a2m2html output for tmp.a2m

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.

Sequence numbers correspond to the following labels:

- T0331 FG7459A, Streptococcus suis, 149 res
- gi|81097443|ref|ZP_00875725.1|_1:149 Pyridoxamine 5'-phosphate oxidase-related [Streptococcus suis 89/1591]
- gi|80976511|gb|EAP40112.1| Pyridoxamine 5'-phosphate oxidase-related [Streptococcus suis 89/1591]
- gi|19914545|gb|AAM04179.1|_21:161 hypothetical protein (multi-domain) [Methanosarcina acetivorans C2A]
- gi|20089624|ref|NP_615699.1| hypothetical protein MA0739 [Methanosarcina acetivorans C2A]

               10         20        30        40        50        60   
               |          |         |         |         |         |   
   1 .MELKDIMHILEDMK.VGVFATLDEYGNPHARHAHITAANEEGIFFMTSPETHFYDQLMGDQRVA
   2 .MELKDIMHILEDMK.VGVFATLDEYGNPHARHAHITAANEEGIFFMTSPETHFYDQLMGDQRVA
   3 gGGMEDPLEFLRNIKsVAV-ATVDD-GKPAVRMSDVMLVEHEKLYFLTARGKPYYRQLKKNPEIA


           70        80        90       100       110       120        
           |         |         |         |         |         |        
   1 MTAISEEGYLIQVVRVEGTARPVENDYLKTVFADNPYYQHIYKDESSDTMQVFQIYAGHGFYHSL
   2 MTAISEEGYLIQVVRVEGTARPVENDYLKTVFADNPYYQHIYKDESSDTMQVFQIYAGHGFYHSL
   3 LVGM-DKNYVM--VRVRGRIEFVENIFLEKIFEINPVLDEIYPEDTKDILEVFCLSSGVGEMYDL


       130       140         
        |         |         
   1 T..QGHKYIFSIGQGEHSEVRAL
   2 T..QGHKYIFSIGQGEHSEVRAL
   3 SgiPPKRERFAFGGAKVAE-PGY