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:

- T0232 Atu5508, Agrobacterium tumefaciens
- gi|16119736|ref|NP_396442.1|_1:236 AGR_pAT_752p [Agrobacterium tumefaciens str. C58]
- gi|15162326|gb|AAK90883.1| AGR_pAT_752p [Agrobacterium tumefaciens str. C58]
- gi|17939090|ref|NP_535878.1|_1:232 hypothetical protein Atu5508 [Agrobacterium tumefaciens str. C58]
- gi|25521830|pir||AD3222 hypothetical protein Atu5508 [imported] - Agrobacterium tumefaciens (strain C58, Dupont) plasmid AT [Taxonomy]
- gi|17743967|gb|AAL46194.1| hypothetical protein [Agrobacterium tumefaciens str. C58]

              10        20        30        40        50        60     
              |         |         |         |         |         |     
   1 MEDGMNTFDLYYWPVPFRGQLIRGILAHCGCSWDEHDVDAIEGLMDCGAEKQPVAFMGPPVLIDR
   2 MEDGMNTFDLYYWPVPFRGQLIRGILAHCGCSWDEHDVDAIEGLMDCGAEKQPVAFMGPPVLIDR
   3 ----MNTFDLYYWPVPFRGQLIRGILAHCGCSWDEHDVDAIEGLMDCGAEKQPVAFMGPPVLIDR


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


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


        200       210       220       230      
         |         |         |         |      
   1 GLSRRVVATAPLAALNSKSFEEYGNAYCGGEIEKSLRKVAS
   2 GLSRRVVATAPLAALNSKSFEEYGNAYCGGEIEKSLRKVAS
   3 GLSRRVVATAPLAALNSKSFEEYGNAYCGGEIEKSLRKVAS