Using the efn2 Server

  1. Select a CT structure for analysis.

    A CT file can be uploaded using the "Select CT File" control.

  2. Select the nucleic acid type.

    By default, the server assumes analysis is of RNA. DNA can be specified by clicking the "DNA" button.

  3. Change default data, if desired.

    The All Suboptimal Structures server allows specification of a temperature. This value has a default, so it is not necessary to specify the value in order to do calculations.

  4. Add optional data, if desired.

    The efn2 server allows a thermodynamic details file to be written by checking the "Write Thermodynamic Details File" box, if desired. By default, simple tabular output is written if this box isn't checked.

  5. Enter an email address where results can be sent, if desired.

    If an email address is specified in the appropriate box, an email will be sent to inform you when calculations are done. Note that failing to enter an email address may cause results to be inaccessible, if you navigate away from the server while calculations are running.

  6. Begin the calculation.

    Press the "Submit Query" button to begin the calculation. If you remain on the server page, the results will appear when they are finished.

For detailed explanations of the efn2 algorithm and its parameters, please click here.