I believe Supermicro calls the chassis/motherboard revision the "K" revision that has the weird offset. They started around the X8 series but it was a mixed set.
Look at the chassis specs for the "K" revisions requirement. If it's not stated, then it should be fine as the "K" requirement means there's no place to put the standoff in the odd-location. (non-"K" only is good, "K" only means only newer motherboards)
Also, look at your motherboard for the "K" revision requirement as well. Most newer boards (X9 and up) are all K if I recall anyways. X8 series were the mixed series IIRC.
Honestly, it's been 5+ years since I dealt with the Ks. My brain could be fried.