Reverse complement alignment #2
Description
The following alignment of part of a genomic inversion has both a forward and reverse complement alignment segment. One alignment is black and one is red, so that's good, but both of the lines are oriented in the same orientation. I'd expected them to have opposite orientations. Here's the gist of the SAM file: https://gist.github.com/2ba903351e401de02ad1837553f3699d
