;  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 KSTAVRALAALLPE....IEAVEGCPVSSPNVEMIPDWATVLSTNVIRK........PTPVVDLP
   2 KTEIARRLAKLANApfikVEATKFTEVGYVGKEVDSIIRDLTDAAVKMVrv121aak--------
   3 KTEIARRLAKLANApfikVEATKFTEVGYVGKEVDSIIRDLTDAAVKMVrvq85aak--------


             120       130       140        150               160      
              |         |         |          |                 |      
   1 LGVSEDRVVGALDIERAISKGEKAFEPGLLARA.NRGYLYIDECNLL........EDHIVDLLLD
   2 -------LVN---PEELKQDAIDAVE-------.QHGIVFIDEIDKIckr12dvsREGVQRDLLP
   3 -------LVN---PEELKQDAIDAV--------eQHGIVFIDEIDKIckr12dvsREGVQRDLLP


       170       180       190       200          210       220       2
        |         |         |         |            |         |        
   1 VAQSGENVVERDGLSIRHPARFVLVGSGNPEEGD...LRPQLLDRFGLSVEVLSPRDVETRVEVI
   2 LVEGCTVST-KHGMVKTDHILFIASGAFQIAK--psdLIPELQGRLPIRVELQALTTSDFERILT
   3 LVEGCTVST-KHGMVKTDHILFIASGAFQIAK--psdLIPELQGRLPIRVELQALTTSDFERILT


      30       240       250       260       270       280           29
      |         |         |         |         |         |             
   1 RRRDTYDADPKAFLEEWRPKDMDIRNQILEARERLPKVEAPNTALYDCAALCIAL....GSDGLR
   2 E-----------------PNASITVQYKALMATEGVNIEFTDSGIKRIAEAAWQVnestENIGAR
   3 E-----------------PNASITVQYKALMATEGVNIEFTDSGIKRIAEAAWQVnestENIGAR


      0            300       310       320       330       340       35
     |              |         |         |         |         |         
   1 GELTLLRS.....ARALAALEGATAVGRDHLKRVATMALSHRLRRDPLDEAGSTARVARTVEETL
   2 RLHTVLERlmeeiSYDASDLSGQNITIDADYVSKHL----------------DALVADEDLSRFI
   3 RLHTVLERlmeeiSYDASDLSGQNITIDADYVSKHL----------------DALVADEDLSRFI


      0
     |
   1 P
   2 L
   3 L