Thank you! However, I understand paired-end sequencing/reads and the reads mapped output, but I don't understand what the output for "reads mapped and paired" is. For example:
sequences: 669518
reads mapped: 568365
reads mapped and paired: 494728 # paired-end technology bit set + both mates mapped
reads paired: 669518
I understand that 568365 out of 669518 of my reads mapped, but what does the number from "reads mapped and paired" stem from?
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Pierre Lindenbaum
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molly77 •
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