;  SAM: prettyalign v3.1b (February 24, 1999) compiled 04/18/00_11:44:15
;  (c) 1992-1999 Regents of the University of California, Santa Cruz
;
;          Sequence Alignment and Modeling Software System
;         http://www.cse.ucsc.edu/research/compbio/sam.html
;
; ------ Citations (HMMs, SAM) ------
; A. Krogh et al., Hidden Markov models in computational biology:
; ------------- Citations (SAM, SAM-T99, HMMs) -----------------
; R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
;  Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
; K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
;  remote protein homologies, Bioinformatics 14(10):846-856, 1999.
; A. Krogh et al., Hidden Markov models in computational biology:
;  Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
; --------------------------------------------------------------
             10        20        30        40        50        60        70        80        90       100      
             |         |         |         |         |         |         |         |         |         |      
....MSKILVFGHQNPDSDAIGSSM--AYAYLKRQLGVDAQAVA-----LGNPNEETAFVLDYFG-----------IQAPPVVK----SAQAEGAKQVILTDHNEFQQSI
336eSSNVIIMGHKFPDMDSIGAAI--GILKVAQANNKDGFIVI-------DPNQIGSSVQRLIGEIKKYEELWSRFITPEEAM----EISNDDTLLVI-VDTHKPSLVM
m34gRKLHLVMGNESCDLDSAVSAVTLAFVYAQRHREHDYVPILNIPRRDYPLKTEVGHLFVKCG-----------IAEPVLLFRDDIPREVVQDVNVILVDHHVSPLAP
m36iHGSFLLLGHEHPDEDCIASLV--AFALLLTRCNKRVEICC-----QGPIRVQISFLIDICL----YNGIAVHLDTQTVPRMPDALVILDTPNPGMIYAPPSCRLLL
m76kKKRIIIYG----DYDVDGITGTAILYRVLKLLGAKVYPVLPNRQTGYGLNKELMSIFEKYG---------DFLITVDNGTSAVEEIDQSSLETVVIDHHNVPPRIP
y11qEYQQRLLRNHSLDFDDLIMTTIQLFDRVPDVLHYYQYKFQYIHIDEYQDTNRAQYTLV-----KKLAERFQNICAVGDAD-QSIYRWRGADIQNILS---------


  110       120       130       140       150       160       170       180       190       200           210  
   |         |         |         |         |         |         |         |         |         |             |  
ADIRE--VEVVEVVDHHRVANFETANPLYMRLEPVG-SASSIVYRL--YKENGVAIPKEIAGVMLSGLISDTLLLKSPTTH--ASDPAVAEDL--....-AKIAGVD---
EERLVNKIEHIVVIDHHRRGEEFIRDPLLVYMEPYASSTAELVTELLEYQPKRLKINMIEATALLAGIIVDTKSF-SLRTG--SRTFDAASYL--....--RAKGADTVL
NVTEI--LDHRPLEDSSPSFKQLPTLCQLDIDASVG-SCATLVAQR--YLAEDQPRSTSVAQLLHATIVLDTINFAPAAKRYGPKDEAMVQKLES....ELNRKDAQ---
SDSTIRKIE----LDHHLFANAACCGDPGYSLIARASSTCEIIA----YLCYKLARNHAQRTALGIRNLYSRNVVLSILTG-MIGDAKTGAYL--....-ISRKDRA---
KKALI----VNPKVGAKREG--------LKALSSSALSFYLGSALIREFNLDEDPRNFLDLVAL--GLLADYMPVNPVTRTLAVKGMYLLEKIAQg10aLLEISSVNGNV
FERDYPNAKVILLEQNYRSTKRILQAANEVIEHNVNRKPKRIWTEN----PEGKPILYYEA-----------MNEADEAQFVAGRIREAVERG--....-----------


      220       230       240       250       260       270       280       290          300       310       32
       |         |         |         |         |         |         |         |            |         |         
LQEYGLAMLKAGTNLASKTAAQLVDIDAKTFELNGSQVRVAQVNTVDINEVLERQNEIEEAIKASQ-AANGYSDFVLMI...TDILNSNSEILALGNNTDK-VEAAFNFT
VQKFLKETVDSYIKRAKLIQHTVLYKD---------NIAIASLP-ENEEEYFDQVLIAQAADSLLSMSEVEASFAVARR...DEQTVCISAR----SLGEVNVQIIMEAL
RSSLFDELVAARADISKLTLTEVLRKDMKVLQTDRQVVPLAGMPILVRDFVEKSGAE------KAV-REFGVESNLLVI...LGMYVSPADGQVQRDLALISLSGQGQFV
LYTYFTQRLNTMLREKTKPITGNIASTKQILHT------LESLSAEEHAVYQTMVKNVQHRGSISLLLLNQTQTQALHEccnAEHFVSLIKMATSNIAESISGIGISAYP
TSRDVYFSLAPRINAAGRISKPKFALD-LLLEEDERRARELALKLEEINRRRKAITNLTYKEAKKKAIEEIDKNFLVVW...DEEWHPGILGIVAGRLAGEFNKPVAVFS
ERRYRDFAVLYRTNAQSRVMEEMLLKA------NIPYQIVGGLKFYDRKEIKDILAY------LRVIANPDDDLSLLRI...------------------INVPKRGIGA


 0       330       340             
|         |         |             
LKNNHAFLAGAVSRKKQVVPQLTESFNG-.....
EGGGHLTNAATQLSGISVSEALERLKHA-i11r.
QRVQQALMESNDPKLELRPHEVDTRFMG-g50s.
DPTQQFYVTQWRVRTAARVKQLDLRLLL-s48a.
KGKTKAVGSIRSIESIDVYDKVSTMRDM-133v.
STIDKLVRYAAD-------HELS------.....