Added equal/not equal operators to CoverageRegion to make life easier
parse is now public function as it may be used later. It should not be called
every time you use RefStatus since right now it isn't even being used
Also adding some more example files
Can now easily merge regions for all SeqAlignments by reference
Better simple string representation of a Coverage Area
Apparently some contigs had no alignment information for them? Seems odd, so now handle that odd case