To repeat myself, as I always do, every time we have this discussion.
Contaminating the genetics with her own defeats the point of duplicating the X-Chromosome in the first place, which was to ensure all the genetics all came from wolverine.
They were carefully reconstructing the genetic code to that on file, rebuilding from it's most basic level; they were not just plugging the gaps with genes from "donor banks"; even if she did use her own material, she would have broken it down to it's base components before hand, or again, it defeats the point.
Now I can contrive multiple scenario's of how her genetics might have been contaminated, but all would amount to me making up my own story.