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Changes default scoring behavior to include all (5', BPS and 3') regions, instead of the previous default of just 5' and BPS. The 3' region typically contains less differentiation between U2- and U12-type introns, but may help reduce FP and FN classifier calls in edge cases. Of course, it's also possible that it could also introduce FPs and/or FNs, although in my experience using all three seems to be more conservative than not.