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[ Source: trf  ]

Package: trf (4.09.1-5 and others)

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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 trf

Download for all available architectures
Architecture Version Package Size Installed Size Files
alpha (unofficial port) 4.09.1-5 56.9 kB175.0 kB [list of files]
amd64 4.09.1-5+b1 57.0 kB168.0 kB [list of files]
arm64 4.09.1-5+b1 53.1 kB184.0 kB [list of files]
armel 4.09.1-5+b1 55.6 kB183.0 kB [list of files]
armhf 4.09.1-5+b1 53.1 kB183.0 kB [list of files]
hppa (unofficial port) 4.09.1-5 54.5 kB159.0 kB [list of files]
i386 4.09.1-5+b1 55.8 kB167.0 kB [list of files]
ia64 (unofficial port) 4.09.1-5 68.9 kB234.0 kB [list of files]
m68k (unofficial port) 4.09.1-5 51.6 kB158.0 kB [list of files]
mips64el 4.09.1-5+b1 55.4 kB188.0 kB [list of files]
mipsel 4.09.1-5+b1 54.8 kB187.0 kB [list of files]
ppc64 (unofficial port) 4.09.1-5 58.6 kB183.0 kB [list of files]
ppc64el 4.09.1-5+b1 58.3 kB248.0 kB [list of files]
riscv64 (unofficial port) 4.09.1-5 52.4 kB143.0 kB [list of files]
s390x 4.09.1-5+b1 53.9 kB164.0 kB [list of files]
sh4 (unofficial port) 4.09.1-5 59.9 kB150.0 kB [list of files]
sparc64 (unofficial port) 4.09.1-5 53.0 kB168.0 kB [list of files]
x32 (unofficial port) 4.09.1-5 54.6 kB154.0 kB [list of files]