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Forum: Bioinformatics 09-13-2013, 11:50 AM
Replies: 6
Views: 11,326
Posted By lh3
Hard to say. It uses seed-and-extend. As long as...

Hard to say. It uses seed-and-extend. As long as mismatches/gaps do not reduce the alignment score, they are allowed. When aligning fosmids, bwa-mem may allow thousands of mismatches and gaps.
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