We are transition to mmCIF files

We are upgrading our site to include new RNA 3D structures distributed in mmCIF format. This may cause some alignments to fail. If this happens, please download the standalone version. Follow us on Twitter to hear when the updated version becomes available.

First Structure

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Second Structure

or upload a file
Iteration 1
Discrepancy (d)
Neighborhoods (p)
Alignment bandwidth (β)
Iteration 2
Discrepancy
Neighborhoods
Alignment bandwidth
Iteration 3
Discrepancy
Neighborhoods
Alignment bandwidth

Choose among 3 sets of parameters that usually work well for large, medium, and small structures. More