Do I have reason to be concerned???

That is very unfortunate, I could almost bet money it is bent. I have seen it happen before and you really can't get them straight again. If it is warped you might want to call Strange, Mark Williams or someone that makes axles and ask them. If you are .002 out at the axle flange you have to figure it at 14" out from center to see how much run-out you have.