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:

- T0196 Pfu-880080, Pyrococcus furiosus DSM 3638
- gi|18977279|ref|NP_578636.1|_1:108 hypothetical protein PF0907 [Pyrococcus furiosus DSM 3638]
- gi|18892949|gb|AAL81031.1| hypothetical protein [Pyrococcus furiosus DSM 3638]
- gi|14521217|ref|NP_126692.1|_1:102 hypothetical protein PAB1698 [Pyrococcus abyssi GE5]
- gi|7518210|pir||F75077 hypothetical protein PAB1698 - Pyrococcus abyssi (strain Orsay) [Taxonomy]
- gi|5458435|emb|CAB49923.1| Hypothetical protein [Pyrococcus abyssi]
- gi|14591052|ref|NP_143127.1|_1:101 hypothetical protein PH1233 [Pyrococcus horikoshii OT3]
- gi|7519041|pir||C71067 hypothetical protein PH1233 - Pyrococcus horikoshii [Taxonomy]
- gi|3257650|dbj|BAA30333.1| 101aa long hypothetical protein [Pyrococcus horikoshii OT3]

              10        20        30        40        50        60     
              |         |         |         |         |         |     
   1 AHHHHHHGSGLFDFLKRKEVKEEEKIEILSKKPAGKVVVEEVVNIMGKDVIIGTVESGMIGVGFK
   2 --------MGLFDFLKRKEVKEEEKIEILSKKPAGKVVVEEVVNIMGKDVIIGTVESGMIGVGFK
   3 ----------MLGFFRRKKKEEEEKI---TGKPVGKVKVENILIVGFKTVIICEVLEGMVKVGYK
   4 ----------MFKFFKRK--GEDEK-DV-TGKPVGKVKVESILKVGFRDVIICEVLEGIVKVGYK


         70        80        90       100       110      
         |         |         |         |         |      
   1 VKGPSGIGGIVRIERNREKVEFAIAGDRIGISIEGKIGKVKKGDVLEIYQT
   2 VKGPSGIGGIVRIERNREKVEFAIAGDRIGISIEGKIGKVKKGDVLEIYQT
   3 VRKGKKVAGIVSMEREHKKVEFAIPGDKIGIMLEKNIG-AEKGDILEVFIV
   4 VKKGKKVAGIVSMEREHKKIEFAIPGDRVGMMLEKNI-NAEKDDILEVYLV