Now tolerating up to 3 mismatches when mapping to other type of RNAs

Signed-off-by: CharlesJB <Charles.Joly-Beauparlant@crchul.ulaval.ca>
Added new scripts to generate figures for the paper

Signed-off-by: CharlesJB <Charles.Joly-Beauparlant@crchul.ulaval.ca>