Basically, when I play two notes at specific positions, it sounds off-tuned. Fine tuning will solve it for that positions only. I have tried intonation, change strings, tune again and again, removed any fret buzz but no help. Also, I have tightened all these nuts.

I am about to take it to guitar store, but though might get some help from UG community.
Last edited by prabin.tims at Jul 18, 2016,
Equal temperament means that intervals except for octaves are always a bit out of tune.
Current Gear:
LTD MH-400 with Gotoh GE1996T (EMG 85/60)
PRS SE Custom 24 (Suhr SSH+/SSV)
Ibanez RG3120 Prestige (Dimarzio Titans)
Squier Vintage Modified 70s Jazz V
Audient iD22 interface
Peavey Revalver 4, UAD Friedman BE100/DS40
Adam S3A monitors
Quote by Anonden
You CAN play anything with anything....but some guitars sound right for some things, and not for others. Single coils sound retarded for metal, though those who are apeshit about harpsichord probably beg to differ.
oneblackened Thanks for the reply and i agree with it. However, my guitar sounds the same when I play bar chords at certain positions. It sounds good in clean tone though.