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[ Source: last-align  ]

Package: last-align (885-1)

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genome-scale comparison of biological sequences

LAST is software for comparing and aligning sequences, typically DNA or protein sequences. LAST is similar to BLAST, but it copes better with very large amounts of sequence data. Here are two things LAST is good at:

 * Comparing large (e.g. mammalian) genomes.
 * Mapping lots of sequence tags onto a genome.

The main technical innovation is that LAST finds initial matches based on their multiplicity, instead of using a fixed size (e.g. BLAST uses 10-mers). This allows one to map tags to genomes without repeat-masking, without becoming overwhelmed by repetitive hits. To find these variable-sized matches, it uses a suffix array (inspired by Vmatch). To achieve high sensitivity, it uses a discontiguous suffix array, analogous to spaced seeds.

Tags: Biology: Nucleic Acids, Field: Biology, field::biology:bioinformatics, implemented-in::c++, Role: Program

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Download for all available architectures
Architecture Package Size Installed Size Files
alpha (unofficial port) 750.7 kB3,677.0 kB [list of files]
amd64 735.5 kB3,228.0 kB [list of files]
arm64 654.9 kB2,991.0 kB [list of files]
armel 596.9 kB2,968.0 kB [list of files]
armhf 592.6 kB2,248.0 kB [list of files]
hppa (unofficial port) 647.3 kB3,170.0 kB [list of files]
hurd-i386 679.4 kB3,364.0 kB [list of files]
i386 675.2 kB3,340.0 kB [list of files]
kfreebsd-amd64 734.7 kB3,232.0 kB [list of files]
kfreebsd-i386 675.5 kB3,340.0 kB [list of files]
m68k (unofficial port) 598.5 kB2,948.0 kB [list of files]
mips 632.2 kB3,661.0 kB [list of files]
mips64el 694.7 kB3,742.0 kB [list of files]
mipsel 640.4 kB3,669.0 kB [list of files]
powerpc 650.1 kB3,828.0 kB [list of files]
powerpcspe (unofficial port) 646.3 kB3,828.0 kB [list of files]
ppc64 (unofficial port) 716.7 kB3,964.0 kB [list of files]
ppc64el 710.4 kB3,836.0 kB [list of files]
s390x 667.2 kB3,448.0 kB [list of files]
sh4 (unofficial port) 747.6 kB3,127.0 kB [list of files]
sparc64 (unofficial port) 629.9 kB3,090.0 kB [list of files]
x32 (unofficial port) 657.1 kB3,120.0 kB [list of files]