Figure 2

Clustering patterns. 1381 subtype B UK sequences from NCBI were processed (A) through the Cluster Picker, with bootstrap support threshold fixed at 90% and maximum genetic distance threshold varied between 1.5% and 7.5%, (B) through the Cluster Picker with maximum genetic distance threshold fixed at 4.5% and bootstrap support threshold varied between 70% and 99%, and (C) through PhyloPart, with the t-percentile threshold varied between 1% and 30%. Distribution for varying bootstrap thresholds. For each threshold, we plotted the percentage of total sequences in clusters (grey line) and average cluster size (dashed line).