4SALE - A tool for Synchronous RNA Sequence and Secondary Structure Alignment and Editing

Philipp N. Seibel, Jörg Schultz, Tobias Müller, Thomas Dandekar & Matthias Wolf

Department of Bioinformatics, Biocenter, University of Würzburg, Germany

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Structure Inspector
4SALE Palettes

### Structure Inspector

Toolbar
| cut alignment. This button allows cutting the alignment by current consensus structure information. The resulting sequence alingment contains only collumns that are part of a binding in the consensus structure. This allows to calculate phylogenetic trees on highly structural conserved parts of the alignment for example.
| conservation chooser. Use the slider to choose the conservation percentage the consensus structure is calculated on.
Structure Tree
| sequence. Click on this item to open/collapse the structural information.
| non helical regions. Click on this item to mark non helical regions.
| helical region. Click on this item to mark the helical region.
| sidearm. Click on this item to mark the sidearm.