Your chart confirms what I told you. As Bob H noted, your chart shows the bullet at 1.5" low max (at the Muzzle)
Since you are using that software, adjust you r zero range to 225 or 250, and see the resulting tragectory. You'll be much happier with it. Sight in for 3" high at 100, and you'll be good to go. No hold over or under from 0 to 250 yds.