Send any questions or comments to:
Gary Benson
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Updates:
October 20, 2022:
TRF website has been redesigned and modernized using python and flask software.
June 28, 2020:
TRF software is now open source. Code and executable versions are available on Github. See tabs above.
Feb 22, 2016 update:
TRF Version 4.09 released. This version fixes issues with centromeres in HG38. See a full list of changes on the What's New tab.
A tandem repeat in DNA is two or more adjacent, approximate copies of apattern of nucleotides. Tandem Repeats Finder is a program to locate anddisplay tandem repeats in DNA sequences. In order to use the program,the user submits a sequence inFASTA format. There is no need tospecify the pattern, the size of the pattern or any other parameter. The output consists of two files: a repeat table file and analignment file. The repeat table containsinformation about each repeat, including its location, size, number ofcopies and nucleotide content. Clicking on the location indices for oneof the table entries opens a second web browser that shows an alignmentof the copies against a consensus pattern. The program is very fast,analyzing sequences on the order of .5Mb in just a few seconds.Submitted sequences may be of arbitrary length. Repeats with patternsize in the range from 1 to 2000 bases are detected. Sequence informationsent to the server is confidential and deleted after program execution.Example of output.
This material is based upon work supported by the National ScienceFoundation under Grant No. CCR-9623532
| Last revised October 20, 2022 Send any questions or comments to: Gary Benson |