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We show that the problem of designing RNA sequences
that can fold into multiple stable secondary structures
can be transformed into a combinatorial optimization problem
that can be solved by means of simple heuristics. Hence
it is feasible to design RNA switches with prescribed structural
alternatives. We discuss the theoretical background and
present an efficient tool that allows the design of various
types of switches. We argue that both the general properties
of the sequence structure map of RNA secondary structures
and the ease with which our design tool finds bistable
RNAs strongly indicates that RNA switches are easily accessible
in evolution. Thus conformational switches are yet another
function for which RNA can be employed.
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