Supplementary Figure 12: The coverage and percentage of GC across the M13 genome.

(a–c) Coverage, smoothed by binning over a sliding 5-bp window, matching the k-mer length used in base calling. The GC content was calculated by binning over a 50-bp sliding window. Halving and doubling this window size did not drastically alter the result. (d–f) Coverage histograms across three M13 replicate experiments using R7.3 chemistry and aligned using expectation maximization–trained LAST realignments. About 2.1%, 2.0% and 2.6% of the M13 genome was underrepresented in template, complement and 2D reads, respectively.