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[ Source: trf  ]

Package: trf (4.09.1-6)

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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.

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Download for all available architectures
Architecture Package Size Installed Size Files
amd64 56.9 kB167.0 kB [list of files]
arm64 52.9 kB183.0 kB [list of files]
armel 55.4 kB182.0 kB [list of files]
armhf 53.0 kB182.0 kB [list of files]
i386 55.7 kB166.0 kB [list of files]
mips64el 55.3 kB187.0 kB [list of files]
mipsel 54.7 kB186.0 kB [list of files]
ppc64el 58.0 kB183.0 kB [list of files]
s390x 53.8 kB163.0 kB [list of files]