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Bioinformatic Nucleotide Question

  • 10-04-2013 4:42pm
    #1
    superstar111
    Registered Users, Registered Users 2 Posts: 23 ✭


    Question for those who are more familiar with bioinformatics than me: So I put a nucleotide sequence into BLAST to search for what it is. My search said 100% identity to "Yersinia pestis A1122 complete genome". But my sequence is only about 1200 nucleotides long and after some research, from what I can find, the complete genome of Yersinia pestis is much longer that this!! Could anyone explain this to me? Am I doing something wrong? Just need to find out what exactly my specific sequence represents/encodes for! Don't understand how it could be the complete genome! Thanks in advance!


Comments

  • #2
    Sycopat
    Registered Users Posts: 308 ✭✭Sycopat


    It means within the complete genome there is a 1200 base sequence which your search sequence matches to. Not that the genome is 100% identical to your search sequence.

    If you're using the NCBI BLAST tool at http://blast.ncbi.nlm.nih.gov/Blast.cgi it should show you the alignment, and give you the position within the genome of the alignment further down the results page.

    However if your task is to identify the sequences function, you would probably be better served looking at the other results you got, or trying a blastx.


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