PrimerDigital


Primers analysis and compatibility


Paste or type the primer or primers sequence(s) at any TAB Editors, the program will immediately show primer characteristics:
length in bases, melting temperature, CG% content, molecular weight, the extinction coefficient (e260), nmol per 1 OD, the mass - µg per 1 OD, linguistic complexity (%) and primer quality (%);
minimal and maximal optimal annealing temperature for unknown PCR products. Tm calculation based on chosen the formula from “Primers Design Options”.

If the primer is self-complementary, the program will show a picture of where this self-complementarity happens. All primers analysed for self-dimers formation and by your wishes primers can analysed with each other for detection cross dimers formation. A self-priming ability will also be detected and shown by the program. When the two primers are forming such a dimer, the program will also show it.

Web Java version for on-line primer test with Tm calculation for normal and degenerated nucleotide combinations based on the nearest neighbour thermodynamic parameters and comprehensive dilution protocol available at WebTols.
Comprehensive analysis of the list of primers with prediction of the oligonucleotides properties, self and cross dimers detection and temperature of annealing calculation is available at jPCR Web Tools.

FastPCR





Primers list or PCR sets analyses

Tables format description for PCR sets analysis

You can directly import the table from text file or from the clipboard via copy and paste operations from Microsoft Word or Excel sheet, or primer’s list from FastPCR's", or the table with TAB or whitespace separators.
The program reads columns, where the first column is for the name of the primer and the second column is its sequence, as well as for PCR sets of more than one primer, all sequences from subsequent columns will receive the same name:

FastPCR

Single or list of primers is evaluate by FastPCR for calculation Tm (default or other formula) for normal and degenerated nucleotide combinations, CG content, the extinction coefficient, nmol per OD, the mass - µg per OD, the molecular weight, linguistic complexity (%) and primer quality (%).
All primers analysed for self-dimers formation and by your wishes primers can analysed with each other for detection cross dimers formation.

FastPCR