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Simulates PCR for input sequences and primer pairs. Creates the table with the PCR statistics.

Parameters in GUI

ParameterDescriptionDefault value
Primers URLA URL to the input file with primer pairs. 
Report URLA URL to the output file with the PCR report. 
MismatchesNumber of allowed mismatches.3
Min perfect matchNumber of bases that match exactly on 3' end of primers.15
Max product sizeMaximum size of amplified region.5000

Parameters in Workflow File

Type: in-silico-pcr

ParameterParameter in the GUIType
primers-urlPrimers URLstring
report-urlReport URLstring
mismatchesMismatchesnumeric
perfect-matchMin perfect matchnumeric
max-productMax product sizenumeric

Input/Output Ports

The element has 1 input port:

Name in GUI: Input sequence

Name in Workflow File: in-sequence

Slots:

Slot In GUISlot in Workflow FileType
Sequencesequencesequence

And 1 output port:

Name in GUI: PCR product

Name in Workflow File: out

Slots:

Slot In GUISlot in Workflow FileType
Set of annotationsannotationsannotation-table
Sequencesequencesequence
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