For some reason some of my libraries (but not all) that I prepared for ATAC-seq display small fragment peaks (50-70bp) on a Bioanalyzer trace. Im wondering if these are likely primers but the kit I used to purify my DNA after PCR should have eliminated these contaminants. I also prepared the libraries in parallel so I'm not sure why I observe this signal in some samples but not others. If this is observed is it recommended that I go through with sequencing? For what it's worth this is a pilot experiment and (as far as we know) ATACseq hasn't been done in this organism before. Would appreciate any insight, thanks!
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