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Table 4 T30-CA nucleotide (nt) and deduced amino acid (aa) identities compared with other CTV strains

From: Nucleotide heterogeneity at the terminal ends of the genomes of two California Citrus tristeza virus strains and their complete genome sequence analysis

  T30-CAa T30-AT4 T30-FL SY568 (CA) RB-AT25 (CA) VT-AT39 (CA)
Regionsb Number of nts Number of aa nt identity (%) aa identity (%) nt identity (%) aa identity (%) nt identity (%) aa identity (%) nt identity (%) aa identity (%) nt identity (%) aa identity (%)
Full genome 19,259   99.4   99.4   93.1   82.4   90.3  
5′ UTR 108   99.1   97.2   73.1   55.8   75.7  
p349 9348 3116 99.4 99.2 99.5 99.4 90.8 92.0 72.8 99.2 90.9 92.3
RdRp 1434 478 99.7 99.6 99.4 99.4 91.6 96.4 84.0 94.8 91.3 97.0
p33 912 304 99.0 98.4 99.3 99.0 99.7 99.7 94.0 93.1 85.9 87.1
p6 156 52 100.0 100.0 100.0 100.0 100.0 100.0 96.8 100.0 93.6 96.1
p65 (HSP70h) 1785 595 99.3 98.8 99.6 99.0 99.8 99.5 88.2 94.1 88.7 94.6
p61 1608 536 99.2 98.9 99.1 98.7 99.2 99.1 95.4 96.3 88.2 90.8
p27 (CPm) 723 241 99.2 99.2 99.6 99.2 92.7 97.9 97.7 97.5 89.5 96.3
p25 (CP) 672 224 99.6 99.6 99.7 99.6 93.5 96.4 93.0 96.4 93.2 96.4
p18 504 168 99.4 99.4 99.2 98.2 93.1 95.8 94.8 94.6 58.0 97.0
p13 360 120 99.7 99.2 99.7 100.0 90.8 90.8 91.4 89.9 91.4 95.0
p20 549 183 99.8 100.0 99.5 100.0 93.3 95.1 93.3 95.6 91.6 93.4
p23 630 210 99.1 98.6 98.4 96.7 90.0 91.4 93.2 94.3 91.1 92.3
3′ UTR 274   99.6   99.3   97.8   97.8   98.5  
  1. aA pairwise comparison was made between the genome sequence of T30-CA and those with the T30 genotype – T30-FL (a T30 genotype originating from Florida) and T30-AT4 (the only other California-based T30 genotype besides T30-CA to be completely sequenced), or each of the sequences representing other CTV strains from California (CA) as indicated
  2. bRegions in the CTV genome listed in the order of appearance from the 5′ to 3′ untranslated regions (UTR) s (as seen in Fig. 1)