Figure 4. TFP-homoplasy identification compared to sites identified as under positive selection.

Sites are compared across different major lineages. ( A) Comparison of top 30 identified sites under multilevel selection by our tree-based clustering approach for the whole-period (including Omicron) for cluster threshold = 2% against the HyPhy analysis ²² , also presenting concordant results (intersection) between both methods. ( B) Bubble plot of TFP-homoplasy frequencies attributed to different major PANGO-lineages.