Computing Similarity Between RNA Structures

Software

This is a web-based gateway that allows you to remotely run our software on our server. To continue, simply fill in the requisite data below. Example input data for the software may be found here. This program computes the distance between two RNA structures; lower scores represent more similar RNA structures.

There are three sections to the data: first, the name of the RNA and the primary structure of the RNA (see the example data file for formatting), followed by the secondary structure of the RNA, followed by the tertiary structure of the RNA. Each section is seperated by the '>' character alone on a line.

The secondary and tertiary structures of the RNA are specified as follows:

( <stem number>)      <start base>    <end base>    <stem size>

Again, please see the sample data file for further detail.

Bugs

The input data must be well-formed or the program will core dump, and you'll get no output (this is a prototype version, we're still working on a more stable version of the program)