Hello, I have a question: how can the DP or AD at a particular site be (much) greater than the coverage at that position in the reassembled bamout file? I see many examples of this, for example the coverage at a particular site in the bamout file is 2550, but the DP and the AD at that position (where a snp has been called) is > 4500?
I'm using gatk 184.108.40.206
Thank you very much.
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