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Smart BLAST or only BLAST?

I want to do BLAST search of some amino acid sequences. What should I go for BLASTP or smart BLAST?

Thanks

blast protein sequence alignment
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written by dpc dpc

1 answer

SmartBLAST carries out searches against landmark databases as mentioned on the tool's home page.

If you want to search against those specific databases then you should use SmartBLAST, else use BLAST.

PS: [[ Please read before posting a question ::: How To Ask A Good Question ]]

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written by Sej Modha Sej Modha

Thanks for the reply sej Modha. I have done BLAST with my sequence (58 aa). I am getting the following two best hits. Which one should I go for?

                 Max score                Total score            query cover            E value         Per. Identity

Fisrt hit          122                           122                     100%                    6e-35            100.00%

Second hit     121                           121                     100%                    9e-35              100.00%

The first hit is 69 aa long while the Second hit is 58 aa long.

Thanks

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written by dpc dpc

That is a new question and completely unrelated to your original question which seems to have been resolved with my initial response.

Moreover, I cannot help you with choosing the best hit without any prior knowledge of what you are trying to achieve and what is the question you are trying to answer using BLAST as you have provided very little information here.

Please take a look at how to ask a good question as it will help you phrase your questions better and will in turn lead to better responses from community members from this site.

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written by Sej Modha Sej Modha

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