Abstract
We extend the standard `Sequence Logo' method of Schneider and
Stevens to incorporate prior frequencies on the bases, allow for
gaps in the alignments, and indicate the mutual information of
base-paired regions in RNA. Given an alignment of RNA sequences
with the base pairings indicated, the program will calculate the
information at each position, including the mutual information of
the base pairs, and display the results in a `Structure Logo'.
Alignments without base pairing can also be displayed in a
`Sequence Logo', but still allowing gaps and incorporating prior
frequencies if desired. The code is available from, and an
Internet server can be used to run the program at,
http://www.cbs.dtu.dk/gorodkin/appl/slogo.html
| Original language | English |
|---|---|
| Journal | Computer Applications in the Biosciences |
| Volume | 13 |
| Issue number | 6 |
| Pages (from-to) | 583-586 |
| ISSN | 0266-7061 |
| Publication status | Published - 1997 |