PSL library was counting blocks, not bases. Added a target_identity method that is more useful for noisy alignments such as those produced by PacBio or ONT.
PSL library was counting blocks, not bases. Added a target_identity method that is more useful for noisy alignments such as those produced by PacBio or ONT.

ucsc-mus-strain-cactus/Comparative-Annotation-Toolkit,ComparativeGenomicsToolkit/Comparative-Annotation-Toolkit,ComparativeGenomicsToolkit/Comparative-Annotation-Toolkit