Fig 2: Quality Control for Efficient Conversion of Captured ssDNA to dsDNAGel view of captured DNA fragments after second strand synthesis, analyzed on an Agilent High Sensitivity D1000 ScreenTape. The lane labeled “Control” shows the faint signal arising from a sample of undigested yeast genomic DNA and the lane labeled “Treatment” shows the abundant material derived from a sample of yeast genomic DNA digested with a restriction enzyme. The low and high molecular weight marker bands are situated at 25 and 1500 bp, respectively. Note that the original ssDNA present in the sample is not well detected on this type of dsDNA-selective ScreenTape.

Fig 3: Estimating percentage of small, tagmented fragments after raw CUT&RUN (prior to amplification)A typical trace is shown using the Agilent High Sensitivity D1000 ScreenTape assay for Agilent Tapestation. Note that the yield of small fragments is below the limit of sensitivity to detect size distribution. Instead, we can quantify the large fragments.