Tandem duplications in Illumina's paired end data

asked 2017-05-16 07:56:40 -0600

updated 2017-05-16 11:05:13 -0600

Hi, I have 2 files on display at a single exon (paired-end pile-ups). One sample has a dup (probably tandem) while the other is control. I cannot recognize any difference in stacking patterns or read orientations. Are there any clues in the pile-up view that may indicate a presence of a short tandem dup (besides comparing depth)? Thanks!

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