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PrintReads -XL option behavior
When trying to remove reads for a .bam that cover intervals in a bed files most of the reads don't get removed with a -XL bed.file option.
Same behavior with a single interval on command line. Especially with a small interval.
Seems to remove reads only fully enclosed.
Is this an expected behavior? -L option takes all reads overlapping (not fully enclosed)
It makes this option much less useful in the PrintReads walker.