Freiburg RNA Tools
MARNA - Structure Alignment
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MARNA

MARNA - Structure Alignment

Please note:
MARNA is not maintained anymore since 2005. For the task of multiple sequence-structure RNA alignment the more advanced tool LocARNA is superseding MARNA (check fixed structure input in LocARNA help page).

MARNA is a multiple alignment of RNAs taking into consideration both the primary sequence and the secondary structure. It is based on pairwise comparisons using costs of edit operations. The edit operations can be divided into edit operations on arcs and edit operations on bases. Additionally, MARNA predicts a consensus sequence as well as a consensus structure.

For articles describing the tool refer to the reference section below. Please cite us when using our tools.
For more information check the help page.

Try MARNA with this example: tRNA alignment (input|result) ?

General Parameters

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When using MARNA please cite :

Results are computed with MARNA version compiled at 2010-07-29 linking Vienna RNA package 1.8.4