They use both, but they're retooled to have extra 5mm ports.
There are also some Takara-exclusive molds, like Breakdown, Jet Vehicon, and Gaia Unicron.
You're thinking too much, bro, just calm down and don't sweat it so much.
There's nothing confusing about it, I assure you.
Also, refer to the wiki if you want a fast and efficient answer, it's there for a reeason (to help!). http://tfwiki.net/