SINA Alignment Service

SILVA Incremental Aligner (SINA) Summary

SINA (v1.2.11) will align and optionally taxonomically classify your rRNA gene sequences. The results can be combined with any other sequences aligned by SINA or taken from the SILVA databases by concatenation of FASTA files or using the ARB MERGE tool.

Search and Classify

Enabling "Search and classify" will classify your sequences with the least common ancestor (LCA) method based on the different taxonomies hosted by SILVA.

Find and download related sequences (nearest neighbors)

Activating "Search and Classify" will also return a set of sequences that have a certain identity with your submitted sequence in the SSU/LSU datasets. These sequenced can be added to the Cart and downloaded.


Opens internal link in current windowSINA Tutorial


Submission is currently limited to at most 1000 sequences of at most 6000 bases each. If your requirements exceed this limitation, get Opens internal link in current windowSINA for local installation.


Pruesse, E., Peplies, J. and Glöckner, F.O. (2012) SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. Opens external link in new windowBioinformatics, 28, 1823-1829

Copyright/License Information

Users from non-academic/commercial environments should have a look at the SILVA Terms of Use/License Information