Tandem Repeats over the edit distance

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A tandem repeat is a sequence of two or more approximate copies of a pattern. In DNA, tandem repeats are used for disease diagnosis, mapping studies, and human identity testing. DNA

This website provides access to the TRedD database and to software for locating tandem repeats within DNA sequences. Currently, the database contains all of the tandem repeats (over the edit distance) found in the genome of homo sapiens. Follow the View Database link above to begin viewing results. We have new software called TandemGraph to graphically depict the tandem repeats in each chromosome to facilitate analysis.

To run the TRed software on relatively small sequences (up to 2MB) you can follow the Run Program link above. For larger sequences, you may download the software. Parameters are set at default values, but may be changed accordingly. Follow the About link for a detailed description of Input/Output and of the theoretical algorithm.

The references will show you the publications that describe this work. Please cite the Bioinformatics paper if you use this software. If you need more info, feel free to follow the contact link and send email.

This work is supported in part by the National Science Foundation Grant DB&I 0542751.

Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation.

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