Appendix 1—table 14. Pairs of lineage-defining sites of Alpha VOC (subset I) tend to have stronger signal of concordant evolution than the complementary subset of site pairs (subset II).

Site pairs were ordered by nominal p-values; for each of the two subsets, mean rank of site pairs included into that subset is provided. The difference between mean ranks (delta) obtained for the data is compared to the difference obtained for 400 samples from the null-model where substitutions in each site are independently and randomly distributed on the tree branches (simulations). The probability that the difference of mean ranks for the data is greater than the difference of ranks for samples from the null-model is P{delta(simulations) ≤ delta(data)} <0.0025.

	mean ranks for subset I(15 site pairs)	mean ranks for subset II(17005 site pairs)	delta
data	234,7	8517,8	–8283,1
simulations	2182,4	8516,1	–6333,7

Number of lineage-defining sites: 6.

P{delta(simulations)≤delta(data)}<0.0025.