Not assessing the efficiency of multiple sequence alignment programs
نویسندگان
چکیده
منابع مشابه
Multiple sequence alignment with the Clustal series of programs
The Clustal series of programs are widely used in molecular biology for the multiple alignment of both nucleic acid and protein sequences and for preparing phylogenetic trees. The popularity of the programs depends on a number of factors, including not only the accuracy of the results, but also the robustness, portability and user-friendliness of the programs. New features include NEXUS and FAS...
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Multiple sequence alignments have primary role in several domains of modern molecular biology such as protein 3D structure/function prediction, phylogeny inference, molecular function, intermolecular interactions and many other common tasks in sequence analysis. Presently, many tools to construct multiple sequence alignments are available but none of them is accurate for all types of data sets....
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Multiple alignments of biological nucleic acid sequences are one of the most commonly used techniques in sequence analysis. These techniques demand a big computational load. We present a Genetic Algorithms (GA) that optimizes an objective function that is a measure of alignment quality (distance). Each individual in the population represents (in an efficient way) some underlying operations on t...
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A comparison of 10 most popular Multiple Sequence Alignment (MSA) tools, namely, MUSCLE, MAFFT(L-INS-i), MAFFT (FFT-NS-2), T-Coffee, ProbCons, SATe, Clustal Omega, Kalign, Multalin, and Dialign-TX is presented. We also focused on the significance of some implementations embedded in algorithm of each tool. Based on 10 simulated trees of different number of taxa generated by R, 400 known alignmen...
متن کاملMultiple Sequence Alignment Multiple Sequence Alignment
An algorithm for progressive multiple alignment of sequences with insertions " , 1. Introduction The problem of sequence alignment is to find the patterns of sequence conservation and similarity between pairs or sets of given sequences. In biological contexts, similarity between biological sequences usually amounts to either functional or structural similarities or divergence from a common ance...
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ژورنال
عنوان ژورنال: Algorithms for Molecular Biology
سال: 2014
ISSN: 1748-7188
DOI: 10.1186/1748-7188-9-18