THE THREE LINES AND COLOR CODES:
The "Red" Line is the main line. This is the line with two 2% grade (using Woodland Scenics grade risers); one goes up...the other brings it 'down'. I colored the actual grade sections in a sort of 'orange/peach' color. The elevated portion of the main line is in 'pink', while the bottom level is 'red'. The idea was to change the colors as the elevation rose. The below photo shows the Relay Tsubame on one of the two 'main line' tracks that makes sort of a siding on the bottom level as the main line comes down the grade. The elevated section of this same line is the track closest to the camera on the bridge in the background.
The "Blue Line" is the 'suburban' line. This line is on the higher level. Its just a basic 'dog-bonish' loop that runs inside the main line on the elevated section of the layout. Unfortunately, some of the double track sections are in red when they should be blue (see above). The three cool features on this line are an extra long siding (part of an abandoned plan that would have included another inside loop!);
The "Green Line" is sort of the 'country' line. It runs on the 'ground' level, and spends most of its time meandering under bridges....
GREY AREASThe 'grey areas' are yards or industrial sidings.
While most of the yards and track are Kato Unitrack, there is a small industrial spur that comes off the blue line on the elevated section. This is mostly Minitrix track and switches.