If you look really close at rope light, you can usually see the internal wiring. Usually there are two heavier conductors with strings of 10 to 20 lights that connect between the two. If you cut between where one internal string ends and the next one starts, you are good to go....
If you cut in the middle of one of the strings, that internal string will no longer work, but the others will be unaffected. Wasting a few might actually be a good plan as there is very little space between where one ends and the next begins, and you do need to connect power to the end, so you will wan to strip the material back a little and use something to seal the end when the connection has been made.
RM