The explorer does not show the matches played but the number of positions!
From the position after 1. e4 c5 2 c3 Nf6 only 2 played d4
BUT
the position after playing d4 was also reached from many other starting moves, like after this move order
1. d4 Nf6 2. c3 c5 3. e4
I was looking at the opening explorer in a Daily game :-
You can see here I played 1. e4 c5 2 c3 Nf6
At this point the opening explorer only shows 2 games continuing 3.d4 , but when I made the move 3.d4 the opening explorer then looks like this:-
Where did all the extra games come from? Why were they not shown one step before?