ebanks 87e5a41964 Fixed a bug that accounted for a bunch of my remaining mis-cleaned indels. ... Also, slightly optimized the cleaner by using readBases (instead of readString) and caching cigar element lengths. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2419 348d0f76-0448-11de-a6fe-93d51630548a		2009-12-21 05:46:16 +00:00
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broadinstitute/sting	Fixed a bug that accounted for a bunch of my remaining mis-cleaned indels.	2009-12-21 05:46:16 +00:00