How this works

Each selection is tallied one sequence per species: the top rRNA hit in its representative genome. Positions are matched by the number you type, translated into each side's own alignment, so an archaeal clade lines up with a bacterial one through E. coli or H. marismortui numbering.

Divergence is the Jensen–Shannon divergence between the two sides' A/U/G/C/deletion distributions at each position: 0 means identical, 1 means no state in common. A conserved difference is a position where each side is at least 90% one state (adjustable under Advanced settings) and the two states differ.