I left PAM sites out of the blog post (it's actually mentioned briefly in the footnotes), as it made the problem slightly more complicated.
The final algorithm actually keeps track of the last 20 bases + PAM length, and checks both the edit distance and PAM before deciding if something is a match. The Benchling CRISPR tool will do this for you :)
The final algorithm actually keeps track of the last 20 bases + PAM length, and checks both the edit distance and PAM before deciding if something is a match. The Benchling CRISPR tool will do this for you :)