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Nucleic Acids Research, 1978, Vol. 5, No. 11 4105-4128
© 1978

Articles

A computer assisted method for the determination of restriction enzyme recognition sites

T.R. Gingeras, J.P. Milazzo* and R.J. Roberts

Cold Spring Harbor Laboratory Cold Spring Habor, NY 11724 *Computing Center, State University of New York Stony Brook, NY 11794, USA

Received August 7, 1978. A computer program has been developed which aids in the determination of restriction enzyme recognition sequences. This is achieved by cleaving DNAs of known sequence with a restriction endonuclease and comparing the fragmentation pattern with a computer-generated set of patterns. The feasibility of this approach has been tested using fragmentation patterns of øX174 DNA produced by enzymes of both known and unknown specificity. Recognition sequences are predicted for two restriction endonucleases (BbvI and SfaNI) using this method. In addition, recognition sequences are predicted for two other new enzymes (PvuI and MstI) using another computer-assisted method.


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