All right, I'll go first. If the explanation isn't clear, I'll try to get some pics.
First the dunny: The waste pipe sticks up from the floor maybe 50mm or less. (Depends on the predicted finished floor height.) The pipe is topped by a ring which is metal and has keyholed bolt slots on the left and right side. These are to accept the toilet bolts which will secure the toilet to the floor.
Now the toilet: typical arrangement but on the bottom side there is a ceramic hole with a lip (which will insert into the pipe in the floor). This lip is an integral part of the fired toilet, not a mechanical connector. On the left and right sides of the toilet are bolt holes which will align with the bolt holes in the metal ring atop the waste pipe. All clear so far?
Now, to fit the toilet, one puts a wax ring (about 25 mm thick and the same diameter as the metal ring) onto the metal ring. The wax ring may have a small rubber lip extending down into the waste pipe to insure a proper fit, but not always. The toilet bolts are inserted through the bolt holes in the metal ring and extend upward (usually you use the wax to hold them in place). The toilet is lowered onto the wax ring, with the toilet bolts extending upward through the bolt holes on the sides of the toilet. The toilet is pushed downward to spread the wax around the waste pipe opening and create a tight seal.
Nuts are run on the toilet bolts and snugged to hold the toilet firmly to the floor. The bolts are then cut off nearly flush with the nut and capped by a ceramic or plastic bolt cap to hide them. A bead of silicone is generally put around the outside at the bottom to keep water from running under the toilet. We often leave a small gap in the silicone at the back so that any water leak from the toilet will become visible as water flowing out from under the toilet.
The toilet is not "set" into anything, just sits on the floor. Can be on wood, tile, vinyl, etc. No mortar bed or silicone bed or anything like that. The bolts hold it snugly to the floor so there is no need for a bed of any sort. :)
Hope this made sense. If not, I can get pics I'm sure. (But not of mine. I won't pull up the toilet just to assuage curiosity. :D :rolleyes: )