Improved read parsing
Improved read parsing

- little speed up for reading BAM
- adapted logic to the one used in the matlab spladder (might be altered
  later) -- currently deletions are counted towards coverage ...

warrenmcg/spladder,warrenmcg/spladder,warrenmcg/spladder,warrenmcg/spladder,warrenmcg/spladder