You can clone partitions, not just whole disks.
CG's point that UID is also cloned (and therefore wrong), means that you'll need to repair the boot on the cloned copy. That's a different issue to the partition lettering.
I shuffled all my OSs around when I bought a new HDD, using Paragon Drive Copy 9.0 to move the partitions to new places (and sizes). All worked fine once the BCD(s) had been repaired after the move.
I'd be surprised if Acronis couldn't copy individual partitions, but if not, there are plenty of free apps out there which will.