;  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 SW:MABC_RAT_102:242
; 2 3D:1RDIA_1:110
; 3 GP:RATMABPC_1_102:242
; 4 3D:1RDIB_1:111
; 5 PIR1:LNMSMC_89:242_9:159
; 6 SW:MABC_MOUSE_89:242_9:159
; 7 3D:1HUP_8:139
; 8 SW:MABC_HUMAN_115:246
; 9 GP:MACMBPC_1_103:234
; 10 GP:D73408_1_98:247
; 11 GP:MACMBPA_1_93:243
; 12 3D:1YTTA_1:113
; 13 3D:2MSBA_1:110
; 14 3D:1YTTB_1:112
; 15 3D:2MSBB_1:111
; 16 3D:1KMBA_1:147
; 17 3D:1RTMA_1:147
; 18 SW:MABA_RAT_86:236
; 19 GP:RATMABPA2_1_86:236
; 20 3D:1AFAA_1:152
; 21 SW:MABA_MOUSE_87:237
; 22 GP:AF022226_1_91:237
; 23 PIR2:S18382_164:318
; 24 SW:PSPD_HUMAN_222:375
; 25 GP:HSMRNAPD_1_222:375
; 26 SW:PSPD_RAT_221:374
; 27 SW:PSPD_MOUSE_221:374
; 28 PIR2:S33603_216:369
; 29 SW:PSPD_BOVIN_216:369
; 30 GP:BTCONGL_1_216:371
; 31 T0069
; 32 SW:CONG_BOVIN_216:371
; 33 PIR2:I45878_216:371
; 34 GP:BOVCO9_1_180:335
; 35 PIR2:A53570_145:301
; 36 GP:BTC43_1_145:301
; 37 SW:CL43_BOVIN_145:301
                   10        20        30        40        50        60
                   |         |         |         |         |         |
   1 .....-----VEFDTTNIDLEIAALRSELRAMRKWVLLSMSENVGKKYFMSSVRRMPLNRAKALC
   2 .....-----------------------------------------KYFMSSVRRMPLNRAKALC
   3 .....-----VEFDTTNIDLEIAALRSELRAMRKWVLLSMSENVGKKYFMSSVRRMPLNRAKALC
   4 .....----------------------------------------KKYFMSSVRRMPLNRAKALC
   5 vgpkgDRGDRAEFDTSEIDSEIAALRSELRALRNWVLFSLSEKVGKKYFVSSVKKMSLDRVKALC
   6 vgpkgDRGDRAEFDTSEIDSEIAALRSELRALRNWVLFSLSEKVGKKYFVSSVKKMSLDRVKALC
   7 .....--------------SERKALQTEMARIKKWLTFSLGKQVGNKFFLTNGEIMTFEKVKALC
   8 .....--------------SERKALQTEMARIKKWLTFSLGKQVGNKFFLTNGEIMTFEKVKALC
   9 .....--------------SERKALQTEMARIKKWLTFSLGRQVGNKFFLTNGEMMTFDKVKALC
  10 gqkg.DPGENMGDYIRLATSERATLQSELNQIKNWLIFSLGKRVGKKAFFTNGKKMPFNEVKTLC
  11 qkgdhGDNSVAEAKLANLERQLQSLRSELDHMKKLQAFSLGKMSGKKLFVTNGERMPFSEVKALC
  12 .....--------------------------------------SGKKFFVTNHERMPFSKVKALC
  13 .....-----------------------------------------KFFVTNHERMPFSKVKALC
  14 .....---------------------------------------GKKFFVTNHERMPFSKVKALC
  15 .....----------------------------------------KKFFVTNHERMPFSKVKALC
  16 .....----AIEVKLANMEAEINTLKSKLELTNKLHAFSMGKKSGKKFFVTNHERMPFSKVKALC
  17 .....----AIEVKLANMEAEINTLKSKLELTNKLHAFSMGKKSGKKFFVTNHERMPFSKVKALC
  18 qkgdrGDSRAIEVKLANMEAEINTLKSKLELTNKLHAFSMGKKSGKKFFVTNHERMPFSKVKALC
  19 qkgdrGDSRAIEVKLANMEAEINTLKSKLELTNKLHAFSMGKKSGKKFFVTNHERMPFSKVKALC
  20 .....----AIEVKLANMEAEINTLKSKLELTNKLHAFSMGKKSGKKFFVTNHERMPFSKVKALC
  21 qkgdhGDNRAIEEKLANMEAEIRILKSKLQLTNKLHAFSMGKKSGKKLFVTNHEKMPFSKVKSLC
  22 vvtd.----DLHRQITDLEAKIRVLEDDLSRYKKALSLKDVVNIGKKMFVSTGKKYNFEKGKSLC
  23 gesglPDVASLRQQVEALQGQVQHLQAAFSQYKKVELFPNGQSVGEKIFKTAGFVKPFTEAQLLC
  24 gesglPDVASLRQQVEALQGQVQHLQAAFSQYKKVELFPNGQSVGEKIFKTAGFVKPFTEAQLLC
  25 gesglPDVASLRQQVEALQGQVQHLQAAFSQYKKVELFPNGQSVGEKIFKTAGFVKPFTEAQLLC
  26 gesglPDSAALRQQMEALNGKLQRLEAAFSRYKKAALFPDGQSVGDKIFRAANSEEPFEDAKEMC
  27 gesglPDSAALRQQMEALKGKLQRLEVAFSHYQKAALFPDGRSVGDKIFRTADSEKPFEDAQEMC
  28 gesglAEVNALRQRVGILEGQLQRLQNAFSQYKKAMLFPNGRSVGEKIFKTVGSEKTFQDAQQIC
  29 gesglAEVNALRQRVGILEGQLQRLQNAFSQYKKAMLFPNGRSVGEKIFKTVGSEKTFQDAQQIC
  30 gesglAEANALKQRVTILDGHLRRFQNAFSQYKKAVLFPDGQAVGEKIFKTAGAVKSYSDAVQLC
  31 .....AEANALKQRVTILDGHLRRFQNAFSQYKKAVLFPDGQAVGEKIFKTAGAVKSYSDAEQLC
  32 gesglAEVNALKQRVTILDGHLRRFQNAFSQYKKAVLFPDGQAVGEKIFKTAGAVKSYSDAEQLC
  33 gesglAEVNALKQRVTILDGHLRRFQNAFSQYKKAVLFPDGQAVGEKIFKTAGAVKSYSDAEQLC
  34 gesglAEVNALKQRVTILDGHLRRFQNAFSQYKKAVLFPDGQAVGEKIFKTAGAVKSYSDAEQLC
  35 getsvLEVDTLRQRMRNLEGEVQRLQNIVTQYRKAVLFPDGQAVGEKIFKTAGAVKSYSDAEQLC
  36 getsvLEVDTLRQRMRNLEGEVQRLQNIVTQYRKAVLFPDGQAVGEKIFKTAGAVKSYSDAEQLC
  37 getsvLEVDTLRQRMRNLEGEVQRLQNIVTQYRKAVLFPDGQAVGEKIFKTAGAVKSYSDAEQLC


              70        80        90       100       110       120     
              |         |         |         |         |         |     
   1 SELQGTVATPRNAEENRAIQNVAK---DVAFLGITDQRTENVFEDLTGNRVRYTNWNEGEPNNV.
   2 SELQGTVATPRNAEENRAIQNVAK---DVAFLGITDQRTENVFEDLTGNRVRYTNWNEGEPNNV.
   3 SELQGTVATPRNAEENRAIQNVAK---DVAFLGITDQRTENVFEDLTGNRVRYTNWNEGEPNNV.
   4 SELQGTVATPRNAEENRAIQNVAK---DVAFLGITDQRTENVFEDLTGNRVRYTNWNEGEPNNV.
   5 SEFQGSVATPRNAEENSAIQKVAK---DIAYLGITDVRVEGSFEDLTGNRVRYTNWNDGEPNNT.
   6 SEFQGSVATPRNAEENSAIQKVAK---DIAYLGITDVRVEGSFEDLTGNRVRYTNWNDGEPNNT.
   7 VKFQASVATPRNAAENGAIQNLIK---EEAFLGITDEKTEGQFVDLTGNRLTYTNWNEGEPNNA.
   8 VKFQASVATPRNAAENGAIQNLIK---EEAFLGITDEKTEGQFVDLTGNRLTYTNWNEGEPNNA.
   9 ARFQASVATPRNAAENRAIQNLIK---EEAFLGITDENTEGEFVDLTGNKLTYTNWNDGEPNNA.
  10 AQFQGRVATPMNAEENRALKDLVT---EEAFLGITDQETEGKFVDLTGKGVTYQNWNDGEPNNA.
  11 AGLQATVAAPKNAEENKAIQDVAK---DTAFLGITDEATEGQFMYVTGGRLTYSNWKKDEPNDH.
  12 SELRGTVAIPRNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDEPNDH.
  13 SELRGTVAIPRNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDEPNDH.
  14 SELRGTVAIPRNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDEPNDH.
  15 SELRGTVAIPRNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDEPNDH.
  16 SELRGTVAIPRNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDEPNDH.
  17 SELRGTVAIPRNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDEPNDH.
  18 SELRGTVAIPRNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDEPNDH.
  19 SELRGTVAIPKNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDEPNDH.
  20 SELRGTVAIPRNAEENKAIQEVAK---TSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDQPDDWy
  21 TELQGTVAIPRNAEENKAIQEVAT---GIAFLGITDEATEGQFMYVTGGRLTYSNWKKDEPNNH.
  22 AKAGSVLASPRNEAENTALKDLID-PSSQAYIGISDAQTEGRFMYLSGGPLTYSNWKPGEPNNH.
  23 TQAGGQLASPRSAAENAALQQLVVAKNEAAFLSMTDSKTEGKFTYPTGESLVYSNWAPGEPNDD.
  24 TQAGGQLASPRSAAENAALQQLVVAKNEAAFLSMTDSKTEGKFTYPTGESLVYSNWAPGEPNDD.
  25 TQAGGQLASPRSAAENAALQQLVVAKNEAAFLSMTDSKTEGKFTYPTGESLVYSNWAPGEPNDD.
  26 RQAGGQLASPRSATENAAVQQLVTAHSKAAFLSMTDVGTEGKFTYPTGEALVYSNWAPGEPNNN.
  27 KQAGGQLASPRSATENAAIQQLITAHNKAAFLSMTDVGTEGKFTYPTGEPLVYSNWAPGEPNNN.
  28 TQAGGQLPSPRSGAENEALTQLATAQNKAAFLSMSDTRKEGTFIYPTGEPLVYSNWAPQEPNND.
  29 TQAGGQLPSPRSGAENEALTQLATAQNKAAFLSMSDTRKEGTFIYPTGEPLVYSNWAPQEPNND.
  30 REAKGQLASPRSSAENEAVTQMVRAQEKNAYLSMNDISTEGRFTYPTGEILVYSNWADGEPNNS.
  31 REAKGQLASPRSSAENEAVTQMVRAQEKNAYLSMNDISTEGRFTYPTGEILVYSNWADGEPNNS.
  32 REAKGQLASPRSSAENEAVTQMVRAQEKNAYLSMNDISTEGRFTYPTGEILVYSNWADGEPNNS.
  33 REAKGQLASPRSSAENEAVTQMVRAQEKNAYLSMNDISTEGRFTYPTGEILVYSNWADGEPNNS.
  34 REAKGQLASPRSSAENEAVTQMVRAQEKNAYLSMNDISTEGRFTYPTGEILVYSNWADGEPNNS.
  35 REAKGQLASPRSSAENEAVTQLVRAKNKHAYLSMNDISKEGKFTYPTGGSLDYSNWAPGEPNNRa
  36 REAKGQLASPRSSAENEAVTQLVRAKNKHAYLSMNDISKEGKFTYPTGGSLDYSNWAPGEPGNRa
  37 REAKGQLASPRSSAENEAVTQLVRAKNKHAYLSMNDISKEGKFTYPTGGSLDYSNWAPGEPGNRa


           130       140        150         
            |         |          |         
   1 ..--GSGENCVVLLTNGKWNDVPCSDS.FLVVCEFsd.
   2 ..--GSGENCVVLLTNGKWNDVPCSDS.FLVVCEFs..
   3 ..--GSGENCVVLLTNGKWNDVPCSDS.FLVVCEFsd.
   4 ..--GSGENCVVLLTNGKWNDVPCSDS.FLVVCEFs..
   5 ..--GDGEDCVVILGNGKWNDVPCSDS.FLAICEFsd.
   6 ..--GDGEDCVVILGNGKWNDVPCSDS.FLAICEFsd.
   7 ..--GSDEDCVLLLKNGQWNDVPCSTS.HLAVCEFpi.
   8 ..--GSDEDCVLLLKNGQWNDVPCSTS.HLAVCEFpi.
   9 ..--GSNEDCVLLLKNGKWNDIPCSSS.HLALCEFpi.
  10 ..--SPGEHCVTLLSDGTWNDIACSAS.FLTVCEFsl.
  11 ..--GSGEDCVILLSNGLWNDISCTAS.YIAVCEFpa.
  12 ..--GSGEDCVTIVDNGLWNDISCQAS.HTAVCEFpa.
  13 ..--GSGEDCVTIVDNGLWNDISCQAS.HTAVCEFp..
  14 ..--GSGEDCVTIVDNGLWNDISCQAS.HTAVCEF...
  15 ..--GSGEDCVTIVDNGLWNDISCQAS.HTAVCEFpa.
  16 ..--GSGEDCVTIVDNGLWNDISCQKK.KTAVCEFpa.
  17 ..--GSGEDCVTIVDNGLWNDISCQAS.HTAVCEFpa.
  18 ..--GSGEDCVTIVDNGLWNDISCQAS.HTAVCEFpa.
  19 ..--GSGEDCVTIVDNGLWNDISCQAS.HTAVCEFpa.
  20 ghGLGGGEDCVTIVDNGLWNDISCQAS.HTAVCEFpa.
  21 ..--GSGEDCVIILDNGLWNDISCQAS.FKAVCEFpa.
  22 ..---KNEDCAVIEDSGKWNDLDCSNSnIFIICEL...
  23 ..--GGSEDCVEIFTNGKWNDRACGEK.RLVVCEHf..
  24 ..--GGSEDCVEIFTNGKWNDRACGEK.RLVVCEF...
  25 ..--GGSEDCVEIFTNGKWNDRACGEK.RLVVCEF...
  26 ..--GGAENCVEIFTNGQWNDKACGEQ.RLVICEF...
  27 ..--GGAENCVEIFTNGQWNDKACGEQ.RLVICEF...
  28 ..--GGSENCVEIFPNGKWNDKVCGEQ.RLVICEF...
  29 ..--GGSENCVEIFPNGKWNDKVCGEQ.RLVICEF...
  30 ..DEGQPENCVEIFPDGKWNDVPCSKQ.LLVICEF...
  31 ..DEGQPENCVEIFPDGKWNDVPCSKQ.LLVICEF...
  32 ..DEGQPENCVEIFPDGKWNDVPCSKQ.LLVICEF...
  33 ..DEGQPENCVEIFPDGKWNDVPCSKQ.LLVICEF...
  34 ..DEGQPENCVEIFPDGKWNDVPCSKQ.LLVICEF...
  35 ..KDEGPENCLEIYSDGNWNDIECREE.RLVICEF...
  36 ..KDEGPENCLEIYSDGNWNDIECREE.RLVICEF...
  37 ..KDEGPENCLEIYSDGNWNDIECREE.RLVICEF...