;  SAM: prettyalign v3.5 (May 1, 2004) compiled 07/27/04_17:12:31
;  (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        30        40         50         60  
               |         |         |         |          |          |  
T0232 MEDGMNTFDLYYWPVPFRGQLIRGILAHCGCSWDEHDVDAIE.GLMDCGAEKQPVAFMG.PPVL
1fw1A MQAGK--PILYSYFRSSCSWRVRIALALKGIDYKTVPINLIKdGGQQFSKDFQALNPMKqVPTL


            70        80           90       100       110        120  
             |         |            |         |         |          |  
T0232 IDRERNFAISQMPAIAIYLGERLD...ILPATVEGRTLSAKIVNDANDVLDELTLNGGR.EMWT
1fw1A KI--DGITIHQSLAIIEYLEETRPtprLLPQDPKKRASVRMISDLIAGGIQPLQNLSVLkQVGE


           130       140       150       160         170       180    
             |         |         |         |           |         |    
T0232 PEKWQEFVPRLQKWIRIFADTGARNGLSAASGFMLGTEKIGVADI..VTAILWTTVADRFPAIK
1fw1A EMQLTWAQNAITCGFNALEQILQS----TAGIYCVG-DEVTMADLclVPQVANAERFKV--DLT


         190       200       210       220       230         
           |         |         |         |         |         
T0232 GIIEDTSPIIWGLSRRVVATAPLAALNSKSFEEYGNAYCGGEIEKSLRKV...AS
1fw1A PY-----PTISSINKRLLVLEAFQVSHPCRQPDTPTE-------------lra--