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[ Source: last-align  ]

Package: last-align (830-1 and others)

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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 last-align

Download for all available architectures
Architecture Version Package Size Installed Size Files
alpha (unofficial port) 830-1 743.6 kB3,651.0 kB [list of files]
amd64 830-1 708.1 kB3,186.0 kB [list of files]
arm64 830-1 650.1 kB2,866.0 kB [list of files]
armel 830-1 588.7 kB2,942.0 kB [list of files]
armhf 830-1 586.0 kB2,218.0 kB [list of files]
hppa (unofficial port) 830-1 650.0 kB3,210.0 kB [list of files]
hurd-i386 830-1 668.0 kB3,322.0 kB [list of files]
i386 830-1 666.6 kB3,294.0 kB [list of files]
kfreebsd-amd64 830-1 705.7 kB3,182.0 kB [list of files]
kfreebsd-i386 830-1 666.5 kB3,294.0 kB [list of files]
m68k (unofficial port) 830-1 589.9 kB2,906.0 kB [list of files]
mips 830-1 624.1 kB3,620.0 kB [list of files]
mips64el 830-1 700.2 kB3,682.0 kB [list of files]
mipsel 830-1 632.5 kB3,620.0 kB [list of files]
powerpc 830-1 622.2 kB3,482.0 kB [list of files]
powerpcspe (unofficial port) 830-1 639.3 kB3,482.0 kB [list of files]
ppc64 (unofficial port) 830-1 692.0 kB3,810.0 kB [list of files]
ppc64el 830-1 688.9 kB3,682.0 kB [list of files]
s390x 830-1 674.6 kB3,406.0 kB [list of files]
sh4 (unofficial port) 746-1 727.5 kB1,845.0 kB [list of files]
sparc64 (unofficial port) 830-1 644.6 kB3,112.0 kB [list of files]
x32 (unofficial port) 830-1 638.3 kB3,066.0 kB [list of files]