RNAfold to extract MFE of few long non-codings RNAs and used
relplot.pl to visualize the secondary structure. However, I am interested in knowing the regions/locations in base pairs corresponding to the low entropy regions. Is there a way to extract it?
From another biostar post I found a script to extract the features of RNA secondary structure from dotplot, but I don't know how to extract the stable regions corresponding to "low entropy".
Kindly help! Thank you.