add count of mismatches to mdtag
Merge pull request #329 from hammerlab/mdtag-counts

Add count of mismatches to mdtag
[ADAM-331] Moving code coverage analysis into a profile, so it is not packaged into artifacts.
Merge pull request #334 from fnothaft/fix-ccov

Moving code coverage into a profile
[ADAM-327] Adding Gene, Transcript, and Exon models