For analyzing and comparing multiple primer sequences simultaneously.
Write or paste your primer sequences to the input field (upper window). The analyzer accepts text and table format (can be copied from an Excel file, for example). Note: This analyzer requires at least 2 primer sequences in the input field. For single primers (determination of primer Tm) you can choose the Tm calculator for PCR.
A degenerate primer is a mixture of otherwise identical primers where one or more of the positions can have multiple alternative bases. These degenerate bases are represented by specific letters, each denoting one type of variation. For example, a letter B in the primer sequence means that some primers in the mixture can have C in that position, while others can have G or T (see the table below).
The following letters are used to designate degenerate bases in a primer sequence:
The results will appear instantly in the output fields (lower windows), and update automatically if you make changes to the sequences. The analyzer will give the following results: