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align multiple sequences

align multiple sequences - Bioinformatics

align multiple sequences - Have questions about bioinformatic tools or databases? Post questions here. Discuss and post interesting bioinformatics information.


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  #1  
Old 01-26-2009, 01:52 AM
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Default align multiple sequences



Hi,
can anyone recommend a tool for aligning multiple sequences?
Thank you.
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  #2  
Old 01-26-2009, 02:01 AM
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Default Re: align multiple sequences

Quote:
Originally Posted by naddel View Post
Hi,
can anyone recommend a tool for aligning multiple sequences?
Thank you.
Clustal X available at [Only registered users see links. ]
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Old 01-26-2009, 07:47 AM
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Default Re: align multiple sequences

CLUSTALW, T-COFFEE ...etc. there are many.
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Old 01-26-2009, 11:36 AM
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Default Re: align multiple sequences

Thank you very much.
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Old 02-02-2009, 09:51 AM
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Default Re: align multiple sequences

I do really like the speed and quality of MUSCLE algorithm
Some programs provide visual interface for this package.
For example: UGENE , (ugene.unipro.ru) - it's free
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Old 02-04-2009, 08:16 AM
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Default Re: align multiple sequences

Please........ this is basic step in bioinformatics .

You follow the link here..
[Only registered users see links. ]
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Old 06-11-2009, 12:33 PM
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Default Re: align multiple sequences

ClustalX, DAlign, TCOFFEE
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Old 06-12-2009, 01:15 AM
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Default Re: align multiple sequences

I think clustalW works well. It is easily available after you type it in google search and all you need to do is to paste everything in fasta format and you can align nucleotide or amino acid sequences.
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Old 06-23-2009, 09:08 AM
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Default Re: align multiple sequences

Hi Naddel...
A multiple sequence alignment (MSA) is a sequence alignment
Sequence alignment.In bioinformatics, a sequence alignment is a way of arranging the sequences of DNA, RNA, or protein to identify regions of similarity that may be a consequence of functional, structural biology, or evolutionary relationships between the sequences....of three or more biological sequences, generally protein
Protein
Proteins are organic compounds made of amino acids arranged in a linear chain and joined together by peptide bonds between the carboxyl and amino groups of adjacent amino acid Residue ...., DNA

DNA

Deoxyribonucleic acid is a nucleic acid that contains the genetics instructions used in the development and functioning of all known living organisms and some viruses....or RNA

RNA

Ribonucleic acid is a type of molecule that consists of a long chain of nucleotide units. Each nucleotide consists of a nucleobase, a ribose sugar, and a phosphate....
. In general, the input set of query sequences are assumed to have an evolution

Evolution

In biology, evolution is change in the heritability trait of a population of organisms from one generation to the next. These changes are caused by a combination of three main processes: variation, reproduction, and selection....
ary relationship by which they share a lineage and are descended from a common ancestor. From the resulting MSA, sequence homology

Homology (biology)

In evolutionary biology, homology refers to any similarity between characteristics that is due to their common descent. The word homologous derives from the ancient Greek ??????e??, 'to agree'....
can be inferred and phylogenetic analysis..
Molecular phylogeny

Molecular phylogenetics, also known as molecular systematics, is the use of the structure of molecules to gain information on an organism's evolutionary relationships....
can be conducted to assess the sequences' shared evolutionary origins. Visual depictions of the alignment as in the image at right illustrate mutation

Mutation

In biology, mutations are changes to the nucleotide sequence of the genetic material of an organism. Mutations can be caused by copying errors in the genetic material during cell division, by exposure to ultraviolet or ionizing radiation, chemical mutagens, or virus , or can be induced by the organism, itself, by cellular processes such as s...
events such as point mutations (single amino acid
Amino acid

In chemistry, an amino acid is a molecule containing both amine and carboxyl functional groups. These molecules are particularly important in biochemistry, where this term refers to alpha-amino acids with the general formula H2NCHRCOOH, where R is an organic substituent....or nucleotide

Nucleotide

Nucleotides are molecules that comprise the structural units of RNA and DNA. Additionally, nucleotides play central roles in metabolism. In that capacity, they serve as sources of chemical energy , participate in cell signaling , and are incorporated into important cofactors of enzymatic reactions ....
changes)...
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