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Consensus sequences

Consensus sequence

Of a series of related dna, rna or protein sequences, the sequence that reflects the most common choice of base or amino acid at each position. Areas of particularly good agreement often represent conserved functional domains. The generation of consensus sequences has been subjected to intensive mathematical analysis.


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Consensus sequence in Bioedit via CLUSTALW

Hello, I am aligning about 100 sequences in order to identify some primer targets for a long range PCR. I used the ... sequence with degerate codes allowed. I can not find any option to get such a consensus sequence in the aligned areas. Please let me know if this is possible and ...

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by vl80
Wed Oct 31, 2012 2:55 am
 
Forum: Bioinformatics
Topic: Consensus sequence in Bioedit via CLUSTALW
Replies: 1
Views: 2886

what is the difference between promoter and enhancer

... sites necessary for transcription to happen. They usually have sequences called consensus sequence like TATA box in eukaryote or prinbow box in prokaryotes, which initiates ...

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by genetherapy
Wed Mar 14, 2012 4:22 pm
 
Forum: Molecular Biology
Topic: what is the difference between promoter and enhancer
Replies: 3
Views: 5166

How to search the short sequence among the nuclear acid bank

try the NCBI BLAST, it should automatically set for short sequences. There are also some algoritms for searching consensus sequences, whit AAs far from each other.

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by JackBean
Sat Oct 22, 2011 8:48 am
 
Forum: Bioinformatics
Topic: How to search the short sequence among the nuclear acid bank
Replies: 1
Views: 1255

Sequencing

I second mith until the last sentence. If your sequences are too short, it will be nearimpossible to get a consensus because they won't differ enough to provide enough significant overlap. Sequences the size ...

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by canalon
Fri Apr 17, 2009 8:09 pm
 
Forum: Bioinformatics
Topic: Sequencing
Replies: 5
Views: 3435

Tandem repeats: a sensory apparatus made of DNA?

... these interactions may be transient (as occurring at degenerate consensus sequences). The apparatus may detect levels of more than one transcription factor for fidelity. ...

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by hanandmark
Mon Sep 15, 2008 12:36 pm
 
Forum: Microbiology
Topic: Tandem repeats: a sensory apparatus made of DNA?
Replies: 0
Views: 2217
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