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During the course of projects to sequence human and nematode cosmids we encountered great difficulties generating contiguous sequence in regions with repetitive DNA (Alu repeats in humans and tandem or inverted repeats in the nematode). We have developed a simple and efficient strategy to fill gaps. By screening M13, plasmid or phagemid libraries with oligonucleotides flanking the gap, clones are identified that contiguate the cosmid sequence. Our method has been integrated into the GAP4 sequence assembly program. The strategy reduces both time and costs in large scale sequencing projects.

Type

Journal article

Journal

DNA Seq

Publication Date

03/1998

Volume

8

Pages

241 - 245

Keywords

Animals, Cosmids, Gene Library, Genome, Humans, Nematoda, Oligodeoxyribonucleotides, Sequence Analysis, DNA, Software