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. 2021 Mar 12;19(3):e3001115. doi: 10.1371/journal.pbio.3001115

Fig 4.

Fig 4

(A) 3kb sliding window plot of RDA across the whole-genome alignment of Wuhan-Hu-1 (turquoise) and RmYN02 (magenta). Shaded regions depict the Spike ORF region in the alignment. The dashed line indicates the inferred RmYN02 Spike recombination breakpoint, splitting the shaded region into non-nCoV (yellow) and nCoV (grey). (B) SDUc values calculated for each frame position of the 2 RmYN02 Spike nonrecombinant regions and the corresponding Wuhan-Hu-1 regions. The absolute differences between SDUc values of SARS-CoV-2 and RmYN02 for each frame position are significantly greater in the non-nCoV than in the nCoV region (t2.07 = 3.03, p = 0.0450; unpaired one-tailed t test with unequal variance). The list of GenBank and GISAID accessions for the Sarbecovirus sequences used are provided in S4 Table. nCoV, new coronavirus; ORF, open reading frame; RDA, relative dinucleotide abundance; SARS-CoV-2, Severe Acute Respiratory Syndrome Coronavirus 2; SDUc, corrected synonymous dinucleotide Usage.