I have read that Supermicro E-ATX motherboards are not standard and holes dont line-up on the cases. Is there any non-supermicro tower chassis which will take E-ATX board (X10DRi-T) without drilling any holes in the chassis?
IIRC, the issue exists with SuperMicro EE-ATX, not E-ATX, motherboards.
Actually, and also IIRC, the issue is that SuperMicro actually follows the standard correctly. Some E-ATX cases happen to have enough room to accept the larger motherboard but do not have EE-ATX hole spacing available.
If you are talking about E-ATX, ATX or smaller SM motherboards then most enthusiast cases should work. EE-ATX and proprietary sizes and YMMV.
Check out the Phanteks Enthoo Pro. I use it with a server board (SSI EEB) but it also has the mounting holes for E-ATX which is the same size board. Between those two standards supported, it should have the right mounting holes.
Most comments here make it sound like most E-ATX cases would support Supermicro E-ATX 12"x13" motherboards or that Supermicro E-ATX motherboards would follow the E-ATX standard, and that's just not the case. Here is a list of all Supermicro E-ATX compatible cases I've come across so far:
Phanteks Enthoo Pro
Phanteks Enthoo Luxe
Phanteks Enthoo 719
Phanteks Enthoo Elite
Some(!) Chenbro SR107 cases also support Supermicro E-ATX motherboards