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Question: Corona Virus- Sequence alignment-Phylogeny analysis
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gravatar for Bioinformatician_in_trouble
8 months ago by
Bioinformatician_in_trouble • 10
Bioinformatician_in_trouble • 10 wrote:

Hi there, Just an exercise(as the research is already been done), I wanted to do sequence alignment and phylogeny for the novel corona virus 2019. However, in NCBI we have so many sequences already deposited, on what basis should i select one? Is there a free online tool to perform phylogeny analysis on selected sequence. Thanks for helping me learn!
sequencing alignment assembly • 593 views
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written 8 months ago by Bioinformatician_in_trouble • 10
3
gravatar for genomax
8 months ago by
genomax ♦ 91k
United States
genomax ♦ 91k wrote:

Try out Bioinformatics.recipes: https://www.bioinformatics.recipes/5f2249b7/recipes/

This analysis is available in real time at: https://nextstrain.org/ncov
ADD COMMENT • link modified 7 months ago • written 8 months ago by genomax ♦ 91k

Thanks, just checked it, I will still need to choose an accession number for it. My question is how do i select one particular sequence of all?

ADD REPLY • link written 8 months ago by Bioinformatician_in_trouble • 10
5

Choose NC_045512 which is designated as Reference Sequence from NCBI page.

Edit: May 2020> NCBI has a new SARS virus resource page here.

ADD REPLY • link modified 5 months ago • written 8 months ago by genomax ♦ 91k
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