------------------------------------------------------------ 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 8 sequences from file RIBUL_P_3_EPIMER_2 PATTERN CONSERVATION: CM: min Nr of Seqs to Match 8 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 RIBUL_P_3_EPIMER_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: CXEC_ALCEU 241 CXEP_ALCEU 241 DOD_ECOLI 225 DOD_HAEIN 224 DOD_SERMA 210 RPE_YEAST 238 YJCU_ECOLI 231 YJHK_ECOLI 210 Pratt run started at Thu Feb 6 21:06:37 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 27.6904 8( 8) D-x(2,4)-H-x-D-x(2)-D-x(5)-N-x-T-x(4,5)-V 2: 25.0203 8( 8) D-x(4)-M-x(3)-P-x(3)-G-Q-x-F 3: 24.5203 8( 8) D-x(3,4)-M-x(3)-P-x(3)-G-Q-x-F 4: 24.5203 8( 8) H-x-D-x(2)-D-x(5)-N-x-T-x(4,5)-V 5: 24.0203 12( 8) A-x(0,1)-A-G-A-x(3,4)-V-x(5)-F 6: 20.8503 8( 8) M-x(3)-P-x(3)-G-Q-x-F 7: 20.3503 8( 8) M-x(2,3)-P-x(3)-G-Q-x-F 8: 20.3503 8( 8) D-x(2)-D-x(5)-N-x-T-x(4,5)-V 9: 19.8503 8( 8) A-G-A-x(3,4)-V-x(0,1)-G 10: 19.8503 13( 8) A-x(0,1)-G-A-x(3,4)-V-x(5)-F 11: 19.8503 12( 8) A-x(1,2)-G-A-x(3,4)-V-x(5)-F 12: 19.8503 8( 8) D-x(4)-M-x(3)-P-x(0,1)-G-x(1,2)-G 13: 19.8503 8( 8) A-x-A-G-A-x(2,4)-I 14: 18.8503 8( 8) P-x(0,2)-G-x(0,2)-G-Q-x-F 15: 16.6802 13( 8) A-x-A-G-A 16: 16.1802 8( 8) G-x(1,2)-G-Q-x-F 17: 16.1802 14( 8) I-x(3,4)-A-x-A-G 18: 16.1802 8( 8) D-x(5)-N-x-T-x(4,5)-V 19: 15.6802 8( 8) G-A-x(3,4)-V-x(0,1)-G 20: 15.6802 15( 8) I-x(3,4)-A-x(0,1)-A-G Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 63.2021 8( 8) D-x-[AIV]-x-[LV]-M-[ST]-[SV]-[DEN]-P-x(0,1)-G-x(1,2)-G-Q-x-F-[IM]-x-[ADEGQS]-x(3)-K-[ILV]-x(2)-[ALV]-[KR]-x(3)-[DEP] B 2: 60.0940 8( 8) D-x(4)-M-[ST]-[SV]-[DEN]-P-[DG]-x-[AGQ]-G-Q-x-F-[IM]-x-[ADEGQS]-x(3)-K-[ILV]-x(2)-[ALV]-[KR]-x(3)-[DEP] C 3: 59.5940 8( 8) D-x(3,4)-M-[ST]-[SV]-[DEN]-P-[DG]-x-[AGQ]-G-Q-x-F-[IM]-x-[ADEGQS]-x(3)-K-[ILV]-x(2)-[ALV]-[KR]-x(3)-[DEP] D 4: 56.2379 8( 8) D-x(2,4)-H-[FIL]-D-[IV]-x-D-[GNS]-x-[FY]-[IV]-[NPS]-N-[IL]-T-x(4,5)-V-x(4)-[KR]-x(2)-[GPTV]-x(2)-[AGLP] E 5: 53.0678 8( 8) H-[FIL]-D-[IV]-x-D-[GNS]-x-[FY]-[IV]-[NPS]-N-[IL]-T-x(4,5)-V-x(4)-[KR]-x(2)-[GPTV]-x(2)-[AGLP] F 6: 46.9873 8( 8) M-x(3)-P-[DG]-x-[AGQ]-G-Q-x-F-[IM]-x-[ADEGQS]-x(3)-K-[ILV]-x(2)-[ALV]-[KR]-x(3)-[DEP] G 7: 46.4873 8( 8) M-x(2,3)-P-[DG]-x-[AGQ]-G-Q-x-F-[IM]-x-[ADEGQS]-x(3)-K-[ILV]-x(2)-[ALV]-[KR]-x(3)-[DEP] H 8: 46.1983 8( 8) D-[IV]-x-D-[GNS]-x-[FY]-[IV]-[NPS]-N-[IL]-T-x(4,5)-V-x(4)-[KR]-x(2)-[GPTV]-x(2)-[AGLP] I 9: 42.8477 12( 8) A-x(0,1)-A-G-A-x(3,4)-V-[AGI]-[GT]-x-[AGS]-[ILV]-F-[DGNST]-x-[APS]-[DE] J 10: 40.6233 8( 8) A-x-A-G-A-[DNQS]-x-[FIM]-[TV]-[AIL]-x(2)-[AES]-x-[FI]-[DGNST]-x(2)-[AD]-x-[DHKR] K 11: 39.0762 8( 8) P-x(0,2)-G-x(0,2)-G-Q-x-F-[IM]-x-[ADEGQS]-x(3)-K-[ILV]-x(2)-[ALV]-[KR]-x(3)-[DEP] L 12: 38.8034 8( 8) D-[GNS]-x-[FY]-[IV]-[NPS]-N-[IL]-T-x(4,5)-V-x(4)-[KR]-x(2)-[GPTV]-x(2)-[AGLP] M 13: 38.6777 13( 8) A-x(0,1)-G-A-x(3,4)-V-[AGI]-[GT]-x-[AGS]-[ILV]-F-[DGNST]-x-[APS]-[DE] N 14: 38.6777 12( 8) A-x(1,2)-G-A-x(3,4)-V-[AGI]-[GT]-x-[AGS]-[ILV]-F-[DGNST]-x-[APS]-[DE] O 15: 36.4061 8( 8) G-x(1,2)-G-Q-x-F-[IM]-x-[ADEGQS]-x(3)-K-[ILV]-x(2)-[ALV]-[KR]-x(3)-[DEP] P 16: 31.7743 8( 8) A-G-A-x(3,4)-V-x(0,1)-G-x-[AS]-[GILV]-[FL]-x(3)-[AD] Q 17: 27.6043 8( 8) G-A-x(3,4)-V-x(0,1)-G-x-[AS]-[GILV]-[FL]-x(3)-[AD] R 18: 26.1941 9( 8) I-x(3,4)-A-x-A-G-[AL]-[DNSV]-[FILMV]-x(4)-[PST] S 19: 25.6941 9( 8) I-x(3,4)-A-x(0,1)-A-G-[AL]-[DNSV]-[FILMV]-x(4)-[PST] T 20: 24.2244 8( 8) A-x-A-G-A-x(2,4)-I-[GSTV]-x(4)-[ASTV] Best patterns with alignements: fitness hits(seqs) Pattern A 1: 63.2021 8( 8) D-x-[AIV]-x-[LV]-M-[ST]-[SV]-[DEN]-P-x(0,1)-G-x(1,2)-G-Q-x-F-[IM]-x-[ADEGQS]-x(3)-K-[ILV]-x(2)-[ALV]-[KR]-x(3)-[DEP] Occurences: 8(8) CXEC_ALCEU : 145- 177: tldql DlVlLMSVNP-GfgGQaFIpGvldKVrqARariD rqvda CXEP_ALCEU : 145- 177: tldkl DlVlLMSVNP-GfgGQaFIpGvldKVrqARariD rqvaa DOD_ECOLI : 134- 166: vmdkl DvIlLMSVNP-GfgGQsFIpQtldKLreVRrriD esgfd DOD_HAEIN : 134- 166: vldkv DvVlLMSVNP-GfgGQsFIpAtlkKLqqARkiiD esgyd DOD_SERMA : 134- 166: vmdki DvIlLMSVNP-GfgGQsFIhGtldKLrqVRkliD dsgrd RPE_YEAST : 146- 178: laphl DmAlVMTVEP-GfgGQkFMeDmmpKVetLRakfP hlniq YJCU_ECOLI : 130- 162: yihka DkItVMTVDP-GfaGQpFIpEmldKLaeLKawrE regle YJHK_ECOLI : 130- 162: lasel DgVmVMTSEPdGq-GQrFIpSmceKIqkVRtafP qtecw B 2: 60.0940 8( 8) D-x(4)-M-[ST]-[SV]-[DEN]-P-[DG]-x-[AGQ]-G-Q-x-F-[IM]-x-[ADEGQS]-x(3)-K-[ILV]-x(2)-[ALV]-[KR]-x(3)-[DEP] Occurences: 8(8) CXEC_ALCEU : 145- 177: tldql DlvllMSVNPGfGGQaFIpGvldKVrqARariD rqvda CXEP_ALCEU : 145- 177: tldkl DlvllMSVNPGfGGQaFIpGvldKVrqARariD rqvaa DOD_ECOLI : 134- 166: vmdkl DvillMSVNPGfGGQsFIpQtldKLreVRrriD esgfd DOD_HAEIN : 134- 166: vldkv DvvllMSVNPGfGGQsFIpAtlkKLqqARkiiD esgyd DOD_SERMA : 134- 166: vmdki DvillMSVNPGfGGQsFIhGtldKLrqVRkliD dsgrd RPE_YEAST : 146- 178: laphl DmalvMTVEPGfGGQkFMeDmmpKVetLRakfP hlniq YJCU_ECOLI : 130- 162: yihka DkitvMTVDPGfAGQpFIpEmldKLaeLKawrE regle YJHK_ECOLI : 130- 162: lasel DgvmvMTSEPDgQGQrFIpSmceKIqkVRtafP qtecw C 3: 59.5940 8( 8) D-x(3,4)-M-[ST]-[SV]-[DEN]-P-[DG]-x-[AGQ]-G-Q-x-F-[IM]-x-[ADEGQS]-x(3)-K-[ILV]-x(2)-[ALV]-[KR]-x(3)-[DEP] Occurences: 8(8) CXEC_ALCEU : 145- 177: tldql DlvllMSVNPGfGGQaFIpGvldKVrqARariD rqvda CXEP_ALCEU : 145- 177: tldkl DlvllMSVNPGfGGQaFIpGvldKVrqARariD rqvaa DOD_ECOLI : 134- 166: vmdkl DvillMSVNPGfGGQsFIpQtldKLreVRrriD esgfd DOD_HAEIN : 134- 166: vldkv DvvllMSVNPGfGGQsFIpAtlkKLqqARkiiD esgyd DOD_SERMA : 134- 166: vmdki DvillMSVNPGfGGQsFIhGtldKLrqVRkliD dsgrd RPE_YEAST : 146- 178: laphl DmalvMTVEPGfGGQkFMeDmmpKVetLRakfP hlniq YJCU_ECOLI : 130- 162: yihka DkitvMTVDPGfAGQpFIpEmldKLaeLKawrE regle YJHK_ECOLI : 130- 162: lasel DgvmvMTSEPDgQGQrFIpSmceKIqkVRtafP qtecw D 4: 56.2379 8( 8) D-x(2,4)-H-[FIL]-D-[IV]-x-D-[GNS]-x-[FY]-[IV]-[NPS]-N-[IL]-T-x(4,5)-V-x(4)-[KR]-x(2)-[GPTV]-x(2)-[AGLP] Occurences: 8(8) CXEC_ALCEU : 43- 75: eagga Dlv--HFDVmDNhYVPNLTigpl-VceaiRplVsiP idvhl CXEP_ALCEU : 43- 75: eagga Dlv--HFDVmDNhYVSNLTigpl-VceaiRplVsiP idvhl DOD_ECOLI : 31- 63: laaga Dvv--HFDVmDNhYVPNLTigpm-VlkslRnyGitA pidvh DOD_HAEIN : 31- 63: lnaga Dvi--HFDVmDNhYVPNLTfgpa-VcqalRdyGitA pidvh DOD_SERMA : 31- 63: laagg Dvv--HFDVmDNhYVPNLTigpm-VcealRnyGitA pidvh RPE_YEAST : 31- 64: inaga Dwl--HIDVmDGhFVPNITlgqpiVtslrRsvPrpG dasnt YJCU_ECOLI : 27- 60: idsha Dyf--HIDImDGhFVPNLTlspffVsqvkKlaTkpL dchlm YJHK_ECOLI : 26- 61: aldnl DfgslHLDIeDSsFINNITfgmktVqavaRqtPhpL sfhfm E 5: 53.0678 8( 8) H-[FIL]-D-[IV]-x-D-[GNS]-x-[FY]-[IV]-[NPS]-N-[IL]-T-x(4,5)-V-x(4)-[KR]-x(2)-[GPTV]-x(2)-[AGLP] Occurences: 8(8) CXEC_ALCEU : 46- 75: gadlv HFDVmDNhYVPNLTigpl-VceaiRplVsiP idvhl CXEP_ALCEU : 46- 75: gadlv HFDVmDNhYVSNLTigpl-VceaiRplVsiP idvhl DOD_ECOLI : 34- 63: gadvv HFDVmDNhYVPNLTigpm-VlkslRnyGitA pidvh DOD_HAEIN : 34- 63: gadvi HFDVmDNhYVPNLTfgpa-VcqalRdyGitA pidvh DOD_SERMA : 34- 63: ggdvv HFDVmDNhYVPNLTigpm-VcealRnyGitA pidvh RPE_YEAST : 34- 64: gadwl HIDVmDGhFVPNITlgqpiVtslrRsvPrpG dasnt YJCU_ECOLI : 30- 60: hadyf HIDImDGhFVPNLTlspffVsqvkKlaTkpL dchlm YJHK_ECOLI : 31- 61: dfgsl HLDIeDSsFINNITfgmktVqavaRqtPhpL sfhfm F 6: 46.9873 8( 8) M-x(3)-P-[DG]-x-[AGQ]-G-Q-x-F-[IM]-x-[ADEGQS]-x(3)-K-[ILV]-x(2)-[ALV]-[KR]-x(3)-[DEP] Occurences: 8(8) CXEC_ALCEU : 150- 177: dlvll MsvnPGfGGQaFIpGvldKVrqARariD rqvda CXEP_ALCEU : 150- 177: dlvll MsvnPGfGGQaFIpGvldKVrqARariD rqvaa DOD_ECOLI : 139- 166: dvill MsvnPGfGGQsFIpQtldKLreVRrriD esgfd DOD_HAEIN : 139- 166: dvvll MsvnPGfGGQsFIpAtlkKLqqARkiiD esgyd DOD_SERMA : 139- 166: dvill MsvnPGfGGQsFIhGtldKLrqVRkliD dsgrd RPE_YEAST : 151- 178: dmalv MtvePGfGGQkFMeDmmpKVetLRakfP hlniq YJCU_ECOLI : 135- 162: dkitv MtvdPGfAGQpFIpEmldKLaeLKawrE regle YJHK_ECOLI : 135- 162: dgvmv MtsePDgQGQrFIpSmceKIqkVRtafP qtecw G 7: 46.4873 8( 8) M-x(2,3)-P-[DG]-x-[AGQ]-G-Q-x-F-[IM]-x-[ADEGQS]-x(3)-K-[ILV]-x(2)-[ALV]-[KR]-x(3)-[DEP] Occurences: 8(8) CXEC_ALCEU : 150- 177: dlvll MsvnPGfGGQaFIpGvldKVrqARariD rqvda CXEP_ALCEU : 150- 177: dlvll MsvnPGfGGQaFIpGvldKVrqARariD rqvaa DOD_ECOLI : 139- 166: dvill MsvnPGfGGQsFIpQtldKLreVRrriD esgfd DOD_HAEIN : 139- 166: dvvll MsvnPGfGGQsFIpAtlkKLqqARkiiD esgyd DOD_SERMA : 139- 166: dvill MsvnPGfGGQsFIhGtldKLrqVRkliD dsgrd RPE_YEAST : 151- 178: dmalv MtvePGfGGQkFMeDmmpKVetLRakfP hlniq YJCU_ECOLI : 135- 162: dkitv MtvdPGfAGQpFIpEmldKLaeLKawrE regle YJHK_ECOLI : 135- 162: dgvmv MtsePDgQGQrFIpSmceKIqkVRtafP qtecw H 8: 46.1983 8( 8) D-[IV]-x-D-[GNS]-x-[FY]-[IV]-[NPS]-N-[IL]-T-x(4,5)-V-x(4)-[KR]-x(2)-[GPTV]-x(2)-[AGLP] Occurences: 8(8) CXEC_ALCEU : 48- 75: dlvhf DVmDNhYVPNLTigpl-VceaiRplVsiP idvhl CXEP_ALCEU : 48- 75: dlvhf DVmDNhYVSNLTigpl-VceaiRplVsiP idvhl DOD_ECOLI : 36- 63: dvvhf DVmDNhYVPNLTigpm-VlkslRnyGitA pidvh DOD_HAEIN : 36- 63: dvihf DVmDNhYVPNLTfgpa-VcqalRdyGitA pidvh DOD_SERMA : 36- 63: dvvhf DVmDNhYVPNLTigpm-VcealRnyGitA pidvh RPE_YEAST : 36- 64: dwlhi DVmDGhFVPNITlgqpiVtslrRsvPrpG dasnt YJCU_ECOLI : 32- 60: dyfhi DImDGhFVPNLTlspffVsqvkKlaTkpL dchlm YJHK_ECOLI : 33- 61: gslhl DIeDSsFINNITfgmktVqavaRqtPhpL sfhfm I 9: 42.8477 12( 8) A-x(0,1)-A-G-A-x(3,4)-V-[AGI]-[GT]-x-[AGS]-[ILV]-F-[DGNST]-x-[APS]-[DE] Occurences: 12(8) CXEC_ALCEU : 204- 222: niaai ArAGAdtf-VAGsAVFGaPD adggy CXEP_ALCEU : 204- 222: nitei ArAGAdtf-VAGsAVFGaPD adggy DOD_ECOLI : 189- 207: nigei AaAGAdmf-VAGsAIFDqPD ykkvi DOD_ECOLI : 190- 207: igeia A-AGAdmf-VAGsAIFDqPD ykkvi DOD_HAEIN : 189- 207: niaei AaAGAdmf-VAGsAIFGkPD ykqvi DOD_HAEIN : 190- 207: iaeia A-AGAdmf-VAGsAIFGkPD ykqvi DOD_SERMA : 189- 207: niaei AaAGAdmf-VAGsAIFGqPD yrk DOD_SERMA : 190- 207: iaeia A-AGAdmf-VAGsAIFGqPD yrk RPE_YEAST : 197- 215: tipka AkAGAnvi-VAGtSVFTaAD phdvi YJCU_ECOLI : 186- 204: yeklm A-AGAdvfiVGTsGLFNhAE nidea YJHK_ECOLI : 181- 199: aaqql AaAGAqhm-VIGrALFSsSD yratl YJHK_ECOLI : 182- 199: aqqla A-AGAqhm-VIGrALFSsSD yratl J 10: 40.6233 8( 8) A-x-A-G-A-[DNQS]-x-[FIM]-[TV]-[AIL]-x(2)-[AES]-x-[FI]-[DGNST]-x(2)-[AD]-x-[DHKR] Occurences: 8(8) CXEC_ALCEU : 204- 224: niaai ArAGADtFVAgsAvFGapDaD ggyss CXEP_ALCEU : 204- 224: nitei ArAGADtFVAgsAvFGapDaD ggyrg DOD_ECOLI : 189- 209: nigei AaAGADmFVAgsAiFDqpDyK kvide DOD_HAEIN : 189- 209: niaei AaAGADmFVAgsAiFGkpDyK qvidq DOD_SERMA : 189- 209: niaei AaAGADmFVAgsAiFGqpDyR k RPE_YEAST : 197- 217: tipka AkAGANvIVAgtSvFTaaDpH dvisf YJCU_ECOLI : 77- 97: yiaql ArAGADfITLhpEtINgqAfR lidei YJHK_ECOLI : 181- 201: aaqql AaAGAQhMVIgrAlFSssDyR atlaq K 11: 39.0762 8( 8) P-x(0,2)-G-x(0,2)-G-Q-x-F-[IM]-x-[ADEGQS]-x(3)-K-[ILV]-x(2)-[ALV]-[KR]-x(3)-[DEP] Occurences: 8(8) CXEC_ALCEU : 154- 177: lmsvn PgfG--GQaFIpGvldKVrqARariD rqvda CXEC_ALCEU : 154- 177: lmsvn P--GfgGQaFIpGvldKVrqARariD rqvda CXEP_ALCEU : 154- 177: lmsvn PgfG--GQaFIpGvldKVrqARariD rqvaa CXEP_ALCEU : 154- 177: lmsvn P--GfgGQaFIpGvldKVrqARariD rqvaa DOD_ECOLI : 143- 166: lmsvn PgfG--GQsFIpQtldKLreVRrriD esgfd DOD_ECOLI : 143- 166: lmsvn P--GfgGQsFIpQtldKLreVRrriD esgfd DOD_HAEIN : 143- 166: lmsvn PgfG--GQsFIpAtlkKLqqARkiiD esgyd DOD_HAEIN : 143- 166: lmsvn P--GfgGQsFIpAtlkKLqqARkiiD esgyd DOD_SERMA : 143- 166: lmsvn PgfG--GQsFIhGtldKLrqVRkliD dsgrd DOD_SERMA : 143- 166: lmsvn P--GfgGQsFIhGtldKLrqVRkliD dsgrd RPE_YEAST : 155- 178: vmtve PgfG--GQkFMeDmmpKVetLRakfP hlniq RPE_YEAST : 155- 178: vmtve P--GfgGQkFMeDmmpKVetLRakfP hlniq YJCU_ECOLI : 139- 162: vmtvd P--GfaGQpFIpEmldKLaeLKawrE regle YJHK_ECOLI : 139- 162: vmtse Pd-Gq-GQrFIpSmceKIqkVRtafP qtecw L 12: 38.8034 8( 8) D-[GNS]-x-[FY]-[IV]-[NPS]-N-[IL]-T-x(4,5)-V-x(4)-[KR]-x(2)-[GPTV]-x(2)-[AGLP] Occurences: 8(8) CXEC_ALCEU : 51- 75: hfdvm DNhYVPNLTigpl-VceaiRplVsiP idvhl CXEP_ALCEU : 51- 75: hfdvm DNhYVSNLTigpl-VceaiRplVsiP idvhl DOD_ECOLI : 39- 63: hfdvm DNhYVPNLTigpm-VlkslRnyGitA pidvh DOD_HAEIN : 39- 63: hfdvm DNhYVPNLTfgpa-VcqalRdyGitA pidvh DOD_SERMA : 39- 63: hfdvm DNhYVPNLTigpm-VcealRnyGitA pidvh RPE_YEAST : 39- 64: hidvm DGhFVPNITlgqpiVtslrRsvPrpG dasnt YJCU_ECOLI : 35- 60: hidim DGhFVPNLTlspffVsqvkKlaTkpL dchlm YJHK_ECOLI : 36- 61: hldie DSsFINNITfgmktVqavaRqtPhpL sfhfm M 13: 38.6777 13( 8) A-x(0,1)-G-A-x(3,4)-V-[AGI]-[GT]-x-[AGS]-[ILV]-F-[DGNST]-x-[APS]-[DE] Occurences: 13(8) CXEC_ALCEU : 206- 222: aaiar A-GAdtf-VAGsAVFGaPD adggy CXEP_ALCEU : 206- 222: teiar A-GAdtf-VAGsAVFGaPD adggy DOD_ECOLI : 190- 207: igeia AaGAdmf-VAGsAIFDqPD ykkvi DOD_ECOLI : 191- 207: geiaa A-GAdmf-VAGsAIFDqPD ykkvi DOD_HAEIN : 190- 207: iaeia AaGAdmf-VAGsAIFGkPD ykqvi DOD_HAEIN : 191- 207: aeiaa A-GAdmf-VAGsAIFGkPD ykqvi DOD_SERMA : 190- 207: iaeia AaGAdmf-VAGsAIFGqPD yrk DOD_SERMA : 191- 207: aeiaa A-GAdmf-VAGsAIFGqPD yrk RPE_YEAST : 199- 215: pkaak A-GAnvi-VAGtSVFTaAD phdvi YJCU_ECOLI : 186- 204: yeklm AaGAdvfiVGTsGLFNhAE nidea YJCU_ECOLI : 187- 204: eklma A-GAdvfiVGTsGLFNhAE nidea YJHK_ECOLI : 182- 199: aqqla AaGAqhm-VIGrALFSsSD yratl YJHK_ECOLI : 183- 199: qqlaa A-GAqhm-VIGrALFSsSD yratl N 14: 38.6777 12( 8) A-x(1,2)-G-A-x(3,4)-V-[AGI]-[GT]-x-[AGS]-[ILV]-F-[DGNST]-x-[APS]-[DE] Occurences: 12(8) CXEC_ALCEU : 204- 222: niaai AraGAdtf-VAGsAVFGaPD adggy CXEP_ALCEU : 204- 222: nitei AraGAdtf-VAGsAVFGaPD adggy DOD_ECOLI : 189- 207: nigei AaaGAdmf-VAGsAIFDqPD ykkvi DOD_ECOLI : 190- 207: igeia Aa-GAdmf-VAGsAIFDqPD ykkvi DOD_HAEIN : 189- 207: niaei AaaGAdmf-VAGsAIFGkPD ykqvi DOD_HAEIN : 190- 207: iaeia Aa-GAdmf-VAGsAIFGkPD ykqvi DOD_SERMA : 189- 207: niaei AaaGAdmf-VAGsAIFGqPD yrk DOD_SERMA : 190- 207: iaeia Aa-GAdmf-VAGsAIFGqPD yrk RPE_YEAST : 197- 215: tipka AkaGAnvi-VAGtSVFTaAD phdvi YJCU_ECOLI : 186- 204: yeklm Aa-GAdvfiVGTsGLFNhAE nidea YJHK_ECOLI : 181- 199: aaqql AaaGAqhm-VIGrALFSsSD yratl YJHK_ECOLI : 182- 199: aqqla Aa-GAqhm-VIGrALFSsSD yratl O 15: 36.4061 8( 8) G-x(1,2)-G-Q-x-F-[IM]-x-[ADEGQS]-x(3)-K-[ILV]-x(2)-[ALV]-[KR]-x(3)-[DEP] Occurences: 8(8) CXEC_ALCEU : 155- 177: msvnp GfgGQaFIpGvldKVrqARariD rqvda CXEP_ALCEU : 155- 177: msvnp GfgGQaFIpGvldKVrqARariD rqvaa DOD_ECOLI : 144- 166: msvnp GfgGQsFIpQtldKLreVRrriD esgfd DOD_HAEIN : 144- 166: msvnp GfgGQsFIpAtlkKLqqARkiiD esgyd DOD_SERMA : 144- 166: msvnp GfgGQsFIhGtldKLrqVRkliD dsgrd RPE_YEAST : 156- 178: mtvep GfgGQkFMeDmmpKVetLRakfP hlniq YJCU_ECOLI : 140- 162: mtvdp GfaGQpFIpEmldKLaeLKawrE regle YJHK_ECOLI : 141- 162: tsepd Gq-GQrFIpSmceKIqkVRtafP qtecw P 16: 31.7743 8( 8) A-G-A-x(3,4)-V-x(0,1)-G-x-[AS]-[GILV]-[FL]-x(3)-[AD] Occurences: 8(8) CXEC_ALCEU : 206- 222: aaiar AGAdtf-VaGsAVFgapD adggy CXEP_ALCEU : 206- 222: teiar AGAdtf-VaGsAVFgapD adggy DOD_ECOLI : 191- 207: geiaa AGAdmf-VaGsAIFdqpD ykkvi DOD_HAEIN : 191- 207: aeiaa AGAdmf-VaGsAIFgkpD ykqvi DOD_SERMA : 191- 207: aeiaa AGAdmf-VaGsAIFgqpD yrk RPE_YEAST : 199- 215: pkaak AGAnvi-VaGtSVFtaaD phdvi YJCU_ECOLI : 187- 203: eklma AGAdvfiV-GtSGLfnhA enide YJHK_ECOLI : 183- 199: qqlaa AGAqhm-ViGrALFsssD yratl Q 17: 27.6043 8( 8) G-A-x(3,4)-V-x(0,1)-G-x-[AS]-[GILV]-[FL]-x(3)-[AD] Occurences: 8(8) CXEC_ALCEU : 207- 222: aiara GAdtf-VaGsAVFgapD adggy CXEP_ALCEU : 207- 222: eiara GAdtf-VaGsAVFgapD adggy DOD_ECOLI : 192- 207: eiaaa GAdmf-VaGsAIFdqpD ykkvi DOD_HAEIN : 192- 207: eiaaa GAdmf-VaGsAIFgkpD ykqvi DOD_SERMA : 192- 207: eiaaa GAdmf-VaGsAIFgqpD yrk RPE_YEAST : 200- 215: kaaka GAnvi-VaGtSVFtaaD phdvi YJCU_ECOLI : 188- 203: klmaa GAdvfiV-GtSGLfnhA enide YJHK_ECOLI : 184- 199: qlaaa GAqhm-ViGrALFsssD yratl R 18: 26.1941 9( 8) I-x(3,4)-A-x-A-G-[AL]-[DNSV]-[FILMV]-x(4)-[PST] Occurences: 9(8) CXEC_ALCEU : 89- 104: pvdal Iplf-AkAGANIisfhP easrh CXEP_ALCEU : 89- 104: pvdal Ipmf-AkAGANLisfhP easrh DOD_ECOLI : 77- 93: kpvdr IvpdfAaAGASIitfhP easeh DOD_ECOLI : 185- 200: vkvnn Igei-AaAGADMfvagS aifdq DOD_HAEIN : 185- 200: vkvdn Iaei-AaAGADMfvagS aifgk DOD_SERMA : 185- 200: vkvdn Iaei-AaAGADMfvagS aifgq RPE_YEAST : 193- 208: lgket Ipka-AkAGANVivagT svfta YJCU_ECOLI : 73- 88: rpqdy Iaql-ArAGADFitlhP eting YJHK_ECOLI : 102- 118: etlte IrhtgArAGLVFnpatP idawr S 19: 25.6941 9( 8) I-x(3,4)-A-x(0,1)-A-G-[AL]-[DNSV]-[FILMV]-x(4)-[PST] Occurences: 9(8) CXEC_ALCEU : 89- 104: pvdal Iplf-AkAGANIisfhP easrh CXEP_ALCEU : 89- 104: pvdal Ipmf-AkAGANLisfhP easrh DOD_ECOLI : 77- 93: kpvdr IvpdfAaAGASIitfhP easeh DOD_ECOLI : 185- 200: vkvnn IgeiaA-AGADMfvagS aifdq DOD_ECOLI : 185- 200: vkvnn Igei-AaAGADMfvagS aifdq DOD_HAEIN : 185- 200: vkvdn IaeiaA-AGADMfvagS aifgk DOD_HAEIN : 185- 200: vkvdn Iaei-AaAGADMfvagS aifgk DOD_SERMA : 185- 200: vkvdn IaeiaA-AGADMfvagS aifgq DOD_SERMA : 185- 200: vkvdn Iaei-AaAGADMfvagS aifgq RPE_YEAST : 193- 208: lgket Ipka-AkAGANVivagT svfta YJCU_ECOLI : 73- 88: rpqdy Iaql-ArAGADFitlhP eting YJHK_ECOLI : 102- 118: etlte IrhtgArAGLVFnpatP idawr T 20: 24.2244 8( 8) A-x-A-G-A-x(2,4)-I-[GSTV]-x(4)-[ASTV] Occurences: 8(8) CXEC_ALCEU : 93- 106: liplf AkAGAni--ISfhpeA srhvd CXEP_ALCEU : 93- 106: lipmf AkAGAnl--ISfhpeA srhvd DOD_ECOLI : 82- 95: ivpdf AaAGAsi--ITfhpeA sehvd DOD_HAEIN : 82- 95: iipdf AkAGAny--ITfhpeS sehid DOD_SERMA : 82- 95: ivpdf AkAGAsy--ISfhpeA sehvd RPE_YEAST : 197- 210: tipka AkAGAnv--IVagtsV ftaad YJCU_ECOLI : 77- 90: yiaql ArAGAdf--ITlhpeT ingqa YJHK_ECOLI : 181- 196: aaqql AaAGAqhmvIGralfS ssdyr Number of patterns evaluated by Pratt:2797 Total running time: 1 seconds