------------------------------------------------------------ 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 DHODEHASE_2 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 DHODEHASE_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: PYRD_AGRAE 328 PYRD_ARATH 434 PYRD_BACSU 311 PYRD_DROME 389 PYRD_ECOLI 336 PYRD_HAEIN 339 PYRD_HUMAN 396 PYRD_MYCLE 309 PYRD_SALTY 336 PYRD_SCHPO 443 PYRD_YEAST 314 Pratt run started at Thu Feb 6 19:18:10 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 19.3503 11( 11) T-x(5)-G-N-x(0,2)-P-x(2,3)-R 2: 16.6802 11( 11) N-x-S-x-P-N 3: 16.6802 11( 11) G-N-x(2)-P-R 4: 16.1802 16( 11) G-G-x(1,2)-S-G 5: 15.6802 19( 11) I-x(0,1)-G-x(0,1)-G-G 6: 15.6802 12( 11) I-x(3,4)-T-T-x(2,3)-R 7: 15.6802 11( 11) N-x(2)-G-x(1,2)-N-x(1,2)-G 8: 15.1802 11( 11) G-N-x(0,2)-P-x(2,3)-R 9: 15.1802 11( 11) F-G-x(2,4)-E-x(4,5)-T 10: 12.5102 12( 11) T-x(5)-G-x(3)-P 11: 12.5102 15( 11) A-G-A 12: 12.5102 15( 11) A-x(5)-A-G 13: 12.5102 14( 11) I-x(2)-G-G 14: 12.5102 15( 11) G-x-G-G 15: 12.5102 12( 11) P-x-I-x(3)-G 16: 12.5102 12( 11) P-x(3)-A-x-G 17: 12.5102 12( 11) A-x-E-x(4)-G 18: 12.5102 17( 11) N-x(2)-G-L 19: 12.5102 12( 11) S-x-P-N 20: 12.5102 11( 11) N-x(2)-P-R Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 45.3630 11( 11) I-x(2)-G-G-[IV]-x-[GST]-[AGLV]-x-[ADNT]-A-x(3)-[AILV]-x-[AC]-G-A-x(4)-[AGILV]-x(2)-[AEG] B 2: 31.5192 11( 11) T-x(3)-[QR]-x-G-N-[ADP]-x-P-R-x(2)-[ERS]-x(3)-[ADEG] C 3: 29.3777 11( 11) G-x-G-G-[IV]-[ADGQST]-[GST]-x(2)-[ADNTV]-x(4)-[AILV]-x-[ANV]-[GLV] D 4: 28.4114 11( 11) N-[ILV]-S-[CS]-P-N-[TV]-x-[DGT] E 5: 24.4037 11( 11) T-x(3)-[QR]-x-G-N-x(0,2)-P-x(2,3)-R-x(2)-[DEQRS] F 6: 24.1783 11( 11) G-N-[ADP]-x-P-R-x(2)-[ERS]-x(3)-[ADEG] G 7: 23.6248 11( 11) F-G-x(2,4)-E-x(4,5)-T-x(2)-[APV]-x(3)-[ANS]-x(2)-[PT] H 8: 21.5795 11( 11) S-[CS]-P-N-[TV]-x-[DGT] I 9: 20.7036 15( 11) G-G-x(1,2)-S-G-x-[ADGNP]-[ALV] J 10: 20.0083 11( 11) N-[ADP]-x-P-R-x(2)-[ERS]-x(3)-[ADEG] K 11: 18.2982 11( 11) P-x(3)-A-[AS]-G-x(4)-[AGT] L 12: 17.9333 11( 11) P-x-I-x-[ACSV]-x-G-x(2)-[GS] M 13: 17.9090 11( 11) A-x-E-x(3)-[ACD]-G-x(4)-[ANQ] N 14: 17.8823 18( 11) I-x(0,1)-G-x(0,1)-G-G-x(2)-[GPST] O 15: 17.0628 11( 11) G-N-x(0,2)-P-x(2,3)-R-x(2)-[DEQRS] P 16: 16.6103 14( 11) N-[APST]-x-G-L-x-[ADNTV] Q 17: 16.5928 12( 11) A-x(5)-A-G-x(4)-[ENQT]-x(2)-[GNSTV] R 18: 15.6802 12( 11) I-x(3,4)-T-T-x(2,3)-R S 19: 15.6802 11( 11) N-x(2)-G-x(1,2)-N-x(1,2)-G T 20: 12.5102 15( 11) A-G-A Best patterns with alignements: fitness hits(seqs) Pattern A 1: 45.3630 11( 11) I-x(2)-G-G-[IV]-x-[GST]-[AGLV]-x-[ADNT]-A-x(3)-[AILV]-x-[AC]-G-A-x(4)-[AGILV]-x(2)-[AEG] Occurences: 11(11) PYRD_AGRAE : 291- 318: pdmpl IgvGGVdSAeTAltkVkAGArsrpAlyG pdlsr PYRD_ARATH : 396- 423: gkipl IgcGGVsSGeDAykkIrAGAtlvqLytG faygg PYRD_BACSU : 238- 265: vnipi IgmGGVqTAeDAlefLlAGAsavaVgtA nfvnp PYRD_DROME : 336- 363: gkipi IgvGGVaSGyDAyekIeAGAsyvqIytA lvyeg PYRD_ECOLI : 293- 320: grlpi IgvGGIdSViAArekIaAGAslvqIysG fifkg PYRD_HAEIN : 295- 322: gqipi IgsGGIdGLqNAqekIeAGAellqVysG liyhg PYRD_HUMAN : 331- 358: grvpi IgvGGVsSGqNAlekIrAGAslvqLytA lpfwg PYRD_MYCLE : 242- 269: drlvl IsvGGIeTAdDAwdrItAGAsllqGytG fiygg PYRD_SALTY : 293- 320: gqlpi IgvGGIdSViAArekIaAGAtlvqIysG fifkg PYRD_SCHPO : 383- 410: sdipi IgcGGIsSGkDAieyArAGAtmvqVytA lgydg PYRD_YEAST : 249- 276: peikv IgtGGIkSGkDAfehLlCGAsmlqIgtE lqkeg B 2: 31.5192 11( 11) T-x(3)-[QR]-x-G-N-[ADP]-x-P-R-x(2)-[ERS]-x(3)-[ADEG] Occurences: 11(11) PYRD_AGRAE : 87- 105: eigti TprpQsGNPrPRifRlvdD kavin PYRD_ARATH : 167- 185: evgsv TpvpQeGNPkPRifRlsqE gaiin PYRD_BACSU : 46- 64: mikat TkepRfGNPtPRvaEtgaG mlnai PYRD_DROME : 129- 147: evgtv TpaaQeGNPkPRvfRlteD kaiin PYRD_ECOLI : 88- 106: eigtv TprpQpGNDkPRlfRlvdA eglin PYRD_HAEIN : 90- 108: elgtv TpvaQdGNAkPRqfRlieA egiin PYRD_HUMAN : 122- 140: eigsv TpkpQeGNPrPRvfRlpeD qavin PYRD_MYCLE : 45- 63: evgtv TaypQpGNPaPRmfRlpaD ralln PYRD_SALTY : 88- 106: eigtv TprpQpGNDkPRlfRlvdA eglin PYRD_SCHPO : 148- 166: eigsv TpkpQpGNPkPRyfRlkpD lsvin PYRD_YEAST : 49- 67: itksa TtleReGNPePRyiSvplG sinsm C 3: 29.3777 11( 11) G-x-G-G-[IV]-[ADGQST]-[GST]-x(2)-[ADNTV]-x(4)-[AILV]-x-[ANV]-[GLV] Occurences: 11(11) PYRD_AGRAE : 292- 309: dmpli GvGGVDSaeTaltkVkAG arsrp PYRD_ARATH : 397- 414: kipli GcGGVSSgeDaykkIrAG atlvq PYRD_BACSU : 239- 256: nipii GmGGVQTaeDalefLlAG asava PYRD_DROME : 337- 354: kipii GvGGVASgyDayekIeAG asyvq PYRD_ECOLI : 294- 311: rlpii GvGGIDSviAarekIaAG aslvq PYRD_HAEIN : 296- 313: qipii GsGGIDGlqNaqekIeAG aellq PYRD_HUMAN : 332- 349: rvpii GvGGVSSgqNalekIrAG aslvq PYRD_MYCLE : 211- 228: gidal GaGGISGppVarraVeVL rrlyg PYRD_SALTY : 294- 311: qlpii GvGGIDSviAarekIaAG atlvq PYRD_SCHPO : 384- 401: dipii GcGGISSgkDaieyArAG atmvq PYRD_YEAST : 218- 235: vkpkn GfGGIGGeyVkptaLaNV rafyt D 4: 28.4114 11( 11) N-[ILV]-S-[CS]-P-N-[TV]-x-[DGT] Occurences: 11(11) PYRD_AGRAE : 170- 178: ryftv NISSPNTpG lrnlq PYRD_ARATH : 274- 282: dylvi NVSSPNTaG lrmlq PYRD_BACSU : 125- 133: halel NISCPNVkT ggiaf PYRD_DROME : 215- 223: dylvi NVSSPNTkG lrdmq PYRD_ECOLI : 172- 180: gyiai NISSPNTpG lrtlq PYRD_HAEIN : 174- 182: gyitv NISSPNTpD lrqlq PYRD_HUMAN : 212- 220: dylvv NVSSPNTaG lrslq PYRD_MYCLE : 129- 137: sylvv NVSSPNTpG lrdlq PYRD_SALTY : 172- 180: gyiai NISSPNTpG lrtlq PYRD_SCHPO : 264- 272: dilvi NVSSPNTpG lrnlq PYRD_YEAST : 130- 138: gitel NLSCPNVpG kpqva E 5: 24.4037 11( 11) T-x(3)-[QR]-x-G-N-x(0,2)-P-x(2,3)-R-x(2)-[DEQRS] Occurences: 11(11) PYRD_AGRAE : 87- 101: eigti TprpQsGN--Prp-RifR lvddk PYRD_AGRAE : 87- 104: eigti TprpQsGNprPrifRlvD dkavi PYRD_ARATH : 167- 181: evgsv TpvpQeGN--Pkp-RifR lsqeg PYRD_ARATH : 167- 184: evgsv TpvpQeGNpkPrifRlsQ egaii PYRD_BACSU : 46- 60: mikat TkepRfGN--Ptp-RvaE tgagm PYRD_DROME : 129- 143: evgtv TpaaQeGN--Pkp-RvfR ltedk PYRD_DROME : 129- 146: evgtv TpaaQeGNpkPrvfRltE dkaii PYRD_ECOLI : 88- 105: eigtv TprpQpGNdkPrlfRlvD aegli PYRD_HAEIN : 90- 107: elgtv TpvaQdGNakPrqfRliE aegii PYRD_HUMAN : 122- 136: eigsv TpkpQeGN--Prp-RvfR lpedq PYRD_HUMAN : 122- 139: eigsv TpkpQeGNprPrvfRlpE dqavi PYRD_MYCLE : 45- 59: evgtv TaypQpGN--Pap-RmfR lpadr PYRD_SALTY : 88- 105: eigtv TprpQpGNdkPrlfRlvD aegli PYRD_SCHPO : 148- 162: eigsv TpkpQpGN--Pkp-RyfR lkpdl PYRD_YEAST : 49- 63: itksa TtleReGN--Pep-RyiS vplgs F 6: 24.1783 11( 11) G-N-[ADP]-x-P-R-x(2)-[ERS]-x(3)-[ADEG] Occurences: 11(11) PYRD_AGRAE : 93- 105: prpqs GNPrPRifRlvdD kavin PYRD_ARATH : 173- 185: pvpqe GNPkPRifRlsqE gaiin PYRD_BACSU : 52- 64: keprf GNPtPRvaEtgaG mlnai PYRD_DROME : 135- 147: paaqe GNPkPRvfRlteD kaiin PYRD_ECOLI : 94- 106: prpqp GNDkPRlfRlvdA eglin PYRD_HAEIN : 96- 108: pvaqd GNAkPRqfRlieA egiin PYRD_HUMAN : 128- 140: pkpqe GNPrPRvfRlpeD qavin PYRD_MYCLE : 51- 63: aypqp GNPaPRmfRlpaD ralln PYRD_SALTY : 94- 106: prpqp GNDkPRlfRlvdA eglin PYRD_SCHPO : 154- 166: pkpqp GNPkPRyfRlkpD lsvin PYRD_YEAST : 55- 67: tlere GNPePRyiSvplG sinsm G 7: 23.6248 11( 11) F-G-x(2,4)-E-x(4,5)-T-x(2)-[APV]-x(3)-[ANS]-x(2)-[PT] Occurences: 11(11) PYRD_AGRAE : 78- 97: llklg FGft--Eigti-TprPqsgNprP rifrl PYRD_ARATH : 158- 177: llgmg FGfv--Evgsv-TpvPqegNpkP rifrl PYRD_BACSU : 138- 159: tggia FGtnp-EmaadlTkaVkevSdvP vyvkl PYRD_DROME : 120- 139: lqdlg FGfi--Evgtv-TpaAqegNpkP rvfrl PYRD_ECOLI : 79- 98: lgamg FGsi--Eigtv-TprPqpgNdkP rlfrl PYRD_HAEIN : 81- 100: fgalg FGfl--Elgtv-TpvAqdgNakP rqfrl PYRD_HUMAN : 113- 132: lykmg FGfv--Eigsv-TpkPqegNprP rvfrl PYRD_MYCLE : 36- 55: wgalg FGya--Evgtv-TayPqpgNpaP rmfrl PYRD_SALTY : 79- 98: lgamg FGsl--Eigtv-TprPqpgNdkP rlfrl PYRD_SCHPO : 137- 158: sglln FGfsylEigsv-TpkPqpgNpkP ryfrl PYRD_YEAST : 219- 240: kpkng FGgiggEyvkp-TalAnvrAfyT rlrpe H 8: 21.5795 11( 11) S-[CS]-P-N-[TV]-x-[DGT] Occurences: 11(11) PYRD_AGRAE : 172- 178: ftvni SSPNTpG lrnlq PYRD_ARATH : 276- 282: lvinv SSPNTaG lrmlq PYRD_BACSU : 127- 133: lelni SCPNVkT ggiaf PYRD_DROME : 217- 223: lvinv SSPNTkG lrdmq PYRD_ECOLI : 174- 180: iaini SSPNTpG lrtlq PYRD_HAEIN : 176- 182: itvni SSPNTpD lrqlq PYRD_HUMAN : 214- 220: lvvnv SSPNTaG lrslq PYRD_MYCLE : 131- 137: lvvnv SSPNTpG lrdlq PYRD_SALTY : 174- 180: iaini SSPNTpG lrtlq PYRD_SCHPO : 266- 272: lvinv SSPNTpG lrnlq PYRD_YEAST : 132- 138: telnl SCPNVpG kpqva I 9: 20.7036 15( 11) G-G-x(1,2)-S-G-x-[ADGNP]-[ALV] Occurences: 15(11) PYRD_AGRAE : 262- 269: grdet GGl-SGaPL fdrst PYRD_ARATH : 367- 374: vatet GGl-SGkPL falst PYRD_ARATH : 399- 407: pligc GGvsSGeDA ykkir PYRD_BACSU : 211- 218: lankt GGl-SGpAV kpvai PYRD_DROME : 307- 314: laeet GGl-SGpPL karst PYRD_DROME : 339- 347: piigv GGvaSGyDA yekie PYRD_ECOLI : 264- 271: ncdqt GGl-SGrPL qlkst PYRD_HAEIN : 266- 273: naeqq GGl-SGkPL qhkst PYRD_HUMAN : 302- 309: lrset GGl-SGkPL rdlst PYRD_HUMAN : 334- 342: piigv GGvsSGqNA lekir PYRD_MYCLE : 213- 220: dalga GGi-SGpPV arrav PYRD_SALTY : 264- 271: ncqqt GGl-SGrPL qlkst PYRD_SCHPO : 354- 361: hveet GGl-SGpPL kpial PYRD_SCHPO : 386- 394: piigc GGisSGkDA ieyar PYRD_YEAST : 252- 260: kvigt GGikSGkDA fehll J 10: 20.0083 11( 11) N-[ADP]-x-P-R-x(2)-[ERS]-x(3)-[ADEG] Occurences: 11(11) PYRD_AGRAE : 94- 105: rpqsg NPrPRifRlvdD kavin PYRD_ARATH : 174- 185: vpqeg NPkPRifRlsqE gaiin PYRD_BACSU : 53- 64: eprfg NPtPRvaEtgaG mlnai PYRD_DROME : 136- 147: aaqeg NPkPRvfRlteD kaiin PYRD_ECOLI : 95- 106: rpqpg NDkPRlfRlvdA eglin PYRD_HAEIN : 97- 108: vaqdg NAkPRqfRlieA egiin PYRD_HUMAN : 129- 140: kpqeg NPrPRvfRlpeD qavin PYRD_MYCLE : 52- 63: ypqpg NPaPRmfRlpaD ralln PYRD_SALTY : 95- 106: rpqpg NDkPRlfRlvdA eglin PYRD_SCHPO : 155- 166: kpqpg NPkPRyfRlkpD lsvin PYRD_YEAST : 56- 67: lereg NPePRyiSvplG sinsm K 11: 18.2982 11( 11) P-x(3)-A-[AS]-G-x(4)-[AGT] Occurences: 11(11) PYRD_AGRAE : 56- 67: lqfpn PlgmAAGydknA evpda PYRD_ARATH : 136- 147: rkfsn PiglAAGfdknA eateg PYRD_BACSU : 14- 25: ldlkn PiipASGcfgfG kefsr PYRD_DROME : 98- 109: rmlsn PigiAAGfdknA eavdg PYRD_ECOLI : 57- 68: ltfkn PlglAAGldkdG ecida PYRD_HAEIN : 59- 70: vnfpn PiglAAGadknG daidg PYRD_HUMAN : 91- 102: hkfrn PvgiAAGfdkhG eavdg PYRD_MYCLE : 14- 25: vrfpg PlglAAGfdkdG mglla PYRD_SALTY : 57- 68: ltfkn PlglAAGldkdG ecida PYRD_SCHPO : 117- 128: kkfcn PiglAAGfdkqA daisg PYRD_YEAST : 17- 28: ntyen PfmnASGvhcmT tqeld L 12: 17.9333 11( 11) P-x-I-x-[ACSV]-x-G-x(2)-[GS] Occurences: 11(11) PYRD_AGRAE : 289- 298: vgpdm PlIgVgGvdS aetal PYRD_ARATH : 394- 403: trgki PlIgCgGvsS geday PYRD_BACSU : 14- 23: ldlkn PiIpAsGcfG fgkef PYRD_DROME : 334- 343: tdgki PiIgVgGvaS gyday PYRD_ECOLI : 291- 300: lngrl PiIgVgGidS viaar PYRD_HAEIN : 293- 302: lkgqi PiIgSgGidG lqnaq PYRD_HUMAN : 329- 338: tqgrv PiIgVgGvsS gqnal PYRD_MYCLE : 205- 214: dclvt PgIdAlGagG isgpp PYRD_SALTY : 291- 300: lkgql PiIgVgGidS viaar PYRD_SCHPO : 381- 390: lssdi PiIgCgGisS gkdai PYRD_YEAST : 244- 253: ytrlr PeIkViGtgG iksgk M 13: 17.9090 11( 11) A-x-E-x(3)-[ACD]-G-x(4)-[ANQ] Occurences: 11(11) PYRD_AGRAE : 232- 244: diaae AtEqklDGiiisN ttlsr PYRD_ARATH : 72- 84: ayvst AdEatfCGwlfnA tkvvn PYRD_BACSU : 249- 261: qtaed AlEfllAGasavA vgtan PYRD_DROME : 347- 359: asgyd AyEkieAGasyvQ iytal PYRD_ECOLI : 304- 316: dsvia ArEkiaAGaslvQ iysgf PYRD_HAEIN : 306- 318: dglqn AqEkieAGaellQ vysgl PYRD_HUMAN : 342- 354: ssgqn AlEkirAGaslvQ lytal PYRD_MYCLE : 182- 194: ditdl AvElrlAGivatN ttvsr PYRD_SALTY : 304- 316: dsvia ArEkiaAGatlvQ iysgf PYRD_SCHPO : 394- 406: ssgkd AiEyarAGatmvQ vytal PYRD_YEAST : 260- 272: ksgkd AfEhllCGasmlQ igtel N 14: 17.8823 18( 11) I-x(0,1)-G-x(0,1)-G-G-x(2)-[GPST] Occurences: 18(11) PYRD_AGRAE : 291- 298: pdmpl I-GvGGvdS aetal PYRD_ARATH : 396- 403: gkipl I-GcGGvsS geday PYRD_BACSU : 237- 245: mvnip IiGmGGvqT aedal PYRD_BACSU : 238- 245: vnipi I-GmGGvqT aedal PYRD_DROME : 335- 343: dgkip IiGvGGvaS gyday PYRD_DROME : 336- 343: gkipi I-GvGGvaS gyday PYRD_ECOLI : 292- 300: ngrlp IiGvGGidS viaar PYRD_ECOLI : 293- 300: grlpi I-GvGGidS viaar PYRD_HAEIN : 294- 302: kgqip IiGsGGidG lqnaq PYRD_HAEIN : 295- 302: gqipi I-GsGGidG lqnaq PYRD_HUMAN : 330- 338: qgrvp IiGvGGvsS gqnal PYRD_HUMAN : 331- 338: grvpi I-GvGGvsS gqnal PYRD_MYCLE : 271- 278: gytgf IyG-GGfwP khihd PYRD_SALTY : 292- 300: kgqlp IiGvGGidS viaar PYRD_SALTY : 293- 300: gqlpi I-GvGGidS viaar PYRD_SCHPO : 382- 390: ssdip IiGcGGisS gkdai PYRD_SCHPO : 383- 390: sdipi I-GcGGisS gkdai PYRD_YEAST : 249- 256: peikv I-GtGGikS gkdaf O 15: 17.0628 11( 11) G-N-x(0,2)-P-x(2,3)-R-x(2)-[DEQRS] Occurences: 11(11) PYRD_AGRAE : 93- 101: prpqs GN--Prp-RifR lvddk PYRD_AGRAE : 93- 104: prpqs GNprPrifRlvD dkavi PYRD_ARATH : 173- 181: pvpqe GN--Pkp-RifR lsqeg PYRD_ARATH : 173- 184: pvpqe GNpkPrifRlsQ egaii PYRD_BACSU : 52- 60: keprf GN--Ptp-RvaE tgagm PYRD_DROME : 135- 143: paaqe GN--Pkp-RvfR ltedk PYRD_DROME : 135- 146: paaqe GNpkPrvfRltE dkaii PYRD_ECOLI : 94- 105: prpqp GNdkPrlfRlvD aegli PYRD_HAEIN : 96- 107: pvaqd GNakPrqfRliE aegii PYRD_HUMAN : 128- 136: pkpqe GN--Prp-RvfR lpedq PYRD_HUMAN : 128- 139: pkpqe GNprPrvfRlpE dqavi PYRD_MYCLE : 51- 59: aypqp GN--Pap-RmfR lpadr PYRD_SALTY : 94- 105: prpqp GNdkPrlfRlvD aegli PYRD_SCHPO : 154- 162: pkpqp GN--Pkp-RyfR lkpdl PYRD_YEAST : 55- 63: tlere GN--Pep-RyiS vplgs P 16: 16.6103 14( 11) N-[APST]-x-G-L-x-[ADNTV] Occurences: 14(11) PYRD_AGRAE : 175- 181: nissp NTpGLrN lqard PYRD_ARATH : 135- 141: grkfs NPiGLaA gfdkn PYRD_BACSU : 67- 73: gagml NAiGLqN pglds PYRD_DROME : 220- 226: nvssp NTkGLrD mqske PYRD_ECOLI : 56- 62: gltfk NPlGLaA gldkd PYRD_ECOLI : 177- 183: nissp NTpGLrT lqyge PYRD_HAEIN : 58- 64: gvnfp NPiGLaA gadkn PYRD_HUMAN : 150- 156: nrygf NShGLsV vehrl PYRD_MYCLE : 134- 140: nvssp NTpGLrD lqave PYRD_SALTY : 56- 62: gltfk NPlGLaA gldkd PYRD_SALTY : 177- 183: nissp NTpGLrT lqygd PYRD_SCHPO : 116- 122: gkkfc NPiGLaA gfdkq PYRD_SCHPO : 269- 275: nvssp NTpGLrN lqkks PYRD_YEAST : 70- 76: plgsi NSmGLpN egidy Q 17: 16.5928 12( 11) A-x(5)-A-G-x(4)-[ENQT]-x(2)-[GNSTV] Occurences: 12(11) PYRD_AGRAE : 43- 58: apndl AlsvkvAGlqfpNplG maagy PYRD_ARATH : 407- 422: ssged AykkirAGatlvQlyT gfayg PYRD_BACSU : 175- 190: nitei AlaieeAGadglTmiN tligm PYRD_DROME : 347- 362: asgyd AyekieAGasyvQiyT alvye PYRD_ECOLI : 304- 319: dsvia ArekiaAGaslvQiyS gfifk PYRD_HAEIN : 306- 321: dglqn AqekieAGaellQvyS gliyh PYRD_HUMAN : 342- 357: ssgqn AlekirAGaslvQlyT alpfw PYRD_MYCLE : 182- 197: ditdl AvelrlAGivatNttV srdcl PYRD_MYCLE : 253- 268: etadd AwdritAGasllQgyT gfiyg PYRD_SALTY : 304- 319: dsvia ArekiaAGatlvQiyS gfifk PYRD_SCHPO : 394- 409: ssgkd AieyarAGatmvQvyT algyd PYRD_YEAST : 98- 113: ypdap AiffsvAGmsidEnlN llrki R 18: 15.6802 12( 11) I-x(3,4)-T-T-x(2,3)-R Occurences: 12(11) PYRD_AGRAE : 240- 249: qkldg IiisnTTls-R aglks PYRD_AGRAE : 241- 249: kldgi Iisn-TTls-R aglks PYRD_ARATH : 345- 353: hldgl Iisn-TTvs-R pdavs PYRD_BACSU : 40- 50: sclga ImikaTTkepR fgnpt PYRD_DROME : 286- 294: rvdgl Ivsn-TTvs-R eniek PYRD_ECOLI : 243- 251: nidgv Iatn-TTld-R slvqg PYRD_HAEIN : 245- 253: kmdgv Iatn-TTis-R dtvtg PYRD_HUMAN : 281- 289: gidgl Ivtn-TTvs-R paglq PYRD_MYCLE : 190- 199: lrlag IvatnTTvs-R dclvt PYRD_SALTY : 243- 251: nidgv Iatn-TTld-R slvqg PYRD_SCHPO : 332- 340: kidgv Ivgn-TTvq-R pktlk PYRD_YEAST : 44- 53: kagaf ItksaTTle-R egnpe S 19: 15.6802 11( 11) N-x(2)-G-x(1,2)-N-x(1,2)-G Occurences: 11(11) PYRD_AGRAE : 110- 118: dkavi NrlGfnNe-G hdaaf PYRD_AGRAE : 110- 118: dkavi NrlGf-NneG hdaaf PYRD_ARATH : 190- 198: egaii NrcGf-NseG ivvva PYRD_BACSU : 67- 75: gagml NaiGlqNp-G ldsvl PYRD_DROME : 152- 160: dkaii NryGf-NsdG hqavl PYRD_ECOLI : 111- 119: aegli NrmGfnNl-G vdnlv PYRD_ECOLI : 111- 119: aegli NrmGf-NnlG vdnlv PYRD_HAEIN : 113- 121: aegii NrnGfnNn-G idyli PYRD_HAEIN : 113- 121: aegii NrnGf-NnnG idyli PYRD_HUMAN : 145- 153: dqavi NryGf-NshG lsvve PYRD_MYCLE : 68- 76: drall NrmGfnNn-G agala PYRD_MYCLE : 68- 76: drall NrmGf-NnnG agala PYRD_SALTY : 111- 119: aegli NrmGfnNl-G vdnlv PYRD_SALTY : 111- 119: aegli NrmGf-NnlG vdnlv PYRD_SCHPO : 171- 179: dlsvi NryGf-NsiG hdail PYRD_YEAST : 70- 78: plgsi NsmGlpNe-G idyyl T 20: 12.5102 15( 11) A-G-A Occurences: 15(11) PYRD_AGRAE : 308- 310: ltkvk AGA rsrpa PYRD_ARATH : 413- 415: ykkir AGA tlvql PYRD_BACSU : 181- 183: laiee AGA dgltm PYRD_BACSU : 255- 257: lefll AGA savav PYRD_DROME : 353- 355: yekie AGA syvqi PYRD_DROME : 377- 379: vedik AGA vgadh PYRD_ECOLI : 310- 312: rekia AGA slvqi PYRD_HAEIN : 64- 66: pigla AGA dkngd PYRD_HAEIN : 312- 314: qekie AGA ellqv PYRD_HUMAN : 348- 350: lekir AGA slvql PYRD_MYCLE : 77- 79: fnnng AGA laiql PYRD_MYCLE : 259- 261: wdrit AGA sllqg PYRD_SALTY : 310- 312: rekia AGA tlvqi PYRD_SCHPO : 400- 402: ieyar AGA tmvqv PYRD_YEAST : 40- 42: lansk AGA fitks Number of patterns evaluated by Pratt:5313 Total running time: 4 seconds