Yes, as was mentioned. in addition to that, you will NOT be perfectly intonated on all the frets - it just won't happen due to the nature and physics of a guitar, so don't expect it. But, within reason the guitar is able to be intonated so that (to the human ear) it sounds fine.
Normally, you want the open notes and the open chord selections (first three frets of the guitar) to be close as possible , even if it means "taking" some preciseness from another area of the guitar - say, the 15th fret. If you follow this logic throughout the guitar, where intonation would be deemed more critical, then you'll be fine.