Music Composers Unite!
I do not think I am even working in a scale. I am really treading on the unknown. Everything works differently. Chords are turning from Major to minor and to diminished chords just by mere conversions. The chords may not even be a major or minor chord; and perhaps, the relationship between my chords just create the illusion of major/minor chords from "neutral" chords. I think what I'm doing is like optical illusion but in music, everything just seems so uncertain and like illusions.
I tried that website before but I'm looking for something that can compose a music file; and preferably, can generate a midi file.
I think you want an arpeggiator - there are available in many plugins as for pitches a lot of samplers such as Kontakt allow you to change pitches you might need a sequencer to host these things (maybe one with a score editor) check out KVR
not sure i know of a specific program to help you, but your quest seems fascinating! would love to hear what you can come up with