If the muzzle velocity is the same as the reticle is programmed, and the bullet has the same BC as the reticle is programmed, it will line up. If not, it won't. Most BC type reticles (or turrets) will be close enough out to about 300 yards. At 400 yards and out, is where you will begging to see a noticeable difference.
I have had customers spend thousands of dollars on high end rifle, high end scope, my top notch custom ammo, and then put a BDC turret on their scope programmed in a certain environmental condition. One guy dialed to 5 on his BDC turret for 500 yards, and shot a 1.5" group at 500 yards with his high end 6.5x284. But the group was 11" low. He called me all mad, so I said let's calculate it. I ran the drop numbers for how his turret was programmed, and then ran the numbers on the EXACT shooting conditions he was shooting in. I calculated 10.2" difference!! So, the weak link in his "system" is the BDC turrets on his scope. System meaning rifle, ammo, shooter, and scope.