[Biojava-l] RNA alignment

[Christian Köberle]

Hi,

1. is in bio-JAVA a implementation for local sequence alignment?
2. if yes, how can use this?
3. and how can i consider wobble-basepairs between the first 
RNA-sequence and the reverse complement of the second RNA-sequence?

thanks
Christian

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Christian Köberle

Max Planck Institut for Infection Biology
Department: Immunology
Schumannstr. 21/22
10117 Berlin

Tel: +49 30 28 460 562
e-mail: koeberle at mpiib-berlin.mpg.de