Sequence Alignment Software
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This list of sequence alignment software is a compilation of software tools and web portals used in pairwise
sequence alignment In bioinformatics, a sequence alignment is a way of arranging the sequences of DNA, RNA, or protein to identify regions of similarity that may be a consequence of functional, structural biology, structural, or evolutionary relationships between ...
and
multiple sequence alignment Multiple sequence alignment (MSA) is the process or the result of sequence alignment of three or more biological sequences, generally protein, DNA, or RNA. These alignments are used to infer evolutionary relationships via phylogenetic analysis an ...
. See
structural alignment software This list of structural comparison and alignment software is a compilation of software tools and web portals used in pairwise or multiple structural comparison and structural alignment. Structural comparison and alignment Key map: * Class: :* CĪ ...
for
structural alignment Structural alignment attempts to establish homology between two or more polymer structures based on their shape and three-dimensional conformation. This process is usually applied to protein tertiary structures but can also be used for large R ...
of proteins.


Database search only

*Sequence type: protein or nucleotide


Pairwise alignment

*Sequence type: protein or nucleotide **Alignment type: local or global


Multiple sequence alignment

*Sequence type: protein or nucleotide. **Alignment type: local or global


Genomics analysis

*Sequence type: protein or nucleotide


Motif finding

*Sequence type: protein or nucleotide


Benchmarking


Alignment viewers, editors

Please see List of alignment visualization software.


Short-read sequence alignment


See also

* List of open source bioinformatics software


References

{{Reflist Seq
Sequence In mathematics, a sequence is an enumerated collection of objects in which repetitions are allowed and order matters. Like a set, it contains members (also called ''elements'', or ''terms''). The number of elements (possibly infinite) is cal ...
Sequence alignment software