If it was quick release you can align it slightly with the skewer and get it straight. A win for QR? You can try centering the wheel with one hand while tightening the thru axle, may have the similar affect, but I have never tried with TA.
I don't think it would affect the ride, especially on the rear, but it would bug me enough to dish it. Have the rear wheels been checked for proper dish?
You can measure the space with calipers, both on the seat stay and chain stay. Measure to the rim, not tire.