Seat height and short legs
When I was shopping around for a bike a few years ago, I stopped at the local HD shop. Since I'm 5'6" and am quite comfy in 29" inseam pants, I asked the very young salesman if there was some sort of "rule of thumb" about bike size and/or seat height for those of us who are vertically challenged. He was very close to my same size and simply said, "If you can throw your leg over it, you can ride it." I thought him a bit of a smarta$$ and went on to buy an 1100RS. Well, I can throw my leg over it, but I definitely can't flat-foot it. Initially it was a bit uncomfortable, but after riding it for a while, it feels totally natural. So, my suggestion is to simply put some miles on that bike. I'm betting it'll get more normal as you roll up the miles.