;  SAM: /projects/compbio/experiments/protein-predict/SAM_T08test/bin_freeze/sam/prettyalign v3.5 (July 15, 2005) compiled 04/12/08_09:06:02
;  (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.
; ---------------------------------------------------------------------
; Sequences correspond to the following labels:
; 1 T0467 BcR97A, Bacillus cereus, 97 residues
; 2 T0468 BcR103A, Bacillus cereus, 109 residues
                 10        20        30        40        50            
                 |         |         |         |         |            
   1 ...MDLNRMGKDEYYVQITVDGKEVHSKADNGQKYKDYEYKLTGFDKDGKEKELEFTA.....QK
   2 merASLNRIGKDVYYMQIKGEGTI--EKVDGRNLR---NYTLPAYDEDGVKKQITFRStkkenDH


       60        70                80        90       
       |         |                 |         |       
   1 NLRKEAFLRVYHSDKKG........VSAWEEVKKDELPAKVKEKLGVK
   2 KLNKYAFLRLYVDQDDNskn9ssieVKSYEEIQKADLPEKVKDKFTIK