Basic Search Functions

  1. Search for Accession number
  2. Search for a Range of Accession Numbers
  3. Search for Multiple Accession numbers
  4. Search for Organism name restricted to sequences in the SILVA SSURef dataset


    5. By clicking on 'Add found sequences to cart' the sequences are ready for Download. The Cart shows the total number of sequences in the cart (4). Show shows all sequences in the cart. Clear removes all sequences from the cart. Clicking on the table headers, e.g. sequence length, sorts the results.


  5. Clicking on the 'browser symbol' in Options links to the Taxonomic Browser. The percentages shown in red indicate the coverage of the sequences in the respective phylogenetic group. In this case, 10% of the sequences of the genus Nevskia are in the cart.

Advanced Search Functions

  1. Search for sequences within a specific Taxonomic group and have constraints on sequence length, sequence and alignment quality
  2. Search for sequences within a specific Taxonomic group that have been deposited in EMBL after 01 January, 2009 and have constraints on sequence length and sequence quality
  3. Search for sequences within a specific Taxonomic group that have been deposited in EMBL after 04 August, 2009 and have constraints on sequence length and sequence quality
  4. Search for sequences deposited by a specific Author and have constraints on sequence length and quality
  5. Search for sequences from a specific Publication and have constraints on sequence length and quality. The number in publication ID can be the Pubmed ID or the DOI
  6. Search for all sequences from cultured strains. Match: 'any'
    http://www.arb-silva.de/fileadmin/graphics_general/main/search_tutorial_2/cultivated_2_n.png

Combined Search Functions

  1. Search for all genomes that are typestrains325 accession numbers representing 1029 rRNA sequences - due to multiple operons - are found. Now you want to add all Archaeoglobus sequences from the SILVA Ref tree to the cart: Click on the browser symbol of an Archaeoglobus entry in the result list -> browser opens. Add all sequences by clicking on the cart symbol next to Archaeoglobus. The cart now contains 362 sequences.
  2. Click on Show to go back to the Search page. For download, you only want to keep sequences that are longer than 1500 bases. Search for all sequences in the Cart that are shorter than 1500 bases:and remove these sequences from the cart by clicking on 'Remove found sequences from cart'.
    This leaves 179 sequences in the cart for Download.

Download Sequences in Cart

  1. Select individual sequences or add all sequences to your cart for download.
  2. Click on Download and the following menu will pop up:

  3. Select the output format (ARB file or Multi-Fasta file) and if the file should be compressed using Zip (Windows) or tar (Linux).
  4. Click on: Start export
  5. The files can be retrieved on the 'My Files' page:
  6. Proceed by e.g merging your ARB file with your personal ARB database see Opens internal link in current windowFAQ