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:

- T0211 HR1958, human
- gi|12719958|ref|XP_001655.2|_1:143 HSPCO34 protein [Homo sapiens]
- gi|13528894|gb|AAH05245.1| LOC51668 protein [Homo sapiens]
- gi|33311259|gb|AAQ03618.1| placental protein 25 [Homo sapiens]
- gi|33311833|gb|AAQ03994.1| placental protein 25 variant [Homo sapiens]
- gi|25031649|ref|XP_204090.1|_1:142 RIKEN cDNA 2900042B11 [Mus musculus]
- gi|12851073|dbj|BAB28934.1|_1:142 unnamed protein product [Mus musculus]
- gi|47215908|emb|CAG00383.1|_6:132 unnamed protein product [Tetraodon nigroviridis]
- gi|7706383|ref|NP_057210.1|_1:104 HSPCO34 protein [Homo sapiens]
- gi|5410280|gb|AAD43011.1| HSPCO34 protein [Homo sapiens]
- gi|18255594|gb|AAH21897.1|_1:33 Similar to RIKEN cDNA 2900042B11 gene [Mus musculus]

              10        20        30        40        50        60     
              |         |         |         |         |         |     
   1 MRKIDLCLSSEGSEVILATSSDEKHPPENIIDGNPETFWTTTGMFPQEFIICFHKHVRIERLVIQ
   2 MRKIDLCLSSEGSEVILATSSDEKHPPENIIDGNPETFWTTTGMFPQEFIICFHKHVRIERLVIQ
   3 MRKVDLCSVTEGTEVILATSSDEKHPPENIIDGNPETFWTTTGMFPQEFIICFHKHVKIEKLVIQ
   4 MRKVDLCSVTEGTEVILATSSDEKHPPENIIDGNPETFWTTTGMFPQEFIICFHKHVKIEKLVIQ
   5 -------LGSLGAKVVVISSSDENHPPENIIDGTTQTFWMSTGLFPQEFIIRFTESTNVSAVTIE
   6 MRKIDLCLSSEGSEVILATSSDEKHPPENIIDGNPETFWTTTGMFPQEFIICFHKHVRIERLVIQ
   7 MRKVDLCSVTEGTEVILATSSDEKHPPENIIDG--------------------------------


         70        80        90       100       110       120       130
         |         |         |         |         |         |         |
   1 SYFVQTLKIEKSTSKEPVDFEQWIEKDLVHTEGQLQNEEIVAHDGSATYLRFIIVSAFDHFASVH
   2 SYFVQTLKIEKSTSKEPVDFEQWIEKDLVHTEGQLQNEEIVAHDGSATYLRFIIVSAFDHFASVH
   3 SYLVRTLRIEKTTSKEPLDFEQWVEKDLVHTEGQLQNEEIVARDGYATFLRFIIVSAFDHFASVH
   4 SYLVRTLRTEKTTSKEPLDFEQWVEKDLVHTEGQLQNEEIVARDGYATFLRFIIVSAFDHFASVH
   5 SYNVKHLKLEKNTSQSASQFESITEKEFEHVTGCLQSNTVPLNGIDATHLRFIITSGHDHFVSVH
   6 SYFVQTLKIEKTRLKSQLILSNGLKKIWYTQRGSFKMKK--------------------------
   7 -----------------------------------------------------------------


             140    
              |    
   1 SVSAEGTVVSNLSS
   2 SVSAEGTVVSNLS-
   3 SISAEGLTVSSL--
   4 SISAEGLTVSSL--
   5 RVSV----------
   6 --------------
   7 --------------