a2m2html output for file 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, 1999.
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:

- T0120 DNA repair protein XRCC4, human
- gi|5706612|gb|AAD47298.1|_1:336 (AF055285) DNA repair protein XRCC4 [Homo sapiens] (Homo sapiens)
- gi|4507945|ref|NP_003392.1|_1:334 X-ray repair complementing defective repair in Chinese hamster cells 4 (Homo sapiens)
- gi|1151115|gb|AAC50339.1| (U40622) XRCC4 [Homo sapiens] (Homo sapiens)
- gi|5706611|gb|AAD47297.1| (AF055285) DNA repair protein XRCC4 [Homo sapiens] (Homo sapiens)
- gi|1586944|prf||2205251A XRCC4 gene [Homo sapiens] (Homo sapiens)

              10        20        30        40        50        60     
              |         |         |         |         |         |     
   1 MERKISRIHLVSEPSITHFLQVSWEKTLESGFVITLTDGHSAWTGTVSESEISQEADDMAMEKGK
   2 MERKISRIHLVSEPSITHFLQVSWEKTLESGFVITLTDGHSAWTGTVSESEISQEADDMAMEKGK
   3 MERKISRIHLVSEPSITHFLQVSWEKTLESGFVITLTDGHSAWTGTVSESEISQEADDMAMEKGK


         70        80        90       100       110       120       130
         |         |         |         |         |         |         |
   1 YVGELRKALLSGAGPADVYTFNFSKESCYFFFEKNLKDVSFRLGSFNLEKVENPAEVIRELICYC
   2 YVGELRKALLSGAGPADVYTFNFSKESCYFFFEKNLKDVSFRLGSFNLEKVENPAEVIRELICYC
   3 YVGELRKALLSGAGPADVYTFNFSKESCYFFFEKNLKDVSFRLGSFNLEKVENPAEVIRELICYC


             140       150       160       170       180       190     
              |         |         |         |         |         |     
   1 LDTIAENQAKNEHLQKENERLLRDWNDVQGRFEKCVSAKEALETDLYKRFILVLNEKKTKIRSLH
   2 LDTIAENQAKNEHLQKENERLLRDWNDVQGRFEKCVSAKEALETDLYKRFILVLNEKKTKIRSLH
   3 LDTIAENQAKNEHLQKENERLLRDWNDVQGRFEKCVSAKEALETDLYKRFILVLNEKKTKIRSLH


        200       210       220       230       240       250       260
         |         |         |         |         |         |         |
   1 NKLLNAAQEREKDIKQEGETAICSEMTADRDPVYDESTDEESENQTDLSGLASAAVSKDDSIISS
   2 NKLLNAAQEREKDIKQEGETAICSEMTADRDPVYDESTDEESENQTDLSGLASAAVSKDDSIISS
   3 NKLLNAAQEREKDIKQEGETAICSEMTADRDPVYDESTDEESENQTDLSGLASAAVSKDDSIISS


             270       280       290       300       310       320     
              |         |         |         |         |         |     
   1 LDVTDIAPSRKRRQRMQRNLGTEPKMAPQENQLQEKENSRPDSSLPETSKKEHISAENMSLETLR
   2 LDVTDIAPSRKRRQRMQRNLGTEPKMAPQENQLQEKENSRPDSSLPETSKKEHISAENMSLETLR
   3 LDVTDIAPSRKRRQRMQRNLGTEPKMAPQENQLQEKE--KPDSSLPETSKKEHISAENMSLETLR


        330      
         |      
   1 NSSPEDLFDEI
   2 NSSPEDLFDEI
   3 NSSPEDLFDEI