This tool will query taxonomy reference databases for Fungi, Animals, Bacteria and Archaea
- ITS sequences for Fungi will be queried against the UNITE general FASTA release for eukaryotes v9.0 (a reference database for DNA barcoding of Fungi)
- COI sequences for Animals will be queried against a 99% clustered version of the BOLD Public Database v2024-01-06 public data (COI-5P sequences)
- 16S sequences for Bacteria and Archaea will be queried against the Genome Taxonomy Database r214 16S rRNA gene sequences identified within the set of representative genomes
- 18S sequences will be queried against the PR2 database v5.0.0
- 12S sequences for Fish will be queried against the MitoFish v3.97 database of 12S sequences
Files can be uploaded in CSV or FASTA format. CSVs are expected to have a columns named 'sequence', 'marker' and an 'id' or 'occurrenceId' column. It is also possible to paste sequences into the text field below (only FASTA format)
References
Your data have been matched against a blast database of the UNITE general FASTA release for eukaryotes v9.0. All returned matches have then been matched against the GBIF backbone taxonomy by their identifier (e.g. SH1571756.08FU). These OTU identifiers can be used for publishing sequence based data to GBIF. The result can be downloaded as a csv with identifiers included.
Your data have been matched against a 99% clustered version of the BOLD Public Database v2024-01-06 public data (COI-5P sequences) All returned matches have then been matched against the GBIF backbone taxonomy by their identifier (e.g. BOLD:ADJ8357). These OTU identifiers can be used for publishing sequence based data to GBIF. The result can be downloaded as a csv with identifiers included.
Your data have been matched against the Genome Taxonomy Database r214 16S rRNA gene sequences identified within the set of representative genomes
Your data have been matched against the MitoFish v3.97 database of 12S sequences
Your data have been matched against the PR2 v5.0.0 database of 18S sequences
Match types
{{ 'BLAST_EXACT_MATCH' | prettifyEnum }} | identity >= 99% and queryCoverage >= 80%. This is within the threshold of the OTU. |
{{ 'BLAST_AMBIGUOUS_MATCH' | prettifyEnum }} | {{'identity >= 99% and queryCoverage >= 80%, but there is at least one more match with similar identity'}} |
{{ 'BLAST_CLOSE_MATCH' | prettifyEnum }} | {{'identity < 99% but > 90% and queryCoverage >= 80%. It is something close to the OTU, maybe the same Genus.'}} |
{{ 'BLAST_WEAK_MATCH' | prettifyEnum }} | {{'there is a match, but with identity < 90% or/and queryCoverage < 80%. Depending on the quality of the sequence, bit score, identity and expect value, a higher taxon could be inferred from this.'}} |
{{ 'BLAST_NO_MATCH' | prettifyEnum }} | No match. |
{{ col }} ▲ ▼ | |||||||||||
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{{ species.occurrenceId }} | {{ species.marker }} | {{ species.identity }}% | {{ species.bitScore }} | {{ species.expectValue }} | {{ species.queryCoverage }}% | {{ species.queryLength }} | {{ species.matchType | prettifyEnum }} |
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