Database Directory

The database directory, supplied with Primrose, contains copies of the Ribosomal Database Project (RDP) release 8.1 for prokaryotes, eukaryotes and mitochondrial small-subunit ribosomal RNA.  Please note that this database is copyright Michigan State University Board of Trustees.  For more information, vist the RDP website at http://rdp.cme.msu.edu/html/.

To open an RDP database, select the appropriate phylogeny file (.phylo).  Do not open the associated GenBank file (or Fasta file) directly - these will take a long time to load, and contain none of the phylogenetic data necessary for display purposes.

Directory contents

File name
Description
SSU_Prok.phylo
Phylogenetic information associated with the prokaryotes dataset. 
SSU_Prok.gb
Prokaryote small-subunit ribosomal RNAsequence data in GenBank format.
SSU_Prok.fas*
Prokaryote small-subunit ribosomal RNA sequence data in Fasta format.
SSU_Euk.phylo
Phylogenetic information associated with the eukaryotes dataset. 
SSU_Euk.gb
Eukaryote small-subunit ribosomal RNA sequence data in GenBank format.
SSU_Euk.fas*
Eukaryote small-subunit ribosomal RNA sequence data in Fasta format.
SSU_Mito.phylo
Phylogenetic information associated with the mitochondrial dataset.
SSU_Mito.gb
Mitochondrial small-subunit ribosomal RNA sequence data.
SSU_Mito.fas*
Mitochondrial small-subunit ribosomal RNA sequence data in Fasta format.
*The Fasta formatted sequence files were generated from the GenBank files for this program and are not available from the RDP website.  Fasta formatted sequence information is used in preference to the equivalent GenBank data in order to improve program performance.