AMX DESIGN XPRESS V 1.5 - PROGRAMMER GUIDE User Manual download pdf (Page 38)

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December 16, 2004 3:54 pm, GSG_Chapter_4-03.fm

Chapter 3 Designing Primers and Probes for Allelic Discrimination Assays

Automatically Designing Primers and Probes

Primer Express Software 3.0 Getting Started Guide 31

Notes

Figure 10. Determining variant using SNP Target Tool

Finding Primers

and Probes

To find primers and probes:

Select Tools > Find Primers/Probes ( ). Primer Express software performs its

calculations based on default parameter values.

The status bar, located at the bottom of the window, displays information about the

progress of the calculations as the software searches for primer, probe, and amplicon

sets. If primers and probes are found, go to “Viewing Results”.

If primers and probes were not found:

If the software does not find primers and probes using default parameters, a pop-up will

appear stating that no acceptable primer pairs were found and that you can see the

Interim Results window. For more information on Interim Results, see Primer Express

Software Version 3.0 Online Help.

Viewing Results Primer Express software automatically displays the Primers/Probes tabs if it finds

primers and probes (see “Figure 11. Primer/Probe Tab displaying candidate primers and

probes” on page 32). The Primers/Probes tab displays the candidate Primers & Probes

table that contains information about forward primers, reverse primers, probes, and

amplicons. The forward primer sequences are displayed using the left-to-right 5′-to-3′

convention, and reverse primer sequences are displayed using the right-to-left 5′-to-3′

convention.

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AMX DESIGN XPRESS V 1.5 - PROGRAMMER GUIDE User Manual Page 38