;  SAM: prettyalign v3.3.0 (January 24, 2000) compiled 02/10/01_22:08:06
;  (c) 1992-2000 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-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, 1998.
; 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 T0127
; 2 1do0A
; 3 1do0A
              10        20        30        40                50       
              |         |         |         |                 |       
   1 MTTAVARLQPSASGAKTRPVFPFSAIVGQEDMKLALLLTAVDP........GIGGVLVFGDRGTG
   2 ----------SEMTPREIVSELDKHIIGQDNAKRSVAIALRNRwrr14hevTPKNILMIGPTGVG
   3 ----------SEMTPREIVSELDKHIIGQDNAKRSVAIALRNRwrr14hevTPKNILMIGPTGVG


       60        70        80        90       100               110    
       |         |         |         |         |                 |    
   1 KSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLSTNVIRK........PTPVVDLPLGVS
   2 KTEIARRLAKLA--------------------------NAPFIKVea151aakLVNPEELKQDAI
   3 KTEIARRLAKLA--------------------------NAPFIKVea115aakLVNPEELKQDAI


         120       130       140       150               160       170 
          |         |         |         |                 |         | 
   1 EDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLL........EDHIVDLLLDVAQSG
   2 DAVEQH-------------------------GIVFIDEIDKIckr12dvsREGVQRDLLPLVEGC
   3 DAVEQH-------------------------GIVFIDEIDKIckr12dvsREGVQRDLLPLVEGC


            180       190       200         210       220       230    
             |         |         |           |         |         |    
   1 ENVVERDGLSIRHPARFVLVGSGNPEEGD..LRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTY
   2 TVST--KHGMVKTDHILFIASGAFQIAKPsdLIPELQGRLPIRVELQALTTSDFERILTE-----
   3 TVST--KHGMVKTDHILFIASGAFQIAKPsdLIPELQGRLPIRVELQALTTSDFERILTE-----


         240       250       260       270       280           290     
          |         |         |         |         |             |     
   1 DADPKAFLEEWRPKDMDIRNQILEARERLPKVEAPNTALYDCAALCIAL....GSDGLRGELTLL
   2 ------------PNASITVQYKALMATEGVNIEFTDSGIKRIAEAAWQVnestENIGARRLHTVL
   3 ------------PNASITVQYKALMATEGVNIEFTDSGIKRIAEAAWQVnestENIGARRLHTVL


        300             310       320       330       340       350
         |               |         |         |         |         |
   1 RSARALAALE......GATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVEETLP
   2 ERLMEEISYDasdlsgQNITIDADYVSKHLDALVADEDLSRFIL-----------------
   3 ERLMEEISYDasdlsgQNITIDADYVSKHLDALVADEDLSRFIL-----------------