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Package: last-align (199-1)

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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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Architecture Package Size Installed Size Files
amd64 444.5 kB919.0 kB [list of files]
armel 435.8 kB848.0 kB [list of files]
armhf 400.7 kB680.0 kB [list of files]
i386 443.0 kB900.0 kB [list of files]
ia64 612.5 kB1,620.0 kB [list of files]
kfreebsd-amd64 442.2 kB881.0 kB [list of files]
kfreebsd-i386 439.8 kB861.0 kB [list of files]
mips 443.0 kB934.0 kB [list of files]
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powerpc 464.5 kB912.0 kB [list of files]
s390 444.5 kB888.0 kB [list of files]
s390x 464.1 kB979.0 kB [list of files]
sparc 435.5 kB883.0 kB [list of files]