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Type: ssearch

Parameter	Parameter in the GUI	Type
matrix	Substitution Matrix	string Available values are: Auto - for auto detecting matrix blosum60 dna rna ...
algorithm	Algorithm	string Available values are: Classic 2 SSE2 OpenCL CUDA
filter-strategy	Filter Results	string Available values are: filter-intersections none
min-score	Min Score	numeric
strand	Search in	numeric Available values are: 0 - for searching in both strands 1 - for searching in direct strand 2 - for searching in complement strand
amino	Search in Translation	boolean
gap-open-score	Gap Open Score	numeric
gap-ext-score	Gap Extension Score	numeric
use-names	Use Pattern Names	boolean
result-name	Annotate as	string
pattern-name-qual	Qualifier name for pattern name	string

Input/Output Ports

The element has 1 2 input ports. The first input port:

Name in GUI: Input data

Name in Workflow File: in-sequence

Slots:

Slot In GUI	Slot in Workflow File	Type
Sequence	sequence	sequence

The second input port:

Name in GUI: Pattern data

Name in Workflow File: pattern

Slots:

Slot In GUI	Slot in Workflow File	Type
Sequence	sequence	sequence

And 1 output port:

Name in GUI: Pattern annotations

Name in Workflow File: out-annotations

Slots:

Slot In GUI	Slot in Workflow File	Type
Set of annotations	annotations	annotation-table

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