Fig. 3

Assembly quality on an in-silico mixture of 2550 HIV-1 genomes on three datasets with an average coverage of each genome of \(1 \times\), \(10 \times\), and \(100 \times\). A Distribution of pairwise sequence identities among the 2550 HIV-1 genomes. B Average assembled genome fraction, number of misassemblies per contig, and duplication ratio. C Distribution of the fractions of each of the 2550 genomes covered by the assemblies. D Distribution of the NGA50 values. The NGA50 value of a genome assembly is the length for which contigs of that size and longer cover 50% of the genome. The larger the NGA50 value is, the less fragmented is the assembly