Frzzman,
The image you linked to is only the spectrum analyzer in AA. It shows the difference in amplitude at various frequencies between the left and right channels.
From memory, the blue is the right channel and the red is the left channel.
Even your PCM file will show discrepencies, because that's what stereo is all about... different information in the left and right channels.
What you
could do in AA is do a null test between the PCM and the encoded file, but all you'll hear is some low level facsimile of the original, which will sound like it's been filtered to buggery!
Personally, I don't know what it is you're trying to prove (whether to yourself or to someone else), but it sure seems like a helluva lot of work for no discernible return!