Fig. 1

Graphical representation of sequence reads obtained from BAsE-Seq, PacBio, and Pooled Deep sequencing. X-axis: Genome position. Y-axis: Relative coverage. Each dot represents coverage at a single base position. From left to right: Pooled deep sequencing short reads give uneven genomic coverage. BAsE-Seq reconstitutes single-virion sequences by mapping barcoded short reads to a reference, thus matching exact reference length but may have missing information spread throughout depending on local coverage as shown by dips in the coverage plot. PacBio circular consensus reads (CCSs) can vary in length, but will not necessarily require a reference for construction. A library of 3 kb amplicons will cover the entire genome evenly as shown. Dip in coverage around 1.5 kb is due to a deletion in the sample