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Package: mummer (3.22~dfsg-1 and others)

Efficient sequence alignment of full genomes

MUMmer is a system for rapidly aligning entire genomes, whether in complete or draft form. For example, MUMmer 3.0 can find all 20-basepair or longer exact matches between a pair of 5-megabase genomes in 13.7 seconds, using 78 MB of memory, on a 2.4 GHz Linux desktop computer. MUMmer can also align incomplete genomes; it handles the 100s or 1000s of contigs from a shotgun sequencing project with ease, and will align them to another set of contigs or a genome using the NUCmer program included with the system. If the species are too divergent for DNA sequence alignment to detect similarity, then the PROmer program can generate alignments based upon the six-frame translations of both input sequences.

Tags: Field: Biology, Bioinformatics, Implemented in: C++, User Interface: Command Line, Role: Program, Scope: Utility, Purpose: Comparing, Supports Format: Plain Text

Other Packages Related to mummer

  • depends
  • recommends
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  • dep: csh
    Shell with C-like syntax, standard login shell on BSD systems
  • dep: gawk
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  • dep: libc0.1 (>= 2.3) [kfreebsd-amd64, kfreebsd-i386]
    GNU C Library: Shared libraries
    also a virtual package provided by libc0.1-udeb
  • dep: libc6 (>= 2.10) [hppa]
    GNU C Library: Shared libraries
    also a virtual package provided by libc6-udeb
    dep: libc6 (>= 2.3) [amd64, i386, mips, mipsel]
    dep: libc6 (>= 2.4) [armel, powerpc]
    dep: libc6 (>= 2.5) [avr32]
    dep: libc6 (>= 2.5-5) [m68k]
    dep: libc6 (>= 2.6) [sparc]
    dep: libc6 (>= 2.7) [s390]
  • dep: libc6.1 (>= 2.3) [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, 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: 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]
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Download mummer

Download for all available architectures
Architecture Version Package Size Installed Size Files
alpha 3.22~dfsg-1 462.1 kB1396 kB [list of files]
amd64 3.22~dfsg-1 424.1 kB1224 kB [list of files]
armel 3.22~dfsg-1 399.9 kB1116 kB [list of files]
avr32 (unofficial port) 3.22~dfsg-1 416.7 kB1020 kB [list of files]
hppa 3.22~dfsg-1 468.6 kB1244 kB [list of files]
i386 3.22~dfsg-1 401.5 kB1120 kB [list of files]
ia64 3.22~dfsg-1 611.4 kB2000 kB [list of files]
kfreebsd-amd64 3.22~dfsg-1 425.7 kB1122 kB [list of files]
kfreebsd-i386 3.22~dfsg-1 400.9 kB1014 kB [list of files]
m68k (unofficial port) 3.20-3 352.3 kB1048 kB [list of files]
mips 3.22~dfsg-1 442.9 kB1396 kB [list of files]
mipsel 3.22~dfsg-1 441.7 kB1396 kB [list of files]
powerpc 3.22~dfsg-1 452.5 kB1252 kB [list of files]
s390 3.22~dfsg-1 411.6 kB1148 kB [list of files]
sparc 3.22~dfsg-1 411.7 kB1176 kB [list of files]