For all pairs that bond the same way in both on and off modes, subtract one point for each pair that when flipped causes the secondary structure to change in either mode and two points if it causes the secondary structure to change in both modes. (This is a switch variant on an old idea; pardon me if I forget the proper attribution.)
Original Author: jandersonlee Original Link: https://getsatisfaction.com/eternagame/topics/-strategy-market-switch-shape-stable-against-mutation
For all pairs that bond the same way in both on and off modes, subtract one point for each pair that when flipped causes the secondary structure to change in either mode and two points if it causes the secondary structure to change in both modes. (This is a switch variant on an old idea; pardon me if I forget the proper attribution.)