General

NCBI GenBank queries are used for searching the sequence of one target online via a BLAST query on the NCBI GenBank Internet server.

Definition Panel

The definition panel is used to define and edit the query. The following fields can be set in the upper part of the panel:

Query Name

A name for this query. This will also be used as category name for the result fields that are filled by this query.

Execution Mode

Perform automatically: Every time the typing is changed, all opened Samples are re-typed.

Never perform automatically: Re-typing has to be started manually using a Sample's context menu.

Comment

A comment for this query. Only shown in the definition panel.

The Top-Matching Definition are used to define which query result should be taken as reliable. Two different thresholds can be defined:

• least percentage identity to the hit (ambiguity identity matches ambiguity symbols to any base that they contain)
• least percentage aligned length (relative to the query length, to the hit length, or to both)

The query has

• succeeded if exactly one sequence fulfills both thresholds
• an ambiguous result if more than one sequences fulfill both thresholds
• failed if no sequence fulfills both thresholds

Result Panel

The result panel that is a part of the Task Entry overview shows the BLAST result table of the query. If the result has a unique top-matching hit, this row is highlighted green. If multiple hits fulfill the top-matching thresholds, all of those are highlighted yellow.

The toolbar shows the following buttons:

• Export the table to a file.
• Search a text in the table.
• Show the query settings and BLAST parameters.
• Draw a phylogenetic tree of library sequences.
• Show all result values for the selected column.