Primers
CLC Genomics Workbench offers graphically and algorithmically advanced design of primers and probes for various purposes. This chapter begins with a brief introduction to the general concepts of the primer designing process. Then follows instructions on how to adjust parameters for primers, how to inspect and interpret primer properties graphically and how to interpret, save and analyze the output of the primer design analysis. After a description of the different reaction types for which primers can be designed, the chapter closes with sections on how to match primers with other sequences and how to create a primer order.
Subsections
- Primer design - an introduction
- Setting parameters for primers and probes
- Graphical display of primer information
- Output from primer design
- Standard PCR
- Nested PCR
- TaqMan
- Sequencing primers
- Alignment-based primer and probe design
- Analyze primer properties
- Find binding sites and create fragments
- Order primers