Before reading trigonometry I guessed that if a line is pointing to north then it has 0 degrees and increases clockwise. But now I see right angle has 90 degree though that is in the same position as north?
Is it because angles for navigation are different than the angles we read in trigonometry? or I have to understand in a different way?
Yes. Different structures. Trig/Unit Circle starts with zero at "East" and increases in a counterclockwise direction. Bearings and directions use vertical-up as zero degrees.