I know exactly what you mean. Often, when you zoom in on an approach shot, it appears as thought your target line is off to the side, when you're actually looking straight at it. The best thing to do is ignore that sideways target line, and make your adjustments based on the minimap. When you click your little target arrow, your target line will appear on the minimap in the bottom right corner of the screen, and that will give you reference to your actual target line.
Hope this helps
-Dylan