;  SAM: prettyalign v3.5 (July 15, 2005) compiled 05/31/06_11:54:01
;  (c) 1992-2001 Regents of the University of California, Santa Cruz
;
;          Sequence Alignment and Modeling Software System
;         http://www.cse.ucsc.edu/research/compbio/sam.html
;
; ----------------- Citations (SAM, SAM-T2K, 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, et al., What is the value added by human intervention in protein
;  structure prediction, Proteins: Stucture, Function, Genetics 45(S5):86--91, 2001.
; A. Krogh et al., Hidden Markov models in computational biology:
;  Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
; ---------------------------------------------------------------------
                                                     10        20     
                                                      |         |     
T0301 .......................................MAHPPQIRIPATYLRGGTSKGVFFR
1w61A mgqekllfdqkykiikgekkekkknqranrrehqqkrei--MRFKKSFTCIDMHTEGEAARIV-


         30                 40        50        60        70        80
          |                  |         |         |         |         |
T0301 LEDLPESCRVPG.........EARDRLFMRVIGSPDPYAAHIDGMGGATSSTSKCVILSKSSQP
1w61A TSGLPH-IPGSNmaekkaylqENMDYLRRGIMLEPRGHDDM------------FGAFLFDPIEE


              90       100       110       120       130       140    
               |         |         |         |         |         |    
T0301 GHDVDYLYGQVSIDKPFVDWSGNCGNLSTGAGAFALHAGLVDPARIPEDGICEVRIWQANIGKT
1w61A GADLGIVFMDT------GGYLNMCGHNSIAAVTAAVETGIVSVP--AKATNVPVVLDT--PAGL


         150       160       170       180       190       200        
           |         |         |         |         |         |        
T0301 IIAHVPVSGGQVQETGDFELDGVTFPAAEIVLEFLDPSDDGEDGGAIFPTGNLVDDLEV.PGVG
1w61A VRGTAHLQSGTESEV------------SNASIINVPSF--------L---YQQDVVVVLpKPYG


      210       220       230       240       250       260           
        |         |         |         |         |         |           
T0301 TFKATMINAGIPTVFVNAEEIGYRGTELREEINGDPQQLARFERIRVAGALRMGLIKT.....P
1w61A EVRVDIAFGGNFFAIVPAEQLGIDISV-----QNLSRLQEAGELLRTEINRSVKV-QHpqlph-


       270       280       290       300       310       320       330
         |         |         |         |         |         |         |
T0301 EEAATRQHTPKIAFVAPPRDYRTASGKLVAAGDIDLLVRALSMGKLHHAMMGTAAVAIGTAAAI
1w61A -----INTVDCVEIYGPPTN----PEA------NYKNVVIFGNRQADRSPCGTGTSAKMATLYA


             340       350        360        370       380       390  
               |         |          |          |         |         |  
T0301 PGTLVNLAAGGGERSAVRFGHPSG.TLRVGA.EASQANGEWTVTKAIMSRSARILMEGWVRVPG
1w61A KGQL-------RIGETFVYESILGsLFQGRVlGEERIPG-------------------------


                                                                      
                                                                      
T0301 DAF.............................................................
1w61A ---vkvpvtkdaeegmlvvtaeitgkafimgfntmlfdptdpfkngftlkqyiwsssvdklaaa


              
              
T0301 ........
1w61A lehhhhhh