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Nucleic Acids Research, 2002, Vol. 30, No. 21 e118
© 2002 Oxford University Press

BACFinder: genomic localisation of large insert genomic clones based on restriction fingerprinting

Mark L. Crowe, Debashis Rana, Fiona Fraser, Ian Bancroft and Martin Trick*

John Innes Centre, Norwich Research Park, Colney, Norwich NR4 7UH, UK

*To whom correspondence should be addressed: Tel: +44 1603 450557; Fax: +44 1603 450045; Email: martin.trick{at}bbsrc.ac.uk

We have developed software that allows the prediction of the genomic location of a bacterial artificial chromosome (BAC) clone, or other large genomic clone, based on a simple restriction digest of the BAC. The mapping is performed by comparing the experimentally derived restriction digest of the BAC DNA with a virtual restriction digest of the whole genome sequence. Our trials indicate that this program identified the genomic regions represented by BAC clones with a degree of accuracy comparable to that of end-sequencing, but at considerably less cost. Although the program has been developed principally for use with Arabidopsis BACs, it should align large insert genomic clones to any fully sequenced genome.


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