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how to consulte a genomic database

how to consulte a genomic database - Bioinformatics

how to consulte a genomic database - Have questions about bioinformatic tools or databases? Post questions here. Discuss and post interesting bioinformatics information.


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Old 09-29-2010, 09:03 AM
Pipette Filler
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Default how to consulte a genomic database



dear all,
I have a question abou how to consulte a genomic database, I' m working with marine sponge, recently has been obtained a complete genome sequence from a specie. Is it possible, using specific softwares, to find some sequences based on other animas similarity?

Thank you
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Old 11-06-2010, 08:44 PM
Pipette Filler
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Default Re: how to consulte a genomic database

If you are looking for simple matches, just blast the sequence.

If you are looking for domains or motifs try HMMer3, that creates a model for your data, train it with your input sequence and looks for similarities to other profiles or families of protein domains.


Could you please specify what exactly you are looking for.
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