Hairpin loops structure analysis sofware/server?

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Petra Disterer

I do not know what a "hairpin loop index" is. However, you may find the DNA folding option of mfold useful in determining structure and thermodynamics:

http://unafold.rna.albany.edu/?q=mfold/DNA-Folding-Form

Carlos Pendon

Thank you Petra

Fedor Kouzine

Hi Carlos,

For our purpose we have used Inverted Repeats Finder (IRF, version 3.05).

Article Inverted Repeat Structure of the Human Genome: The X-Chromos...

Thank you Fedor.