The default plots made by the bioanalyzer are, in my opinion, not amazing. For one, the lines are really thin. Furthermore, it would be nice to draw two traces is the same plot, to compare different samples.
The problem When performing qPCR you typically have three technical replicates of every sample. The Cq values within replicates are expected to be very close to each other. However, sometimes outliers occur thru for example, inaccurate pipetting, accidentally pipetting in the wrong well or seal detachment.