i) \) is the empirical probability of that pattern.
To account for the fact that modkit <a href="./filtering_numeric_details.html">filters</a> base modification calls when they are below a certain confidence level, filtered positions are given a "wildcard" assignment and can match any epiallele at that position.
The entropy calculation implementation in <code>modkit</code> will assign a fractional count to each pattern that the read matches.
For example, suppose a read with epiallele <code>m*mm</code> meani