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MSA-PAD 2.0

MSA-PAD 2.0

A web-based tool for multiple sequence alignment (MSA) of DNA. The algorithm uses PFAM or profiles provided by a user. The web interface requires registration and login.

Topic

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

Details

  • Operation: Multiple sequence alignment
  • Input: FASTA
  • Output: -
  • Software interface: Web user interface
  • Language: -
  • Operating system: Linux; MAC OS X; Microsoft Windows
  • License: Not stated
  • Cost: Free
  • Version name: 2.0
  • Credit: The Italian nodes of Lifewatch and ELIXIR Research Infrastructure.
  • Contact: http://recasgateway.cloud.ba.infn.it/web/guest/contact-and-feedback
  • Collection: -

Publications

Balech B, Monaco A, Perniola M, Santamaria M, Donvito G, Vicario S, Maggi G, Pesole G "DNA Multiple Sequence Alignment Guided by Protein Domains: The MSA-PAD 2.0 Method." Methods Mol Biol. 2018;1746:173-180. https://doi.org/10.1007/978-1-4939-7683-6_13
PMID: 29492894


Balech B, Vicario S, Donvito G, Monaco A, Notarangelo P, Pesole G "SA-PAD: DNA multiple sequence alignment framework based on PFAM accessed domain information." Bioinformatics. 2015 Aug 1;31(15):2571-3. https://doi.org/10.1093/bioinformatics/btv141
PMID: 25819080


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