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A multiple protein sequence alignment tool that is based on probabilistic models, employing a column-oriented and selective consistency in aligment refinement instead of commonly used strategies of increased alignment quality. The Authors claim Quick-Probs 2 to be "noticeably" better than ClustalΩ and MAFFT.


Sequence analysis; Proteins; Gene and protein families


  • Operation: Multiple sequence alignment
  • Software interface: Command-line user interface
  • Language: C++;Perl;C
  • Operating system: Linux; Microsoft Windows
  • License: Other
  • Cost: Free for personal, academic, and reserach purposes.
  • Version name: 2.0
  • Credit: -
  • Contact: adam.gudys _at_
  • Collection: -


Gudyś A, Deorowicz S "QuickProbs 2: Towards rapid construction of high-quality alignments of large protein families." Sci Rep. 2017 Jan 31;7:41553.
PMID: 28139687
PMCID: PMC5282490

Gudyś A, Deorowicz S "QuickProbs--a fast multiple sequence alignment algorithm designed for graphics processors." PLoS One. 2014 Feb 25;9(2):e88901.
PMID: 24586435
PMCID: PMC3934876

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