Sir?
Anyway, if you rack a couple of times (like to secondary and to the bottling bucket), it's not uncommon to lose some volume. I don't typically use a secondary, but there is often a couple of inches of trub in the bottom of the fermenter after I rack so I realize I lose some volume.
What I would do is mark your primary with a 5 gallon mark. Then just make sure you start with 5 gallons, if that's the "batch size" of your recipe. I make up my own recipes, so I usually start with 5.25-5.5 gallons in the fermenter to end up with a 5 finished gallon batch. I have my fermenter marked at those levels.
Overall, don't worry about it, though. If you end up with 4.25 gallons of good beer instead of 5 gallons, it's not a big deal.