Question: How To Blast Consensus Sequences With Bacterial Genome?
0
gravatar for Raghav
6.0 years ago by
Raghav100
Allahabad, India
Raghav100 wrote:

Dear all,

Subject- To find number of hits available for the particular consensus sequence in bacterial genome

I am having this consensus sequence

GAAUGUCUUCGGGGCAGGGUGAGGAGRGNNNNNNNNNNNNHNCVGGGNNNUGGUGNNNNNNNNNNNCNDNNGNDNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNYNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNRYSYDRRRNNNNNNNNNNNNNNNNNNUNNNANNCNCGNNNVCCRACVGUNNNANNNVBDNNBAUKYUHNNDNNYNNVNNBNNNVAGUCNGGAUGKNNANDNNNNNNNNNNNDRGGAGAAGGAGGCA

i need to perform an online BLAST with a bacterial genome. Don't know how to do it

consensus blast • 3.4k views
ADD COMMENTlink modified 6.0 years ago by Manu Prestat3.9k • written 6.0 years ago by Raghav100
1

Why you want to do only online blast ? What are numbers of genomes ? But I will suggest you for below: 1) Install the Blast 2) Download the Bacterial Genome 3) Run blast for query sequence with Genome.

ADD REPLYlink written 6.0 years ago by always_learning980
1
gravatar for Manu Prestat
6.0 years ago by
Manu Prestat3.9k
Marseille, France
Manu Prestat3.9k wrote:

Online NCBI Blast lets you choose (or exclude) organisms. However, I would investigate a bit to see how BLASTN (or megablast which is the default) handles the numerous Ns you got.

ADD COMMENTlink written 6.0 years ago by Manu Prestat3.9k
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