Seqmatch - Start

 

Did you know you can select sequences from myRDP and Hierarchy Browser to do seqmatch?
Percent identity scores will be reported for aligned sequences (limited to 2000).


Please enter your sequences:

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Choose a file to upload:


Cut and paste sequence(s) (in Fasta, GenBank, or EMBL format):
  

Strain:    
Source:
Size:
Quality:
Taxonomy:
KNN matches:

   


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Options

Strain: Type strain information is provided by bacterial taxonomy. Hint: Type strains link taxonomy with phylogeny. Include type strain sequences in your analysis to provide documented landmarks.

Source: View only environmental (uncultured) sequences, only sequences from individual isolates, or both. Source classification is based on sequence annotation and the NCBI taxonomy.

Size: View only near-full-length sequences (>1200 bases), short partials, or both.

Quality: View only good quality sequences, suspect quality sequences, or both. Sequences were flagged (*) as suspect quality. [more quality detail]

Taxonomy: View sequences placed into a new phylogenetically consistent higher-order bacterial taxonomy overlaid on the 16S rRNA classification. For the nomenclatural taxonomy, a set of well characterized (vetted) sequences was provided by these workers. Other sequences were placed into this scheme using the RDP Naïve Bayesian classifier.

KNN matches: Number of matches displayed per sequence, also number used to classify queries by unanimous vote.

 

Questions/comments: rdpstaff@msu.edu
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