Figure 2
From: Analysis of whole genome sequences of 16 strains of rubella virus from the United States, 1961–2009
Identity plots of nucleotide (A) and amino acid (B) sequences of 30 rubella viruses. The genes and putative domains are shown at the top of the panels. This includes: the methyltransferase (MT), hypervariable region (HVR), X-domain (X), the protease (Pro), helicase (Hel) and RNA-dependent RNA polymerase (RdRp) in NSP and the nucleocapid (C), membrane glycoprotein 2 (E2) and membrane glycoprotein 1 (E1) in SP. The nt analysis was done by counting the number of identical residues at the specific positions of all (green), clade 1 (blue) or clade 2 (red) viruses using Microsoft Office Excel. Comparisons were done using the consensus sequence from all 30 viruses or the clade-specific consensus sequences. Thus, any position at which each virus contains identical nt or aa residues will be 1. The nucleotide identity was plotted using a sliding 30-nt window; data are plotted as moving averages of the number of nucleotide changes. Each line in the amino acid identity plot represents the amount of amino acid identity at the indicated position.