I am working with screening of miRNA where in I have the precursor sequences extracted in a single multifasta file. Now i need to check the secondary structure folding of these sequences. I read that mfold was one of the most used. However, mfold does not take multifasta sequence file. So then i did what was suggested here in this http://unafold.rna.albany.edu/?q=node/138
But now I have 4000 .ct files of individual structures and i need to visualize structures of all these. I cannot possibly load these individually one by one. Is there an alternate way of doing this??