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DIALIGN-TX is the latest version of the DIALIGN multiple sequence alignment (MSA) tool. The main algorithmic addition is the usage of a guide tree.


Phylogeny; Sequence analysis; Nucleic acid sites, features and motifs; Nucleic acid structure analysis; Sequence sites, features and motifs


  • Operation: Multiple alignment; Alignment; Sequence alignment; Multiple sequence alignment
  • Input: FASTA
  • Output: DIALIGN; FASTA
  • Software interface: Web user interface; command-line user interface
  • Language: C
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: GNU Lesser General Public License v2
  • Cost: Free
  • Version name: 1.0.2
  • Maturity: Mature
  • Credit: -
  • Contact: subraman _at_
  • Collection: DIALIGN


Subramanian AR, Kaufmann M, Morgenstern B "DIALIGN-TX: greedy and progressive approaches for segment-based multiple sequence alignment" Algorithms Mol Biol. 2008 May 27;3:6. doi: 10.1186/1748-7188-3-6.
PMID: 18505568
PMCID: PMC2430965

Subramanian AR, Weyer-Menkhoff J, Kaufmann M, Morgenstern B "DIALIGN-T: an improved algorithm for segment-based multiple sequence alignment." BMC Bioinformatics. 2005 Mar 22;6:66.
PMID: 15784139
PMCID: PMC1087830

Morgenstern B, Dress A, Werner T "Multiple DNA and protein sequence alignment based on segment-to-segment comparison." Proc Natl Acad Sci U S A. 1996 Oct 29;93(22):12098-103.
PMID: 8901539

Morgenstern B, Frech K, Dress A, Werner T "DIALIGN: finding local similarities by multiple sequence alignment." Bioinformatics. 1998;14(3):290-4.
PMID: 9614273

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