New Zealand Journal of Botany abstracts

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Designer algorithms for cryptogene searches

MICHAEL S. WATERMAN

Departments of Mathematics and Biological
Sciences
University of Southern California
Los Angeles, California 90089-1113, U.S.A.

ARNDT VON HAESELER

Lehrstuhl f. allgemein Biologie
Institut f. Zoologie
Universitaet Muenchen
Luisenstr. 14
W-8000 Muenchen 2, Germany

Abstract RNA editing in the mitochondria of kinetoplastid protozoa describes the insertion and (or) deletion of precise numbers of uridines at precise locations in the transcribed RNA. Such genes are known as cryptogenes. We describe dynamic programming algorithms to search for unknown cryptogenes and for the sequences that template the editing, gRNAs. Results of applying the cryptogene- gRNA algorithm to known cryptogene sequences from Leishmania tarentolae are presented.

Keywords algorithm; dynamic programming; RNA editing; cryptogene

B93008 ; Received 19 January 1993; accepted 2 June 1993
New Zealand Journal of Botany, 1993, Vol. 31: 269-27'4
0028-825X/93/3103-0269 $2.50/0 © The Royal Society of New Zealand 1993

PDF file of entire paper: medium quality (347K); (scanned from paper original: notes about this process)

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