This tool will query taxonomy reference databases for Fungi and Animals
ITS sequences for Fungi will be queried against the UNITE Species Hypothesis General FASTA release (a reference database for DNA barcoding of Fungi)
COI sequences for Animals will be queried against a 99% clustered version of the International Barcode of Life project (iBOL) public data (COI-5P 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 Species Hypothesis General FASTA release. 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 International Barcode of Life project (iBOL) 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.
Match types
{{ 'BLAST_EXACT_MATCH' | prettifyEnum }} | identity >= 98.5% and queryCoverage >= 80%. This is within the threshold of the OTU. |
{{ 'BLAST_AMBIGUOUS_MATCH' | prettifyEnum }} | {{'identity >= 98.5% and queryCoverage >= 80%, but there is at least one more match with similar identity'}} |
{{ 'BLAST_CLOSE_MATCH' | prettifyEnum }} | {{'identity < 98.5% 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. |
{{ '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 }} ▲ ▼ | |||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|
{{ species.occurrenceId }} | {{ species.marker }} | {{ species.identity }}% | {{ species.bitScore }} | {{ species.expectValue }} | {{ species.queryCoverage }}% | {{ species.queryLength }} | {{ species.matchType | prettifyEnum }} | {{ species.sequence }} |