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MultiAlign specifications


Unique identifier OMICS_14943
Name MultiAlign
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Can read ICR2LS and Decon2LS files
Operating system Windows
Programming languages C#, C++
License Apache License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes


No version available


  • person_outline Richard Smith <>

Publication for MultiAlign

MultiAlign citations


Differential Selective Pressures Experienced by the Aurora Kinase Gene Family

PMCID: 5796022
PMID: 29283376
DOI: 10.3390/ijms19010072

[…] muscle to prevent the introduction of frame-shifts due to the incorrect placement of gaps during alignments []. our sequences were aligned using a progressive multiple sequence alignment method, multialign function, implemented in the bioinformatics toolbox in matlab 7.11 (r2010b) with default values (mathworks, natick, ma, usa) []. secondly, the aligned sequences were used as a guide […]


Sequence analysis of the N acetyltransferase 2 gene (NAT2) among Jordanian volunteers

PMCID: 5717714
PMID: 29173142
DOI: 10.1080/19932820.2017.1408381

[…] the dye terminator method []. the chromatograms of the dna sequences were visualized using dna based v3.5.4 software (heracle biosoft, romania). the alignment of dna sequences was determined using multialign software []. the nat2 amino acid sequence of the different species was obtained from genbank databases []., the linkage disequilibrium (ld) analysis, estimation of haplotype diversity, […]


Lactococcus Lactis Strain A5 Producing Nisin like Bacteriocin Active against Gram Positive and Negative Bacteria

PMCID: 5584827
PMID: 28890764
DOI: 10.21315/tlsr2017.28.2.8

[…] and analysed using a gel imager (alpha imager). the 16s rdna sequencing was carried out at a sequencing agency (first base laboratories sdn. bhd., malaysia). the sequences were analysed using multialign tool software. the basic local alignment search tool nucleotide (blastn) search tool was available online at national centre for biotechnology information (ncbi) and accessible […]


Association of rheumatic fever and rheumatic heart disease with plausible early and late stage disease markers

PMCID: 5674546
PMID: 29067978
DOI: 10.4103/ijmr.IJMR_1554_14

[…] usa) following manufacturer's instructions. finally, the sequencing was carried out in 3130×l genetic analyzer of applied biosystems. the sequence of the amplified product was analyzed using multialign software (, statistical analysis: data were expressed as mean±standard deviation along with median and interquartile ranges (iq re) wherever […]


From chromatogram to analyte to metabolite. How to pick horses for courses from the massive web resources for mass spectral plant metabolomics

PMCID: 5499862
PMID: 28520864
DOI: 10.1093/gigascience/gix037

[…] algorithms, statistical significance tests, unsupervised clustering, and time course analysis, all in a modular and interactive design presented with a wizard to facilitate the analysis workflow. multialign [] is a software developed in the .net platform using c++ and c# that was originally for proteomics but that can also be used for metabolomics comparative analysis. its functionalities […]


An Insight Into Structure, Function, and Expression Analysis of 3 Hydroxy 3 Methylglutaryl CoA Reductase of Cymbopogon winterianus

PMCID: 5390926
PMID: 28469419
DOI: 10.1177/1177932217701735

[…] with a resolution of 2.05 a, due to high precision, was selected as the best template for comparative modelling. the pairwise sequence alignment of citronella hmgr and template was generated using multialign, and the alignment generated was displayed in espript 2.2 ()., based on the target-template alignment, discovery studio v3.5 generated 5 models of hmgr. of these, the model with the lowest […]

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MultiAlign institution(s)
Pacific Northwest National Laboratory, Richland, WA, USA
MultiAlign funding source(s)
This work was supported by the Laboratory Directed Research and Development program as part of the Microbial Communities Initiative at the Pacific Northwest National Laboratory (PNNL).

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