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duplex RNA

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duplex RNA
#1

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

 

 

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Post Situation: 
Thu, 2021-08-05 06:34
amir_tagh

When using sequence/secstruct input, you should separate distinct strands with a comma; otherwise it will try to create a single-chain RNA.

Mon, 2021-08-16 10:43
everyday847