Pattern locator: a new tool for finding local sequence patterns in genomic DNA sequences.
We present a new tool for finding local sequence patterns in long DNA sequences. The program, Pattern Locator, uses an intuitive syntax for pattern description, and provides more flexibility than existing programs by allowing combinations of specific nucleotide sequences, direct and inverted repeats, variable length tandem repeats of subpatterns, and a specified number of errors in any part of the pattern.


BACKGROUND
The program is available for download and as a web service accessible through a CGI interface at http://www.cmbl.uga.edu/software.html. The source code is written in C and distributed under the GNU General Public License.
Mrázek
Jan
J
Department of Microbiology and Institute of Bioinformatics, University of Georgia, Athens, GA 30602, USA. mrazek@uga.edu
Xie
Shaohua
S
D000465:Algorithms; D001185:Artificial Intelligence; D001483:Base Sequence; D002874:Chromosome Mapping / Q000379:methods*; D004247:DNA / Q000737:chemistry / Q000235:genetics*; D008969:Molecular Sequence Data; D010363:Pattern Recognition, Automated / Q000379:methods*; D016415:Sequence Alignment / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*; D012689:Sequence Homology, Nucleic Acid; D012984:Software; D020080:Tandem Repeat Sequences / Q000235:genetics*
D004247:DNA