Figure 1.

Overview of general diversity of SARS-CoV-2. From outer to inner layers: Annotation of SARS-CoV-2 genome (gray), PCR primer designs (dark red), transcription-regulating sequences (TRS) (orange), intra-host variant density including iSNVs (blue), deletions start sites (red), duplication start sites (yellow), and inversion start sites (green) along the entire genome. For SNPs + iSNVs + SVs, we plotted the density scaled by their allele frequency across the population over 100-bp windows.