It is possible to specify cut and loop placement within the same color. Suppose you have a design as shown below with two colors:
Next, click on the primary color of your design. It will be shown as the active color.
Double click on this color. You will be shown a color picker dialog. Slightly change the RGB value and click on OK.
This will set new color with changed RGB value in the active color box. Drag this color to the used color list. Now, your used color list looks like the one below:
Both the colors look similar but with slight change in RGB value. Now, go to Visualization and set cut in one color and loop in the other. You will get the output as shown below: