Fig. 2

Insertion and deletion rates detected from mapping reads to reference genome. After reads mapped to reference genome, insertion and deletion rates were estimated. Insertion rates for trimmed and raw reads are shown in (a and b), respectively, and deletion rates are shown in (c and d), respectively. Trimmed reads from Group A always have slightly lower insertion and deletion rates than raw reads. However, the merged reads have significantly higher insertion and deletion rates particularly for these from large library (500 bp or 600 bp). For each group, we subsampled the reads 5 times and plot their standard deviation