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Package: last-align (87-1 and others)

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 11-mers). This allows 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.

Other Packages Related to last-align

  • depends
  • recommends
  • suggests
  • dep: libc0.1 (>= 2.3) [kfreebsd-amd64, kfreebsd-i386]
    GNU C Library: Shared libraries
    also a virtual package provided by libc0.1-udeb
  • dep: libc0.3 (>= 2.10) [hurd-i386]
    GNU C Library: Shared libraries
    also a virtual package provided by libc0.3-udeb
  • dep: libc6 (>= 2.1.3) [i386]
    GNU C Library: Shared libraries
    also a virtual package provided by libc6-udeb
    dep: libc6 (>= 2.10) [hppa]
    dep: libc6 (>= 2.2) [mips, mipsel]
    dep: libc6 (>= 2.2.5) [amd64]
    dep: libc6 (>= 2.4) [armel, powerpc, s390]
    dep: libc6 (>= 2.5) [avr32]
    dep: libc6 (>= 2.5-5) [m68k]
    dep: libc6 (>= 2.6) [sparc]
  • dep: libc6.1 (>= 2.2) [ia64]
    GNU C Library: Shared libraries
    also a virtual package provided by libc6.1-udeb
    dep: libc6.1 (>= 2.4) [alpha]
  • dep: libgcc1 (>= 1:4.1.1) [not armel, avr32, hppa, hurd-i386, kfreebsd-amd64, kfreebsd-i386, m68k]
    GCC support library
    dep: libgcc1 (>= 1:4.2.1) [avr32]
    dep: libgcc1 (>= 1:4.4) [kfreebsd-amd64, kfreebsd-i386]
    dep: libgcc1 (>= 1:4.4.0) [armel]
    dep: libgcc1 (>= 4.2.1) [hurd-i386]
  • dep: libgcc2 (>= 4.2.1) [m68k]
    Package not available
  • dep: libgcc4 (>= 4.1.1) [hppa]
    GCC support library
  • dep: libstdc++6 (>= 4.2.1) [not armel, kfreebsd-amd64, kfreebsd-i386]
    The GNU Standard C++ Library v3
    dep: libstdc++6 (>= 4.4) [kfreebsd-amd64, kfreebsd-i386]
    dep: libstdc++6 (>= 4.4.0) [armel]
  • dep: libunwind7 [ia64]
    A library to determine the call-chain of a program - runtime
  • rec: python
    An interactive high-level object-oriented language (default version)
  • rec: python-imaging [not m68k]
    Python Imaging Library

Download last-align

Download for all available architectures
Architecture Version Package Size Installed Size Files
alpha 87-1 268.0 kB736 kB [list of files]
amd64 87-1 246.7 kB644 kB [list of files]
armel 87-1 241.9 kB616 kB [list of files]
avr32 (unofficial port) 87-1 248.8 kB572 kB [list of files]
hppa 87-1 274.3 kB680 kB [list of files]
hurd-i386 87-1 238.5 kB620 kB [list of files]
i386 87-1 238.7 kB620 kB [list of files]
ia64 87-1 325.3 kB980 kB [list of files]
kfreebsd-amd64 87-1 246.8 kB548 kB [list of files]
kfreebsd-i386 87-1 238.4 kB526 kB [list of files]
m68k (unofficial port) 58-1 198.7 kB508 kB [list of files]
mips 87-1 259.1 kB768 kB [list of files]
mipsel 87-1 259.3 kB768 kB [list of files]
powerpc 87-1 257.1 kB668 kB [list of files]
s390 87-1 245.4 kB632 kB [list of files]
sparc 87-1 250.0 kB656 kB [list of files]