn-AL ahfea PYRC_USTMA : 305- 310: wptll Eafg-AL dqlan PYRC_YEAST : 158- 164: vlnre EaflpAL kklhn PYRC_YEAST : 292- 297: iaqvf Eeqn-AL enlkg F 6: 12.0102 13( 12) G-x(1,2)-D-x(3)-H Occurences: 13(12) ALLA_RANCA : 71- 78: lvvma GiiDphvH vnepg ALLA_YEAST : 65- 72: ctilp GlvDshvH lnepg PYR1_DICDI : 1434- 1441: iirlp GlvDvhvH lrepg PYR1_DROME : 1484- 1491: ivklp GfiDvhvH lrsrs PYR1_HUMAN : 92- 99: rrgip GlpDgrfH lppri PYR1_MESAU : 1466- 1473: lvrlp GliDvhvH lrepg PYR1_MESAU : 1843- 1850: rrvip GlpDgrfH lppri PYRC_BACCL : 55- 62: rlivp GliDlhvH lrepg PYRC_BACSU : 54- 61: llvsp GfvDlhvH frepg PYRC_ECOLI : 248- 254: nrvfl Gt-DsapH arhrk PYRC_SALTY : 248- 254: trafl Gt-DsapH srhrk PYRC_USTMA : 243- 249: prffl Gs-DsapH plank PYRC_YEAST : 256- 262: pyfff Gs-DsapH pvqnk G 7: 12.0102 13( 12) V-x(3)-A-x(0,1)-K Occurences: 13(12) ALLA_RANCA : 54- 59: awgkh VtsgA-K lldvg ALLA_YEAST : 397- 403: dadlv VfdtAsK hkisn PYR1_DICDI : 786- 792: nnril VlasAfK dgysi PYR1_DICDI : 1160- 1166: atilk VeetArK iaeal PYR1_DROME : 176- 181: fvdpn VqdlA-K ecsvk PYR1_HUMAN : 280- 285: pqpga VelaA-K hcrrp PYR1_MESAU : 2031- 2036: pqpga VelaA-K hcrrp PYRC_BACCL : 241- 246: kesvr VvrdA-K ragir PYRC_BACSU : 239- 244: kesvr VvrdA-K kagir PYRC_BACSU : 239- 245: kesvr VvrdAkK agirv PYRC_ECOLI : 97- 102: gfneg VftaA-K lypan PYRC_SALTY : 97- 102: gfheg VftaA-K lypan PYRC_USTMA : 205- 211: hleli VddwAgK plnfc PYRC_YEAST : 264- 269: saphp VqnkA-K yegvc H 8: 12.0102 22( 12) A-x(0,1)-P-x-T Occurences: 22(12) ALLA_RANCA : 269- 272: akeag A-PlT vetth ALLA_YEAST : 106- 110: dmpln AiPpT tnven PYR1_DICDI : 1470- 1474: ftmvg AmPnT npaim PYR1_DICDI : 1657- 1660: iatdh A-PhT weekc PYR1_DROME : 621- 625: yevvr AmPtT tritv PYR1_DROME : 1519- 1523: ltlvc AmPnT npsiv PYR1_DROME : 1705- 1708: fatdh A-PhT laekr PYR1_HUMAN : 73- 76: qlpps A-PaT semtt PYR1_HUMAN : 384- 388: esiee AlPdT dvlym PYR1_MESAU : 1502- 1506: vtmvc AmPnT rppii PYR1_MESAU : 1688- 1691: fasdh A-PhT leekc PYR1_MESAU : 1824- 1827: qppps A-PaT teitt PYR1_MESAU : 2135- 2139: esiee AlPdT dvlym PYRC_BACCL : 91- 95: fttva AmPnT npapd PYRC_BACCL : 307- 310: iatdh A-PhT aaeka PYRC_BACSU : 90- 94: yttva AmPnT rpvpd PYRC_BACSU : 305- 308: iatdh A-PhT eeekn PYRC_ECOLI : 46- 50: vmpnl ApPvT tveaa PYRC_SALTY : 46- 50: vmpnl AsPiT tvdaa PYRC_USTMA : 66- 69: rlaav A-PqT mfvgt PYRC_USTMA : 263- 266: avthg A-PgT kasds PYRC_YEAST : 65- 68: tlqkl A-PkT tflms I 9: 11.5102 27( 12) A-G-x(0,2)-V Occurences: 27(12) ALLA_RANCA : 157- 159: ipmlq AG--V agfkc ALLA_YEAST : 151- 153: iplvk AG--V rgfkg PYR1_DICDI : 766- 768: vegfq AG--V fptsd PYR1_DICDI : 1136- 1138: ehven AG--V hsgda PYR1_DICDI : 2004- 2008: kpiin AGdgV gehpt PYR1_DICDI : 2183- 2185: alvfg AG--V PYR1_DROME : 366- 370: ascwt AGhgV pvrcl PYR1_DROME : 1177- 1179: ehven AG--V hsgda PYR1_HUMAN : 294- 298: rpvin AGdgV gehpt PYR1_MESAU : 24- 27: aavst AGe-V vfqtg PYR1_MESAU : 24- 28: aavst AGevV fqtgm PYR1_MESAU : 84- 87: senhv AGl-V vgecc PYR1_MESAU : 84- 88: senhv AGlvV geccp PYR1_MESAU : 491- 493: veltk AG--V laryg PYR1_MESAU : 819- 823: aaalw AGysV erlye PYR1_MESAU : 1158- 1160: ehven AG--V hsgda PYR1_MESAU : 1272- 1276: sfsrl AGadV vlgve PYR1_MESAU : 1494- 1497: taaal AGg-V tmvca PYR1_MESAU : 2045- 2049: rpvin AGdgV gehpt PYRC_BACCL : 248- 252: rdakr AGirV taevt PYRC_BACCL : 403- 406: kntpf AGw-V cqgwp PYRC_BACSU : 246- 250: rdakk AGirV taevs PYRC_ECOLI : 337- 341: lvpfl AGetV rwsvk PYRC_SALTY : 337- 341: lvpfl AGetV rwsvk PYRC_USTMA : 144- 148: psnad AGicV lnaee PYRC_USTMA : 386- 389: fwavs AGi-V rs PYRC_YEAST : 102- 104: vkcyp AG--V ttirl PYRC_YEAST : 222- 226: tiddw AGnpV nfckp PYRC_YEAST : 275- 277: yegvc AG--V ysqsf J 10: 11.5102 21( 12) L-x(0,1)-V-x(0,1)-P Occurences: 21(12) ALLA_RANCA : 466- 469: ytlws L-VkP vhpvh ALLA_YEAST : 137- 139: gfwgg L-V-P hnlpd PYR1_DICDI : 180- 184: nrgvd LkVvP wdydv PYR1_DICDI : 1064- 1067: vgfpc L-VrP syvls PYR1_DROME : 1105- 1108: vgypc L-VrP syvls PYR1_DROME : 1186- 1189: sgdat L-VtP pqdln PYR1_DROME : 1264- 1268: raivg LdVeP ldvlh PYR1_DROME : 1653- 1657: gvkvn LrVcP hhlfl PYR1_HUMAN : 49- 51: idgqv L-V-P pgygq PYR1_HUMAN : 49- 52: idgqv L-VpP gygqd PYR1_MESAU : 577- 580: eelsa L-VaP afaht PYR1_MESAU : 1167- 1170: sgdat L-VtP pqdit PYR1_MESAU : 1800- 1802: idgqv L-V-P pgygq PYR1_MESAU : 1800- 1803: idgqv L-VpP gygqd PYRC_BACCL : 51- 54: dvggr LiV-P glidl PYRC_BACSU : 49- 53: idakg LlVsP gfvdl PYRC_BACSU : 50- 53: dakgl L-VsP gfvdl PYRC_ECOLI : 332- 334: ltddt L-V-P flage PYRC_SALTY : 332- 334: ladds L-V-P flage PYRC_USTMA : 26- 29: gkmse L-VtP hvaeg PYRC_USTMA : 45- 47: yvmpn L-V-P pitst PYRC_USTMA : 45- 48: yvmpn L-VpP itstq PYRC_USTMA : 296- 298: ytssi L-V-P lwptl PYRC_YEAST : 25- 28: gamce L-VtP kirdg K 11: 11.5102 26( 12) L-x(3,4)-A-x(2,3)-T Occurences: 26(12) ALLA_RANCA : 95- 103: yrtat Laaa-AggiT aivdm ALLA_YEAST : 180- 188: yieea Lkvl-AeedT mmmfh PYR1_DICDI : 125- 134: fedin LrnlvAevsT keike PYR1_DICDI : 241- 250: cmgnq LlglaAgaqT hkmaf PYR1_DICDI : 242- 250: mgnql Lgla-AgaqT hkmaf PYR1_DICDI : 549- 556: eqlta Lvte-Ama-T ssqvl PYR1_DICDI : 620- 627: reyqm Lret-Aik-T vrhlg PYR1_DROME : 119- 126: rkwkt Lpel-Aea-T trcpe PYR1_DROME : 119- 127: rkwkt Lpel-AeatT rcpef PYR1_DROME : 216- 224: nqlrc LlqrgAsv-T fvpws PYR1_DROME : 217- 224: qlrcl Lqrg-Asv-T fvpws PYR1_DROME : 1287- 1295: apvqf LaapgAec-T agrra PYR1_DROME : 1514- 1523: rsgwr LtlvcAmpnT npsiv PYR1_HUMAN : 69- 76: gavpq Lpps-Apa-T semtt PYR1_MESAU : 193- 201: nqirc LcqlgAev-T vvpwn PYR1_MESAU : 577- 585: eelsa Lvap-AfahT sqvli PYR1_MESAU : 647- 656: dreyq LlrrtAikvT qhlgi PYR1_MESAU : 648- 656: reyql Lrrt-AikvT qhlgi PYRC_BACCL : 141- 150: tdfaa LkeagAfafT ddgvg PYRC_BACSU : 140- 149: tnfea LkeagAfafT ddgvg PYRC_BACSU : 343- 351: cqkwq LvteaAdl-T ymtik PYRC_BACSU : 343- 351: cqkwq Lvte-AadlT ymtik PYRC_BACSU : 368- 377: lpygt LqtgqAadiT lidle PYRC_ECOLI : 332- 340: ltddt LvpflAge-T vrwsv PYRC_SALTY : 234- 243: ihqqa LrelvAsgfT raflg PYRC_SALTY : 332- 340: ladds LvpflAge-T vrwsv PYRC_USTMA : 62- 69: eyler Laav-Apq-T mfvgt PYRC_YEAST : 61- 68: eykkt Lqkl-Apk-T tflms PYRC_YEAST : 61- 69: eykkt Lqkl-ApktT flmsf L 12: 11.5102 25( 12) D-x(2,3)-V-x(4,5)-G Occurences: 25(12) ALLA_RANCA : 74- 83: magii Dph-VhvnepG rtdwe ALLA_YEAST : 68- 77: lpglv Dsh-VhlnepG rtswe PYR1_DICDI : 197- 206: nesin DydgVfisn-G pgdps PYR1_DICDI : 337- 345: teylf Dnf-Vdnvc-G eqqhk PYR1_DICDI : 758- 767: irmvm Dga-VegfqaG vfpts PYR1_DICDI : 1437- 1446: lpglv Dvh-VhlrepG athke PYR1_DROME : 1207- 1216: kritc DlasVldvt-G pfnmq PYR1_DROME : 1953- 1961: lrgtk Drp-Vallp-G kimas PYR1_DROME : 2060- 2069: ldift Dpr-VggtvnG ltitm PYR1_HUMAN : 45- 53: evayi Dgq-Vlvpp-G ygqdv PYR1_MESAU : 1469- 1478: lpgli Dvh-VhlrepG gthke PYR1_MESAU : 1796- 1804: evayi Dgq-Vlvpp-G ygqdv PYRC_BACCL : 58- 67: vpgli Dlh-VhlrepG geake PYRC_BACCL : 151- 160: afaft Ddg-VgvqsaG mmfea PYRC_BACSU : 39- 48: kldat DnetVidak-G llvsp PYRC_BACSU : 57- 66: spgfv Dlh-VhfrepG gekke PYRC_BACSU : 150- 159: afaft Ddg-VgiqtaG mmyea PYRC_ECOLI : 329- 338: sialt DdtlVpfla-G etvrw PYRC_ECOLI : 330- 338: ialtd Dtl-Vpfla-G etvrw PYRC_SALTY : 13- 22: kirrp DdwhVhlrd-G dmlkt PYRC_SALTY : 14- 22: irrpd Dwh-Vhlrd-G dmlkt PYRC_SALTY : 329- 338: niala DdslVpfla-G etvrw PYRC_SALTY : 330- 338: ialad Dsl-Vpfla-G etvrw PYRC_USTMA : 13- 21: ipapg Dfh-Vhlrq-G kmsel PYRC_YEAST : 12- 20: lgltc Dmh-Vhvre-G amcel M 13: 11.5102 25( 12) G-x(3,4)-L-x(0,1)-V Occurences: 25(12) ALLA_RANCA : 57- 63: khvts Gakl-LdV gdlvv ALLA_YEAST : 132- 138: mwcdv GfwggL-V phnlp ALLA_YEAST : 390- 396: gtiap GydadL-V vfdta ALLA_YEAST : 390- 397: gtiap GydadLvV fdtas PYR1_DICDI : 856- 862: iarav Gtte-LnV rdyrk PYR1_DICDI : 1060- 1065: fcesv Gfpc-L-V rpsyv PYR1_DICDI : 1250- 1257: firlk GadpvLgV emast PYR1_DROME : 329- 335: eqlpd Gwse-LfV nandg PYR1_DROME : 1101- 1106: fceev Gypc-L-V rpsyv PYR1_DROME : 1182- 1187: agvhs Gdat-L-V tppqd PYR1_DROME : 1511- 1517: nssrs GwrltL-V campn PYR1_DROME : 1648- 1655: sakek GvkvnLrV cphhl PYR1_DROME : 1922- 1928: ahslm Gkhi-LaV dmfnk PYR1_HUMAN : 172- 178: lhslv Gqhi-LsV qqftk PYR1_MESAU : 549- 554: aaerl Gypv-L-V raafa PYR1_MESAU : 1163- 1168: agvhs Gdat-L-V tppqd PYR1_MESAU : 1273- 1280: fsrla GadvvLgV emtst PYR1_MESAU : 1444- 1451: algqi GpappLkV hvdcm PYR1_MESAU : 1923- 1929: lhslv Gqhi-LsV kqftk PYRC_BACCL : 55- 61: rlivp Glid-LhV hlrep PYRC_BACSU : 54- 60: llvsp Gfvd-LhV hfrep PYRC_ECOLI : 133- 138: rmeki Gmpl-L-V hgevt PYRC_SALTY : 133- 138: rmekl Gipl-L-V hgevt PYRC_SALTY : 310- 315: lpmnt Gwve-L-V rdeqq PYRC_USTMA : 21- 27: vhlrq GkmseL-V tphva PYRC_YEAST : 20- 26: vhvre GamceL-V tpkir N 14: 11.5102 38( 12) A-x(0,1)-L-x(3,4)-A Occurences: 38(12) ALLA_RANCA : 93- 99: egyrt AtLaaa-A ggita ALLA_YEAST : 179- 184: eyiee A-Lkvl-A eedtm PYR1_DICDI : 225- 231: irkvl A-LpvakA vfgvc PYR1_DICDI : 548- 553: keqlt A-Lvte-A matss PYR1_DICDI : 657- 664: iievn ArLsrssA laska PYR1_DICDI : 664- 669: lsrss A-Lask-A tgypl PYR1_DICDI : 682- 688: isakv A-LgydlA alrnt PYR1_DICDI : 1898- 1903: rkqlh A-Lfgi-A hemri PYR1_DICDI : 2178- 2183: rmsll A-Lvfg-A gv PYR1_DROME : 706- 711: lsrts A-Lask-A pgypl PYR1_DROME : 879- 885: gsrtd AaLllk-A krfgf PYR1_DROME : 880- 885: srtda A-Lllk-A krfgf PYR1_DROME : 1549- 1554: arcdy A-Lyvg-A sddnw PYR1_DROME : 2084- 2090: ertdr A-LagppA dpvqc PYR1_HUMAN : 239- 246: arlgg AvLsfseA tssvq PYR1_MESAU : 259- 264: ghqll A-Laig-A ktykm PYR1_MESAU : 576- 581: keels A-Lvap-A fahts PYR1_MESAU : 685- 692: iievn ArLsrssA laska PYR1_MESAU : 692- 697: lsrss A-Lask-A tgypl PYR1_MESAU : 879- 886: kqial AvLstelA vrklr PYR1_MESAU : 1517- 1523: dapal A-LaqklA eagar PYR1_MESAU : 1532- 1537: arcdf A-Lflg-A ssena PYR1_MESAU : 1672- 1678: redme A-LwenmA vidcf PYR1_MESAU : 1990- 1997: arlgg AvLsfseA tssvq PYRC_BACCL : 139- 146: eltdf AaLkeagA faftd PYRC_BACCL : 140- 146: ltdfa A-LkeagA faftd PYRC_BACSU : 139- 145: mtnfe A-LkeagA faftd PYRC_ECOLI : 101- 108: gvfta AkLypanA ttnss PYRC_ECOLI : 233- 239: nihqq A-LrelvA sgfnr PYRC_ECOLI : 274- 279: fnapt A-Lgsy-A tvfee PYRC_ECOLI : 287- 293: feemn A-LqhfeA fcsvn PYRC_SALTY : 101- 108: gvfta AkLypanA ttnss PYRC_SALTY : 233- 239: nihqq A-LrelvA sgftr PYRC_SALTY : 245- 252: sgftr AfLgtdsA phsrh PYRC_SALTY : 274- 279: fnaps A-Lgsy-A avfee PYRC_SALTY : 274- 280: fnaps A-LgsyaA vfeem PYRC_SALTY : 287- 293: feemn A-LahfeA fcsln PYRC_USTMA : 309- 314: leafg A-Ldql-A nyvsi PYRC_YEAST : 241- 246: pndkr A-Lvka-A vsgkp O 15: 11.5102 29( 12) E-x(2,4)-A-L Occurences: 29(12) ALLA_RANCA : 307- 313: ghrnk EalwnAL lqghi ALLA_YEAST : 174- 180: ppigk EyieeAL kvlae PYR1_DICDI : 544- 549: fadnk Eqlt-AL vteam PYR1_DICDI : 1636- 1642: pklgt EedlnAL wdnid PYR1_DICDI : 1637- 1642: klgte Edln-AL wdnid PYR1_DICDI : 2010- 2016: gdgvg EhptqAL ldvft PYR1_DROME : 235- 240: arled Eqfd-AL flsng PYR1_DROME : 1685- 1690: llcsp Edqe-AL wenid PYR1_DROME : 2048- 2054: pacrr EhshqAL ldift PYR1_DROME : 2079- 2085: mwrle ErtdrAL agppa PYR1_HUMAN : 300- 306: gdgvg EhptqAL ldift PYR1_HUMAN : 379- 385: kqeef EsieeAL pdtdv PYR1_MESAU : 572- 577: fastk Eels-AL vapaf PYR1_MESAU : 573- 577: astke Els--AL vapaf PYR1_MESAU : 774- 780: grsfe EafqkAL rmvde PYR1_MESAU : 1668- 1673: elgsr Edme-AL wenma PYR1_MESAU : 2051- 2057: gdgvg EhptqAL ldift PYR1_MESAU : 2130- 2136: kqeef EsieeAL pdtdv PYRC_BACCL : 285- 290: plrsr Edrd-AL iegll PYRC_BACSU : 283- 288: plrsp Edra-AL iegll PYRC_ECOLI : 283- 288: yatvf Eemn-AL qhfea PYRC_ECOLI : 284- 288: atvfe Emn--AL qhfea PYRC_ECOLI : 323- 327: eqqva Esi--AL tddtl PYRC_SALTY : 283- 288: yaavf Eemn-AL ahfea PYRC_SALTY : 284- 288: aavfe Emn--AL ahfea PYRC_USTMA : 305- 310: wptll Eafg-AL dqlan PYRC_YEAST : 158- 164: vlnre EaflpAL kklhn PYRC_YEAST : 292- 297: iaqvf Eeqn-AL enlkg PYRC_YEAST : 293- 297: aqvfe Eqn--AL enlkg P 16: 11.5102 28( 12) A-L-x(1,3)-A Occurences: 28(12) ALLA_RANCA : 308- 312: hrnke ALwn-A llqgh ALLA_YEAST : 179- 184: eyiee ALkvlA eedtm PYR1_DICDI : 225- 229: irkvl ALpv-A kavfg PYR1_DICDI : 548- 553: keqlt ALvteA matss PYR1_DICDI : 664- 669: lsrss ALaskA tgypl PYR1_DICDI : 1898- 1903: rkqlh ALfgiA hemri PYR1_DICDI : 2178- 2183: rmsll ALvfgA gv PYR1_DROME : 531- 535: dggsq ALcr-A gneig PYR1_DROME : 555- 558: ysvaq ALd--A asrlg PYR1_DROME : 555- 559: ysvaq ALda-A srlgy PYR1_DROME : 706- 711: lsrts ALaskA pgypl PYR1_DROME : 880- 885: srtda ALllkA krfgf PYR1_DROME : 1549- 1554: arcdy ALyvgA sddnw PYR1_DROME : 2213- 2216: myirm ALl--A mvvgg PYR1_HUMAN : 465- 468: myirm ALl--A tvlgr PYR1_MESAU : 259- 264: ghqll ALaigA ktykm PYR1_MESAU : 576- 579: keels ALv--A pafah PYR1_MESAU : 576- 581: keels ALvapA fahts PYR1_MESAU : 692- 697: lsrss ALaskA tgypl PYR1_MESAU : 816- 819: fvvaa ALw--A gysve PYR1_MESAU : 1515- 1519: iidap ALal-A qklae PYR1_MESAU : 1532- 1537: arcdf ALflgA ssena PYR1_MESAU : 2216- 2219: myirm ALl--A tvlgr PYRC_BACCL : 140- 144: ltdfa ALke-A gafaf PYRC_BACCL : 171- 175: mkqaa ALdm-A ivahc PYRC_BACSU : 139- 143: mtnfe ALke-A gafaf PYRC_ECOLI : 274- 279: fnapt ALgsyA tvfee PYRC_SALTY : 274- 279: fnaps ALgsyA avfee PYRC_USTMA : 309- 314: leafg ALdqlA nyvsi PYRC_YEAST : 241- 245: pndkr ALvk-A avsgk PYRC_YEAST : 241- 246: pndkr ALvkaA vsgkp Q 17: 11.5102 36( 12) A-x(0,1)-L-x(2,3)-A Occurences: 36(12) ALLA_RANCA : 93- 98: egyrt AtLaa-A aggit ALLA_RANCA : 93- 99: egyrt AtLaaaA ggita ALLA_RANCA : 200- 205: vllfh AeLei-A kpape ALLA_RANCA : 308- 312: hrnke A-Lwn-A llqgh ALLA_YEAST : 179- 184: eyiee A-LkvlA eedtm ALLA_YEAST : 194- 199: mmmfh AeLpk-A hedqq PYR1_DICDI : 225- 229: irkvl A-Lpv-A kavfg PYR1_DICDI : 548- 553: keqlt A-LvteA matss PYR1_DICDI : 664- 669: lsrss A-LaskA tgypl PYR1_DICDI : 1898- 1903: rkqlh A-LfgiA hemri PYR1_DICDI : 2178- 2183: rmsll A-LvfgA gv PYR1_DROME : 531- 535: dggsq A-Lcr-A gneig PYR1_DROME : 555- 559: ysvaq A-Lda-A srlgy PYR1_DROME : 706- 711: lsrts A-LaskA pgypl PYR1_DROME : 879- 885: gsrtd AaLllkA krfgf PYR1_DROME : 880- 885: srtda AlLlk-A krfgf PYR1_DROME : 880- 885: srtda A-LllkA krfgf PYR1_DROME : 1549- 1554: arcdy A-LyvgA sddnw PYR1_HUMAN : 234- 239: faaam ArLgg-A vlsfs PYR1_MESAU : 259- 264: ghqll A-LaigA ktykm PYR1_MESAU : 576- 581: keels A-LvapA fahts PYR1_MESAU : 692- 697: lsrss A-LaskA tgypl PYR1_MESAU : 1344- 1349: gysly AsLgt-A dfyte PYR1_MESAU : 1515- 1519: iidap A-Lal-A qklae PYR1_MESAU : 1532- 1537: arcdf A-LflgA ssena PYR1_MESAU : 1598- 1603: rqsva AvLmv-A qltqr PYR1_MESAU : 1985- 1990: faaam ArLgg-A vlsfs PYRC_BACCL : 139- 144: eltdf AaLke-A gafaf PYRC_BACCL : 140- 144: ltdfa A-Lke-A gafaf PYRC_BACCL : 170- 175: amkqa AaLdm-A ivahc PYRC_BACCL : 171- 175: mkqaa A-Ldm-A ivahc PYRC_BACSU : 139- 143: mtnfe A-Lke-A gafaf PYRC_ECOLI : 101- 106: gvfta AkLyp-A nattn PYRC_ECOLI : 274- 279: fnapt A-LgsyA tvfee PYRC_SALTY : 101- 106: gvfta AkLyp-A nattn PYRC_SALTY : 274- 279: fnaps A-LgsyA avfee PYRC_USTMA : 309- 314: leafg A-LdqlA nyvsi PYRC_YEAST : 241- 245: pndkr A-Lvk-A avsgk PYRC_YEAST : 241- 246: pndkr A-LvkaA vsgkp R 18: 11.5102 22( 12) A-x(1,3)-G-x(2)-A Occurences: 22(12) ALLA_RANCA : 97- 104: tatla AaagGitA ivdmp ALLA_RANCA : 98- 104: atlaa Aag-GitA ivdmp ALLA_RANCA : 99- 104: tlaaa Ag--GitA ivdmp ALLA_YEAST : 388- 393: qkgti Ap--GydA dlvvf PYR1_DICDI : 760- 766: mvmdg Ave-GfqA gvfpt PYR1_DICDI : 1260- 1266: lgvem Ast-GevA cfgnt PYR1_DROME : 2084- 2090: ertdr Ala-GppA dpvqc PYR1_HUMAN : 107- 114: prihr AsdpGlpA eepke PYR1_MESAU : 227- 234: gpgdp AsypGvvA tlnrv PYR1_MESAU : 1486- 1491: hkedf As--GtaA alagg PYR1_MESAU : 1542- 1549: assen AgtlGavA gsaag PYR1_MESAU : 1547- 1553: agtlg Ava-GsaA glkly PYR1_MESAU : 1858- 1865: prihr AsdpGlpA eepke PYRC_BACCL : 190- 197: ltngg AvhdGefA rrygl PYRC_BACCL : 315- 320: taaek Ak--GieA apfgi PYRC_BACCL : 359- 366: ltikp AqcfGlkA grlav PYRC_BACCL : 370- 375: kagrl Av--GapA diavi PYRC_BACSU : 415- 420: pvati Aa--GklA yeegr PYRC_ECOLI : 274- 279: fnapt Al--GsyA tvfee PYRC_SALTY : 274- 279: fnaps Al--GsyA avfee PYRC_USTMA : 263- 268: avthg Ap--GtkA sdsgs PYRC_YEAST : 268- 275: pvqnk AkyeGvcA gvysq S 19: 11.5102 19( 12) A-x(4)-A-x(0,2)-V Occurences: 19(12) ALLA_RANCA : 99- 106: tlaaa AggitAi-V dmpln ALLA_YEAST : 388- 396: qkgti ApgydAdlV vfdta PYR1_DICDI : 2178- 2185: rmsll AlvfgAg-V PYR1_DROME : 1255- 1262: dhdfv AtatrAi-V gldve PYR1_DROME : 1544- 1552: lakag ArcdyAlyV gasdd PYR1_HUMAN : 234- 240: faaam ArlggA--V lsfse PYR1_MESAU : 19- 27: grpfg AavstAgeV vfqtg PYR1_MESAU : 1542- 1548: assen AgtlgA--V agsaa PYR1_MESAU : 1985- 1991: faaam ArlggA--V lsfse PYRC_BACCL : 170- 177: amkqa AaldmAi-V ahced PYRC_BACCL : 373- 379: rlavg ApadiA--V idlet PYRC_BACSU : 169- 176: amkra AaidkAi-V ahced PYRC_ECOLI : 274- 281: fnapt AlgsyAt-V feemn PYRC_SALTY : 274- 281: fnaps AlgsyAa-V feemn PYRC_USTMA : 176- 182: ivleh AttrkA--V eavkq PYRC_USTMA : 309- 317: leafg AldqlAnyV singr PYRC_USTMA : 353- 359: cispa AatvpA--V yvhpe PYRC_USTMA : 353- 361: cispa AatvpAvyV hpefr PYRC_YEAST : 241- 247: pndkr AlvkaA--V sgkpy PYRC_YEAST : 283- 290: ysqsf AipyiAq-V feeqn T 20: 11.5102 33( 12) A-x(3,4)-G-x(3,4)-V Occurences: 33(12) ALLA_RANCA : 96- 106: rtatl AaaagGitaiV dmpln ALLA_RANCA : 97- 106: tatla Aaag-GitaiV dmpln ALLA_RANCA : 264- 273: tiirk Akea-GapltV etthh ALLA_RANCA : 312- 321: ealwn Allq-GhidmV vsdhs ALLA_RANCA : 380- 388: lssnt Aklc-Glgi-V keplk ALLA_YEAST : 90- 99: etgtq AaisgGvtt-V vdmpl ALLA_YEAST : 90- 99: etgtq Aais-GgvttV vdmpl ALLA_YEAST : 90- 100: etgtq AaisgGvttvV dmpln ALLA_YEAST : 91- 99: tgtqa Aisg-Gvtt-V vdmpl ALLA_YEAST : 91- 100: tgtqa Aisg-GvttvV dmpln ALLA_YEAST : 311- 320: qglwd Alre-GvigsV vsdhs PYR1_DICDI : 517- 526: eslie Aeki-GypviV raayc PYR1_DICDI : 1136- 1146: ehven AgvhsGdatiV cpaqd PYR1_DICDI : 1458- 1468: wdsgt AtalaGgftmV gampn PYR1_DICDI : 1460- 1468: sgtat Alag-Gftm-V gampn PYR1_DICDI : 1942- 1951: csfta AmqrlGgsv-V tvdnv PYR1_DROME : 1177- 1187: ehven AgvhsGdatlV tppqd PYR1_HUMAN : 42- 50: lrgev Ayid-Gqvl-V ppgyg PYR1_MESAU : 362- 370: vreav Agnp-Ggqt-V kerlv PYR1_MESAU : 544- 554: eqaqa AaerlGypvlV raafa PYR1_MESAU : 545- 554: qaqaa Aerl-GypvlV raafa PYR1_MESAU : 1158- 1168: ehven AgvhsGdatlV tppqd PYR1_MESAU : 1490- 1500: fasgt AaalaGgvtmV campn PYR1_MESAU : 1491- 1500: asgta AalagGvtm-V campn PYR1_MESAU : 1491- 1500: asgta Aala-GgvtmV campn PYR1_MESAU : 1492- 1500: sgtaa Alag-Gvtm-V campn PYR1_MESAU : 1793- 1801: lrgev Ayid-Gqvl-V ppgyg PYRC_BACCL : 80- 89: etgtl AaakgGftt-V aampn PYRC_BACCL : 80- 89: etgtl Aaak-GgfttV aampn PYRC_BACCL : 81- 89: tgtla Aakg-Gftt-V aampn PYRC_BACCL : 221- 230: rdvll Aeaa-GchyhV chist PYRC_BACSU : 79- 88: etgak AagrgGytt-V aampn PYRC_BACSU : 79- 88: etgak Aagr-GgyttV aampn PYRC_BACSU : 80- 88: tgaka Agrg-Gytt-V aampn PYRC_BACSU : 198- 207: gtfsk AnglnGips-V cesvh PYRC_ECOLI : 271- 281: agcfn AptalGsyatV feemn PYRC_SALTY : 271- 281: agcfn ApsalGsyaaV feemn PYRC_USTMA : 84- 94: pdltp AeiaeGaqngV rgvks PYRC_YEAST : 268- 277: pvqnk Akye-GvcagV ysqsf Number of patterns evaluated by Pratt:5440 Total running time: 11 seconds