So I am following the intonation lesson on the site and I am wondering why my intonation is so far out. I haven't finished the intonation yet but so far I've had to move the 6th, 5th and 4th string's intonation almost all the way back. On the lesson he doesn't move the saddles very far at all. Am I doing it right?

I've also noticed that it depends alot on how hard you press down when you play the note at the 12th fret. If I hold the string down lightly it's flatter than when I hold it down hard. How hard should I be pressing down when playing the 12th fret to see if the intonation is set correctly?