BWA - Are reads mapped to only one location, even with a mapq=0
Silly question - With BWA are reads mapped to only one location even if they have a mapq=0 and can equally align to multiple locations? If the reads are mapping to only one of the possible locations, how does BWA choose one location over another?
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M •
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You have an answer here: How Does Bwa Report Multi-Mapped Reads
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