It shows quality information as well as plotting the positions of all the tag-types that are available. Change directory to the relevant project directory. If not, type in the correct ones. Note that only LEFT, RGHT, FINL, FINR are searched for on the consensus, as well as on a read by read basis. Once drawn, you can interact with the display.
Coloured lines drawn above each contig refer to finishing-tags and strand information.
When the plot appears it is in browse mode. This means that clicking within the display has no effect. Passing the mouse pointer over any drawn item in the display displays positional infomation about that region. Pressing the button changes the display to the ZoomIn mode. Pressing the button changes the display to the ZoomOut mode.