Fig. 3

Quality values (QV) of the short-reads before (blue) and after (red) the alignment. The histogram contains the quality values on the horizontal axis and the proportion of short-reads in the vertical axis, displaying a large concentration of values around the average (approximately 23) and the majority (more than 90 %) of short-reads in the range 16–32. Short-reads with quality values in this range are considered to have excellent fidelity