Align and print steam-loop

Question

[sacha]

Hi,

Do you know which tool to use to generate and print stem-loop from from a short sequence ?

For instance, using the following mir sequence:

>hsa-mir-7106 MI0022957
GCUUCUGGGAGGAGGGGAUCUUGGGAGUGAUCCCAACAGCUGAGCUCCCUGAAUCCCUGUCCCAG

I would like to print the following alignement

   gcuu      gga      cuu      gauccc 
5'     cuggga   ggggau   gggagu      a
       ||||||   ||||||   ||||||      a
3'     gacccu   ucccua   cccucg      c
   ----      --g      agu      agucga

Answer 1

[Pierre Lindenbaum]

RNA fold ? http://rna.tbi.univie.ac.at/cgi-bin/RNAWebSuite/RNAfold.cgi

[sacha]

That's perfect ! Thanks for the quick answer