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Multiple sequence alignments may contain a variety of completely-specified characters. Here a completely-specified character is defined as a letter that has an unambiguous meaning (otherwise, the character is incompletely specified and will have several meanings, as described in the next sub-section).

Environment Modules

Run module spider alistat to find out what environment modules are available for this application.

System Variables

  • HPC_ALISTAT_DIR - installation directory
  • HPC_ALISTAT_BIN - executable directory
  • HPC_ALISTAT_DOC - documentation directory
  • HPC_ALISTAT_EXE - example directory


If you publish research that uses alistat you have to cite it as follows:

Wong TKF, Kalyaanamoorthy S, Meusemann K, Yeates DK, Misof B, Jermiin LS. 2020. A minimum reporting standard for multiple sequence alignments. NAR Genomics and Bioinformatics 2 (2), lqaa024.