Peter Rice peter.rice at uk.lionbioscience.com
Thu Jul 25 16:39:09 UTC 2002

Qingjuan Gu (Grace) wrote:
> >Thirdly, do not use
> >the very latest formatdb (NCBI have not yet released the
> >details of their index format so EMBOSS cannot index them).
> I did not use 'formatdb' for blast database, I just download from ncbi ftpsite "ftp://ftp.ncbi.nih.gov/blast/db/FormattedDatabases/" download and use gunzip and untar command to get these database.

NCBI have changed the format of blast databases to "ASN.1 headers" (also
known as 'format version 4')

If you FTP the databases from NCBI you will probably get them in this

We have asked NCBI for a description of the format. They promised to send
Until then, the new blast format is not supported.

I checked the latest code for the FASTA package, which has the same

Has anyone figured out how to decode this new blast database format yet?


Peter Rice

Peter Rice, LION Bioscience Ltd, Cambridge, UK
peter.rice at uk.lionbioscience.com +44 1223 224723

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