The reads simluted with wgsim

Question

[934963534]

I am using wgsim to simulate reads from reference genome and I have a question. Is is always that the first output .fq file contians reads that has the same orientation as reference and the second contains the reverse complement orientation?

Answer 1

[Istvan Albert]

The forward and reverse complemented orientations are relative to the simulated DNA fragment - this DNA fragment may have originated from the forward or the reverse strand.

[934963534]

So the first file may have the original orientation and the reverse orientation?