; SAM: prettyalign v2.1.1 (Apr 24, 1998) compiled 04/27/98_12:32:27. ; SAM: Sequence Alignment and Modeling Software System ; (c) 1992-1998 Regents of the University of California, Santa Cruz ; http://www.cse.ucsc.edu/research/compbio/sam.html ; ; ------ Citations (HMMs, SAM) ------ ; A. Krogh et al., Hidden Markov models in computational biology: ; Applications to protein modeling, JMB 235:1501-1531, Feb 1994. ; R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: ; Extension and analysis of the basic method, CABIOS 12:95-107, 1996. ; ----------------------- ; Sequence numbers correspond to the following labels: ; 1 T0069 ; 2 GP:BTC43_1_145:301 ; 3 SW:CL43_BOVIN_145:301 ; 4 PIR2:A53570_145:301 ; 5 SW:CONG_BOVIN_216:371 ; 6 PIR2:I45878_216:371 ; 7 GP:BOVCO9_1_180:335 ; 8 GP:BTCONGL_1_216:371 ; 9 SW:PSPD_BOVIN_216:369 ; 10 PIR2:S33603_216:369 ; 11 SW:PSPD_MOUSE_221:374 ; 12 SW:PSPD_RAT_221:374 ; 13 SW:PSPD_HUMAN_222:375 ; 14 PIR2:S18382_164:318 ; 15 GP:HSMRNAPD_1_222:375 ; 16 GP:AF022226_1_91:237 ; 17 SW:MABA_MOUSE_87:237 ; 18 3D:1AFAA_1:152 ; 19 GP:RATMABPA2_1_86:236 ; 20 SW:MABA_RAT_86:236 ; 21 3D:1RTMA_1:147 ; 22 3D:1KMBA_1:147 ; 23 3D:1YTTB_1:112 ; 24 3D:2MSBB_1:111 ; 25 3D:1YTTA_1:113 ; 26 3D:2MSBA_1:110 ; 27 GP:MACMBPA_1_93:243 ; 28 GP:D73408_1_98:247 ; 29 GP:MACMBPC_1_103:234 ; 30 SW:MABC_HUMAN_115:246 ; 31 3D:1HUP_8:139 ; 32 SW:MABC_MOUSE_89:242_9:159 ; 33 PIR1:LNMSMC_89:242_9:159 ; 34 GP:RATMABPC_1_102:242 ; 35 3D:1RDIB_1:111 ; 36 SW:MABC_RAT_102:242 ; 37 3D:1RDIA_1:110 10 20 30 40 50 60 | | | | | | 1 .....AEANALKQRVTILDGHLRRFQNAFSQYKKAVLFPDGQAVGEKIFKTAGAVKSYSDAEQLC 2 getsvLEVDTLRQRMRNLEGEVQRLQNIVTQYRKAVLFPDGQAVGEKIFKTAGAVKSYSDAEQLC 3 getsvLEVDTLRQRMRNLEGEVQRLQNIVTQYRKAVLFPDGQAVGEKIFKTAGAVKSYSDAEQLC 4 getsvLEVDTLRQRMRNLEGEVQRLQNIVTQYRKAVLFPDGQAVGEKIFKTAGAVKSYSDAEQLC 5 gesglAEVNALKQRVTILDGHLRRFQNAFSQYKKAVLFPDGQAVGEKIFKTAGAVKSYSDAEQLC 6 gesglAEVNALKQRVTILDGHLRRFQNAFSQYKKAVLFPDGQAVGEKIFKTAGAVKSYSDAEQLC 7 gesglAEVNALKQRVTILDGHLRRFQNAFSQYKKAVLFPDGQAVGEKIFKTAGAVKSYSDAEQLC 8 gesglAEANALKQRVTILDGHLRRFQNAFSQYKKAVLFPDGQAVGEKIFKTAGAVKSYSDAVQLC 9 gesglAEVNALRQRVGILEGQLQRLQNAFSQYKKAMLFPNGRSVGEKIFKTVGSEKTFQDAQQIC 10 gesglAEVNALRQRVGILEGQLQRLQNAFSQYKKAMLFPNGRSVGEKIFKTVGSEKTFQDAQQIC 11 gesglPDSAALRQQMEALKGKLQRLEVAFSHYQKAALFPDGRSVGDKIFRTADSEKPFEDAQEMC 12 gesglPDSAALRQQMEALNGKLQRLEAAFSRYKKAALFPDGQSVGDKIFRAANSEEPFEDAKEMC 13 gesglPDVASLRQQVEALQGQVQHLQAAFSQYKKVELFPNGQSVGEKIFKTAGFVKPFTEAQLLC 14 gesglPDVASLRQQVEALQGQVQHLQAAFSQYKKVELFPNGQSVGEKIFKTAGFVKPFTEAQLLC 15 gesglPDVASLRQQVEALQGQVQHLQAAFSQYKKVELFPNGQSVGEKIFKTAGFVKPFTEAQLLC 16 vvtd.----DLHRQITDLEAKIRVLEDDLSRYKKALSLKDVVNIGKKMFVSTGKKYNFEKGKSLC 17 qkgdhGDNRAIEEKLANMEAEIRILKSKLQLTNKLHAFSMGKKSGKKLFVTNHEKMPFSKVKSLC 18 .....----AIEVKLANMEAEINTLKSKLELTNKLHAFSMGKKSGKKFFVTNHERMPFSKVKALC 19 qkgdrGDSRAIEVKLANMEAEINTLKSKLELTNKLHAFSMGKKSGKKFFVTNHERMPFSKVKALC 20 qkgdrGDSRAIEVKLANMEAEINTLKSKLELTNKLHAFSMGKKSGKKFFVTNHERMPFSKVKALC 21 .....----AIEVKLANMEAEINTLKSKLELTNKLHAFSMGKKSGKKFFVTNHERMPFSKVKALC 22 .....----AIEVKLANMEAEINTLKSKLELTNKLHAFSMGKKSGKKFFVTNHERMPFSKVKALC 23 .....---------------------------------------GKKFFVTNHERMPFSKVKALC 24 .....----------------------------------------KKFFVTNHERMPFSKVKALC 25 .....--------------------------------------SGKKFFVTNHERMPFSKVKALC 26 .....-----------------------------------------KFFVTNHERMPFSKVKALC 27 qkgdhGDNSVAEAKLANLERQLQSLRSELDHMKKLQAFSLGKMSGKKLFVTNGERMPFSEVKALC 28 gqkg.DPGENMGDYIRLATSERATLQSELNQIKNWLIFSLGKRVGKKAFFTNGKKMPFNEVKTLC 29 .....--------------SERKALQTEMARIKKWLTFSLGRQVGNKFFLTNGEMMTFDKVKALC 30 .....--------------SERKALQTEMARIKKWLTFSLGKQVGNKFFLTNGEIMTFEKVKALC 31 .....--------------SERKALQTEMARIKKWLTFSLGKQVGNKFFLTNGEIMTFEKVKALC 32 vgpkgDRGDRAEFDTSEIDSEIAALRSELRALRNWVLFSLSEKVGKKYFVSSVKKMSLDRVKALC 33 vgpkgDRGDRAEFDTSEIDSEIAALRSELRALRNWVLFSLSEKVGKKYFVSSVKKMSLDRVKALC 34 .....-----VEFDTTNIDLEIAALRSELRAMRKWVLLSMSENVGKKYFMSSVRRMPLNRAKALC 35 .....----------------------------------------KKYFMSSVRRMPLNRAKALC 36 .....-----VEFDTTNIDLEIAALRSELRAMRKWVLLSMSENVGKKYFMSSVRRMPLNRAKALC 37 .....-----------------------------------------KYFMSSVRRMPLNRAKALC 70 80 90 100 110 120 | | | | | | 1 REAKGQLASPRSSAENEAVTQMVRAQEKNAYLSMNDISTEGRFTYPTGEILVYSNWADGEPNNS. 2 REAKGQLASPRSSAENEAVTQLVRAKNKHAYLSMNDISKEGKFTYPTGGSLDYSNWAPGEPGNRa 3 REAKGQLASPRSSAENEAVTQLVRAKNKHAYLSMNDISKEGKFTYPTGGSLDYSNWAPGEPGNRa 4 REAKGQLASPRSSAENEAVTQLVRAKNKHAYLSMNDISKEGKFTYPTGGSLDYSNWAPGEPNNRa 5 REAKGQLASPRSSAENEAVTQMVRAQEKNAYLSMNDISTEGRFTYPTGEILVYSNWADGEPNNS. 6 REAKGQLASPRSSAENEAVTQMVRAQEKNAYLSMNDISTEGRFTYPTGEILVYSNWADGEPNNS. 7 REAKGQLASPRSSAENEAVTQMVRAQEKNAYLSMNDISTEGRFTYPTGEILVYSNWADGEPNNS. 8 REAKGQLASPRSSAENEAVTQMVRAQEKNAYLSMNDISTEGRFTYPTGEILVYSNWADGEPNNS. 9 TQAGGQLPSPRSGAENEALTQLATAQNKAAFLSMSDTRKEGTFIYPTGEPLVYSNWAPQEPNND. 10 TQAGGQLPSPRSGAENEALTQLATAQNKAAFLSMSDTRKEGTFIYPTGEPLVYSNWAPQEPNND. 11 KQAGGQLASPRSATENAAIQQLITAHNKAAFLSMTDVGTEGKFTYPTGEPLVYSNWAPGEPNNN. 12 RQAGGQLASPRSATENAAVQQLVTAHSKAAFLSMTDVGTEGKFTYPTGEALVYSNWAPGEPNNN. 13 TQAGGQLASPRSAAENAALQQLVVAKNEAAFLSMTDSKTEGKFTYPTGESLVYSNWAPGEPNDD. 14 TQAGGQLASPRSAAENAALQQLVVAKNEAAFLSMTDSKTEGKFTYPTGESLVYSNWAPGEPNDD. 15 TQAGGQLASPRSAAENAALQQLVVAKNEAAFLSMTDSKTEGKFTYPTGESLVYSNWAPGEPNDD. 16 AKAGSVLASPRNEAENTALKDLID-PSSQAYIGISDAQTEGRFMYLSGGPLTYSNWKPGEPNNH. 17 TELQGTVAIPRNAEENKAIQEVAT---GIAFLGITDEATEGQFMYVTGGRLTYSNWKKDEPNNH. 18 SELRGTVAIPRNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDQPDDWy 19 SELRGTVAIPKNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDEPNDH. 20 SELRGTVAIPRNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDEPNDH. 21 SELRGTVAIPRNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDEPNDH. 22 SELRGTVAIPRNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDEPNDH. 23 SELRGTVAIPRNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDEPNDH. 24 SELRGTVAIPRNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDEPNDH. 25 SELRGTVAIPRNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDEPNDH. 26 SELRGTVAIPRNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDEPNDH. 27 AGLQATVAAPKNAEENKAIQDVAK---DTAFLGITDEATEGQFMYVTGGRLTYSNWKKDEPNDH. 28 AQFQGRVATPMNAEENRALKDLVT---EEAFLGITDQETEGKFVDLTGKGVTYQNWNDGEPNNA. 29 ARFQASVATPRNAAENRAIQNLIK---EEAFLGITDENTEGEFVDLTGNKLTYTNWNDGEPNNA. 30 VKFQASVATPRNAAENGAIQNLIK---EEAFLGITDEKTEGQFVDLTGNRLTYTNWNEGEPNNA. 31 VKFQASVATPRNAAENGAIQNLIK---EEAFLGITDEKTEGQFVDLTGNRLTYTNWNEGEPNNA. 32 SEFQGSVATPRNAEENSAIQKVAK---DIAYLGITDVRVEGSFEDLTGNRVRYTNWNDGEPNNT. 33 SEFQGSVATPRNAEENSAIQKVAK---DIAYLGITDVRVEGSFEDLTGNRVRYTNWNDGEPNNT. 34 SELQGTVATPRNAEENRAIQNVAK---DVAFLGITDQRTENVFEDLTGNRVRYTNWNEGEPNNV. 35 SELQGTVATPRNAEENRAIQNVAK---DVAFLGITDQRTENVFEDLTGNRVRYTNWNEGEPNNV. 36 SELQGTVATPRNAEENRAIQNVAK---DVAFLGITDQRTENVFEDLTGNRVRYTNWNEGEPNNV. 37 SELQGTVATPRNAEENRAIQNVAK---DVAFLGITDQRTENVFEDLTGNRVRYTNWNEGEPNNV. 130 140 150 | | | 1 ..DEGQPENCVEIFPDGKWNDVPCSKQ.LLVICEF... 2 ..KDEGPENCLEIYSDGNWNDIECREE.RLVICEF... 3 ..KDEGPENCLEIYSDGNWNDIECREE.RLVICEF... 4 ..KDEGPENCLEIYSDGNWNDIECREE.RLVICEF... 5 ..DEGQPENCVEIFPDGKWNDVPCSKQ.LLVICEF... 6 ..DEGQPENCVEIFPDGKWNDVPCSKQ.LLVICEF... 7 ..DEGQPENCVEIFPDGKWNDVPCSKQ.LLVICEF... 8 ..DEGQPENCVEIFPDGKWNDVPCSKQ.LLVICEF... 9 ..--GGSENCVEIFPNGKWNDKVCGEQ.RLVICEF... 10 ..--GGSENCVEIFPNGKWNDKVCGEQ.RLVICEF... 11 ..--GGAENCVEIFTNGQWNDKACGEQ.RLVICEF... 12 ..--GGAENCVEIFTNGQWNDKACGEQ.RLVICEF... 13 ..--GGSEDCVEIFTNGKWNDRACGEK.RLVVCEF... 14 ..--GGSEDCVEIFTNGKWNDRACGEK.RLVVCEHf.. 15 ..--GGSEDCVEIFTNGKWNDRACGEK.RLVVCEF... 16 ..---KNEDCAVIEDSGKWNDLDCSNSnIFIICEL... 17 ..--GSGEDCVIILDNGLWNDISCQAS.FKAVCEFpa. 18 ghGLGGGEDCVTIVDNGLWNDISCQAS.HTAVCEFpa. 19 ..--GSGEDCVTIVDNGLWNDISCQAS.HTAVCEFpa. 20 ..--GSGEDCVTIVDNGLWNDISCQAS.HTAVCEFpa. 21 ..--GSGEDCVTIVDNGLWNDISCQAS.HTAVCEFpa. 22 ..--GSGEDCVTIVDNGLWNDISCQKK.KTAVCEFpa. 23 ..--GSGEDCVTIVDNGLWNDISCQAS.HTAVCEF... 24 ..--GSGEDCVTIVDNGLWNDISCQAS.HTAVCEFpa. 25 ..--GSGEDCVTIVDNGLWNDISCQAS.HTAVCEFpa. 26 ..--GSGEDCVTIVDNGLWNDISCQAS.HTAVCEFp.. 27 ..--GSGEDCVILLSNGLWNDISCTAS.YIAVCEFpa. 28 ..--SPGEHCVTLLSDGTWNDIACSAS.FLTVCEFsl. 29 ..--GSNEDCVLLLKNGKWNDIPCSSS.HLALCEFpi. 30 ..--GSDEDCVLLLKNGQWNDVPCSTS.HLAVCEFpi. 31 ..--GSDEDCVLLLKNGQWNDVPCSTS.HLAVCEFpi. 32 ..--GDGEDCVVILGNGKWNDVPCSDS.FLAICEFsd. 33 ..--GDGEDCVVILGNGKWNDVPCSDS.FLAICEFsd. 34 ..--GSGENCVVLLTNGKWNDVPCSDS.FLVVCEFsd. 35 ..--GSGENCVVLLTNGKWNDVPCSDS.FLVVCEFs.. 36 ..--GSGENCVVLLTNGKWNDVPCSDS.FLVVCEFsd. 37 ..--GSGENCVVLLTNGKWNDVPCSDS.FLVVCEFs..