A comparative analysis of multiple sequence alignments for biological data

Umar Manzoor*, Sarosh Shahid, Bassam Zafar

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review


Multiple sequence alignment plays a key role in the computational analysis of biological data. Different programs are developed to analyze the sequence similarity. This paper highlights the algorithmic techniques of the most popular multiple sequence alignment programs. These programs are then evaluated on the basis of execution time and scalability. The overall performance of these programs is assessed to highlight their strengths and weaknesses with reference to their algorithmic techniques. In terms of overall alignment quality, T-Coffee and Mafft attain the highest average scores, whereas K-align has the minimum computation time.

Original languageEnglish
Pages (from-to)S1781-S1789
Number of pages9
JournalBio-Medical Materials and Engineering
Issue numberS1
Publication statusPublished - 21 Aug 2015

Bibliographical note

© 2015. This article is published with Open Access and distributed under the terms of the Creative Commons Attribution and Non-Commercial License (CC BY-NC).


  • clustalW
  • k-align
  • mafft
  • Multiple sequence alignment
  • muscle
  • progressive alignment
  • t-coffee


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