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SINA (SILVA Incremental Aligner) is a web tool for multiple sequence alignment (MSA) specifically designed for the multiple alignment of ribosomal RNA genes (rRNA). SINA is also able to taxonomically classify the sequences.


Sequencing; RNA; Nucleic acid structure analysis; Taxonomy; Sequence analysis; Taxonomy


  • Operation: Sequence alignment analysis; Multiple sequence alignment; Taxonomic classification; Structure-based sequence alignment
  • Input: FASTA
  • Output: FASTA; ARB
  • Software interface: Web user interface
  • Language: C++
  • Operating system: Linux
  • License: Other
  • Cost: Free for non-commercial usage
  • Version name: 132
  • Maturity: Mature
  • Credit: The Max Planck Society (MPS).
  • Contact: contact _at_ | epruesse _at_
  • Collection: SINA


Pruesse E, Peplies J, Glockner FO "SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes." Bioinformatics. 2012 Jul 15;28(14):1823-9.
PMID: 22556368
PMCID: PMC3389763

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