[Strategy market] GC-pairs in junctions

I would like to ad a strategy that says that there have to be a GC-pair in each junction (That is between a tetreloop and an arm, a multiloop and an arm, the neck and the multiloop, the neck and the hook.)

For each place there is no GC-pair in a junction, subtract one point.

Dear Eli,

Your strategy has been added to our implementation queue with task id 12. You can check the schedule of the implementation here.

ETA of the implementation is 6/10/2011

Thanks for sharing your idea!

EteRNA team

Dear Eli,

We are glad to report that your strategy has been implemented and tested.

Length : Your strategy was implmented with 30 line of code.

Ordering : We ran your strategy on all synthesized designs and ordered them based on predicted scores. The correlation of your strategy’s ordering with the ordering based on the actual scores was 0.203. (1.0 is the best score, -1.0 is the worst score. A completely random prediction would have 0 correlation)

Please note that the numbers specified above will change in future as we’ll rerun your algorithm whenever new synthesis data is available.

More detailed result has been posted on the strategy market page. Thank you for sharing your idea, and we look forward to other brilliant strategies from you!

Jee, I really like this. The highest scoring designs - those above 90%, have the lowest errorrate when it comes to my stategy. Which supports what we already knew, that to make a winning design, there have to be GC-pairs in the junctions. Designs like the finger, as a possible exception.