Hey Biostars, I'm asking for your expertise: I am handling 90x WGS data (with PCR) and I observe many different reads starting exactly at the same positions in the genome. Interestingly, the reads show different variants. Can these variants be true (=biological duplicates) or is to assume that they are false positives (=technical duplicates)?
In other words: how likely is the same start and end position of reads from different cells? Is it common? Seems unlikely to me.
Any opinions on this will be appreciated!! Thanks!