(c) 1992-2000 Regents of the University of California, Santa Cruz
Sequence Alignment and Modeling Software System
http://www.soe.ucsc.edu/research/compbio/sam.html

Citations (SAM, SAM-T99, HMMs)

Sequence numbers correspond to the following labels:

    • T0344 Hypothetical protein PF2046, Pyrococcus furiosus, 229 res
                 10        20        30        40        50        60  
                 |         |         |         |         |         |  
   1 ...MRIVAADTGGAVLDETFEPIGLIATVAVLVEKPYRSAKEVMVKYANPYDYDLTGRQAIRDEV
   2 ...MRIVAADTGGAVLDETFEPIGLIATVAVLVEKPYRSAKEVMVKYANPYDYDLTGRQAIRDEV
   3 ...MRIVAADTGGAVLDESLQPIGLISTVAVLVEKPYNTAKEFLVKFSDPYNYDLSGRQAILDEI
   4 ...MRIVAADTGGALLDDAYNPLGLIATVAVLVEKPYRTASLSRVKYADPFNYDMSGRQAIRDEA
   5 mk.MRIVAADTGGAVLDESFQPVGLIATVAVLVEKPYKTSKRFLVKYADPYNYDLSGRQAIRDEI
   6 gmkMRIVAADTGGAVLDESFQPVGLIATVAVLVEKPYKTSKRFLVKYADPYNYDLSGRQAIRDEI
   7 ...--------------------------------------------------------------


            70        80        90       100       110       120       
            |         |         |         |         |         |       
   1 LLAIELARKVKPDVIHLDSTLGGIELRKLDEPTIDALGISDKGKEVWKELSKDLQPLARKFWEET
   2 LLAIELARKVKPDVIHLDSTLGGIELRKLDEPTIDALGISDKGKEVWKELSKDLQPLARKFWEET
   3 NLAIELAKRTKPDVVHLDSTLGGIEVRKLDEPTIEALSISDKGKEVWKDLSKDVQPLAKKFWEET
   4 YLAVELAREVKPDVVHLDSTIGGIEVRKLDEPTIEALGITDRGKEVWKDLSRDLQPLAKKLWEET
   5 ELAIELAREVSPDVIHLDSTLGGIEVRKLDESTIDALQISDRGKEIWKELSKDLQPLAKKFWEET
   6 ELAIELAREVSPDVIHLDSTLGGIEVRKLDESTIDALQISDRGKEIWKELSKDLQPLAKKFWEET
   7 -----------------------------------------------------------------


      130       140       150       160         170       180       190
       |         |         |         |           |         |         |
   1 NIEIVAIGKSSVPVRIAEIYAGIYSAKWGIENVEK..EGHLIIGLPRYMEVNIKDGKIIGRSLDP
   2 NIEIVAIGKSSVPVRIAEIYAGIYSAKWGIENVEK..EGHLIIGLPRYMEVNIKDGKIIGRSLDP
   3 GIEILAIGKSSVPVRIAEIYSGIFSVKWAIEEVKKghKDHLIIGLPRYMGVEIRDGKITGRTLDP
   4 GIEIIAIGKWSVPVRIAEIYSGIYTAKWAIEYARK..NGKVLVGLPRYMRVDIKPGEIYGESLDP
   5 GIEIIAIGKSSVPVRIAEIYAGIFSVKWALDNVKE..KGGLLVGYPGIWRLKLRKIK--------
   6 GIEIIAIGKSSVPVRIAEIYAGIFSVKWALDNVKE..KGGLLVGYPGIWRLKLRKIK--------
   7 -----------------------------------..-----------MEVEIKKDKIIGKSLDP


             200       210       220         
              |         |         |         
   1 REGGLYGSAEVSVPEGVKWEIYPNPVARRFMIFEIFSKR
   2 REGGLYGSAEVSVPEGVKWEIYPNPVARRFMIFEIFSKR
   3 REGNLYGEISIEVPNNIKWEVYPNPLVRRFHIFEIWGEY
   4 REGGLFGKIETNT-DGINWELYPNPLVRRYMVLEVWKE-
   5 ---------------------------------------
   6 ---------------------------------------
   7 REGGLYGEVKTEVPQGIKWELYPNPLVRRFMVFEITSKS