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My Interest List
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Export records from the prokMSA 16S rDNA database
Use this tool to export a defined set of greengenes records. If you desire the entire greengenes dataset in fasta or ARB format, try the Download area.
Which records would you like to consider for export?
Checking both boxes indicates that conditions will be considered as: AND OR
For example, select "AND" if you want to export only the records in "My Interest List" which also are present in the uploaded file.
Consider sequences in My Interest List.

Consider sequences using my file.
Upload a file of sequence identifiers (prokMSA_id and/or NCBI accession number) separated by spaces/tabs/newlines:
Consider sequences found in uploaded list.
Consider sequences NOT found in uploaded list.
Filters:
Minimum nucleotide count:
Sequences which do not contain enough nucleotides will not be included in the exported file.

Maximum non-ACGT character count:
Sequences which contain too many ambiguous characters will not be included in the exported file.

Sequences must have a prokMSAname assigned.
Sequences must have a chimera test result.

In the box below, enter any study identifiers you wish to EXCLUDE from consideration. Separate each identifier with newlines (returns), spaces, tabs or commas.
Options:

obtain sequences from the Hugenholtz 7682-character data set (recommended)
obtain sequences from the RDP 8.1 4182-character data set (legacy usage only)
   Note: This older set contains many pre-2004 sequences under 1250 nt but is not
  aligned as accurately as the data set above.


greengenes format    see: greengenes import filter for ARB
Fasta format
MEGA format
custom format
      Default custom format (above): id-TAB-accession-TAB-name-NEWLINE
      Put fields in any order. Use s for space, t for tab, n for newline.


export sequences aligned
export sequences unaligned

Divide export into files of records per file.
Email address to send results (required):

 
  • Last Database Update: June 16, 2008 1:58PM
  • 232812 aligned 16S rDNA records >1250nt