RNA ONTOLOGY QUESTIONS

- Is there a repository with RNAML files for common secondary 
structure representations? I mean, instead of having to reorganize
that chaos which comes out of direct analysis with, rnaview/paradise/s2s?

- How do Ribosomal structures differ in sequence and in 3D structure?
If one looks at the thermus themophilus and compares with haloharcula,
they have clear 3D differences. 

- There are a good amount of RNA Base-Pairs which are not classified
succesfully into L-W Classifications when using rnaview. Why is this
happening? Has anyone remediated this problem? Why does this problem
occur, does it have to do with some base-pairs just not fitting into
the L-W "Rules"

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