Hello,
I am using FARFAR to get the possible structures for a A-bulge RNA duplex with the following specifications:
Input sequence: CCGGCAGUGUG+CACACGUCGG
Input secstruct (((((.(((((+))))))))))
I need to keep the structure in the duplex form and not the hairpin. All output files I got with the mentioned specifications are RNA hairpins. Is there a way I can keep the structure in the duplex form.
thanks for yoyr help.
Best,
Amir
Category:
Post Situation:
When using sequence/secstruct input, you should separate distinct strands with a comma; otherwise it will try to create a single-chain RNA.