Comparison of the amino acid sequences of CHIKV LS3 and various natural isolates.

The CHIKV LS3 amino acid sequences were aligned with those of several highly similar natural isolates, and clinical isolate NL10/152. Only amino acid differences are indicated and identity is represented by dots. The numbering is based on the sequence of LS3, which is also equal to that of LR2006_OPY1. It is important to note that - like all other CHIKV strains in this table - clinical isolate LR2006-OPY1 (Genbank DQ443544) also contains an opal stop codon in the 3′-end of the nsP3 coding region, while its infectious clone with Genbank accession number EU224268 lacks this stop codon.