Figure S2.

Plots of SARS-CoV-2 Genome Coverage against RT-PCR Ct Value and the Number of Mapped Reads for 104 Sequencing Runs Performed on 79 Clinical Samples, Related to Figure 2

Plots of SARS-CoV-2 genome coverage against RT-PCR Ct Value (A) and the number of mapped reads (B). Each sequence is colored by sequencing approach: blue = multiplex PCR nanopore sequencing, green = BGI metagenomic sequencing, orange = Illumina metagenomic sequencing. Open circles indicate sequences that were not reported here or used in phylogenetic analyses, either because of insufficient coverage, or because a higher-quality sequence existed for the same patient.