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© Oxford University Press

Nucleotide sequence statistical analysis of pauses in RNA elongation by Escherichia coli RNA polymerase

Viya B. Fedoseyeva , S. A. Otenko 1 and A. A. Alexandrov

Institute of Molecular Genetics Kurchatov Square 46, Moscow 123182, Russia
1Computer Centre, Russian Academy of Science Kurchatov Square 46, Moscow 123182, Russia

A convenient motif-searching program has been developed, based on a double correlation algorithm, for analysis of the pulse character of Escherichia coli transcription. Activity in the zone of minimal pause formation (– 1,2 bp) is precisely determined. Oligonucleotides (di-, tri- and tetranucleotides) are randomized by their pause-generating activity. ‘CATG’ and ‘CATGC’ are detected which coincide with the primary structure of RNA associated with distinictive delays in biologically meaningful situations.

Received on September 16, 1992; accepted on May 31, 1993

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