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  • Inconsistent fragment sizes qiaxcel vs bioanalyzer

    Hi all, I have been using the same extraction and library prep protocols for some time now, and fragment sizes have always been nice and consistent (~165-180bp). But twice in a row now, I have had something weird happen- inconsistent fragment readings by the Qiaxcel (which we use in the lab, and I use for calculation molarities for pooling) vs the Bioanalyzer (which the sequencing facility uses). See attached the two files that are of the same pool. I am a bit lost as to why this is happening, and what device to trust. Has anyone ever seen this before? Any idea why this might be happening?

    I don't know if this is of any help, but I couldn't help but notice that it has started happening since I started working on different sample types. Normally I work with ancient bone and teeth samples, but these inconsistencies happened with ancient poo samples and historic bone and cartilage samples (so samples are less old than I usually work with).

    Meriam
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