Package: wnpp Severity: wishlist Subject: ITP: trf -- locate and display tandem repeats in DNA sequences Package: wnpp Owner: Andreas Tille <ti...@debian.org> Severity: wishlist
* Package name : trf Version : 4.09.1 Upstream Author : Gary Benson <gben...@bu.edu>, * URL : https://tandem.bu.edu/trf/trf.html * License : AGPL-3+ Programming Lang: C Description : locate and display tandem repeats in DNA sequences A tandem repeat in DNA is two or more adjacent, approximate copies of a pattern of nucleotides. Tandem Repeats Finder is a program to locate and display tandem repeats in DNA sequences. In order to use the program, the user submits a sequence in FASTA format. There is no need to specify the pattern, the size of the pattern or any other parameter. The output consists of two files: a repeat table file and an alignment file. The repeat table, viewable in a web browser, contains information about each repeat, including its location, size, number of copies and nucleotide content. Clicking on the location indices for one of the table entries opens a second browser page that shows an alignment of 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 pattern size in the range from 1 to 2000 bases are detected. Remark: This package is maintained by Debian Med Packaging Team at https://salsa.debian.org/med-team/trf