The difference in your screenshot is 0.28 percent for the 116 GB in the example you provide. You don't provide details so I'm going to make some assumptions.
Assumption: 1TB is the size of the SSD (vs. the size of a folder on the SSD) and the 1TB SSD is your system (boot) disk when the screenshots were taken. If these assumptions are true, then there will be files on a system disk not on a non-system disk. If you're doing some sort of cloning operation, unless you do a byte-by-byte exact copy (usually done when the disks are not active), most typically used cloning methods will avoid copying some files because these files only makes sense at the time the computer is being run on the computer it's being run on. You also have volumes in APFS that are not present on HFS+, most notably, space-wise, is the VM (virtual memory) volume which on my computers that have High Sierra on them, is 2GB, that may vary - I don't know the particulars of whether or not Apple varies the size of this volume based on SSD and RAM size. Even if you weren't using virtual memory at the time, in APFS, that space is reserved for the VM volume and thus will be seen as used by the OS by APFS. And there's the sleepimage file which likely isn't copied over and perhaps Time Machine local snapshots which may or may not be copied over.
To me, the 13GB size difference on a 1TB SSD isn't something to be worried about. But if you're interested in more details, enter "diskutil list" in the Terminal app and post them. Also check the size of the /private/var/vm/sleepimage files and post that (and see if it was copied to the HDD). If you use commercial software like CCC or SuperDuper, you can check with the vendors and see which files they don't copy over. Look up Time Machine local snapshots and if it's not important to you, delete them and see if that makes a difference. Even if Time Machine is disabled, there may be a local snapshot taking space.