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
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written
by
Raghav
1 answer
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.
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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.