Hello, I am analyzing human gDNA sample in which fragmentation enhancer was used at 1X ratio. Read length is 2X151, dual index 10bp. I trimmed adapters and ran bwa mem alignment on this sample. The mean insert size was ~130 bp. However, when I talked to the lab scientist, I was told based on the tapestation fragment trace was ~800 bp and after removing adapters it should be around 600bp.

I did whatever I could to the best of my knowledge to see what caused this discrepancy, from not trimming data and ran alignment to remove reads with mapq<30, results didn't change. I cannot figure out what caused this significant difference. Any help will be appreciated.

Thanks