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2 hours ago by

hello. first, sorry for that I'm not good at this field.
I aligned reads to reference, and now I'm finding each read's start location from start codon to draw ribosome footprint figure.
My question is

  1. how to treat FLAG 16.
    I understand that they aligned to reverse strand, so they expressed in reverse complement forms in sam files.
    so if i have read1 that POS:25 and FLAG:16, is it correct to point read1 in 25 location from start codon in ribosome footpring? Just treat like other flag0 reads?

  2. why we have reverse strand sequence in reads?

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dwc066310



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