After seeing the thread on http://www.talkbass.com/forum/f21/tuning-using-harmonics-1056824/ I wanted to ask the following question. Can someone please explain why intonation will vary sharp or flat up and down a fretboard assuming intonation is set correctly at the 12th fret? Are the frets in the wrong places? Neck twisted? Something else? I ask because I recently bought a Turbotuner to do my own setups. It has been going well overall on my three basses. On my MIM Precision, according to the tuner, the intonation is spot on or very close to spot on, up and down the fretboard on each string. On my Squier Jazz, according to the tuner, the intonation is all over the place, some frets are sharp, some are flat, up and down the fretboard on each string. Not by much, mind you (sounds in tune), but it is clearly not as consistent as the MIM Precision. Is this a possible neck or fret issue, example of a poor quality instrument or are my expectations simply too high? Thanks in advance.