design: Viral sequencing was performed following a tiling amplicon strategy using the ~ 2 kb primer scheme by Resende et al., 2020. All sequencing was performed using Oxford Nanopore sequencing platforms using R9.4.1 flow cells. Libraries were prepared via the ligation sequencing kit (SQK-LSK109) and multiplexed using barcode expansion kits (NBD104,114). All data was de-hosted using nanostripper and re-basecelled with Guppy 4.0.11