As already pointed out, the instruction/template will tell you where to drill. Now, to answer your question about how close you can drill....the general rule is at least a diameters length to any edge or other hole. But again, instructions are going to tell you where to drill.
A couple tips on drilling that have worked well for me:
1. As mentioned, duct tape the template in position. I also use a little plumbers putty between the template and glass to help hold cooling water.
2. On the back side of the glass, apply duct tape as well. Using bar clamps, I now lightly clamp a piece of scrape wood to the back side, covering the tape. This is done to minimize chip out.
3. Drilling....slow drill speed; keep water in the template to keep bit and glass cool; no pressure on the drill....let the bit slowly grind the glass away. Depending on the thickness and size of the hole, takes between 10-20 minutes to drill. OK to take breaks when drilling....clean out the hole and check progress.
4. Especially when approaching the end, no pressure on the drill....you want to minimize chip out.I
5. Once you successfully drill your first hole, you're an expert.
HERE's a link to my most recent drilling.