Oligo concentration is assumed to be significantly larger (at least 6x) than concentration of the complementary target, which is true in majority of molecular biology experiments. If this is not a case, concentration of the target cannot be ignored and you should enter in the box,
|DNA/DNA||+/- 1.4ºC (Allawi '97)|
|LNA/DNA||+/- 2.0ºC (McTigue '04, Owczarzy, 2011)|
|RNA/DNA||+/- 2.7ºC (Sugimoto '95)|
|DNA/RNA||+/- 2.7ºC (Sugimoto '95)|
|RNA/RNA||+/- 1.3ºC (Xia '98)|
|Divalent cation correction||+/- 0.5ºC (Owczarzy '08)|
|Triphosphate correction||+/- 0.0ºC (Owczarzy '08)|
|Monovalent cation correction||+/- 2.0ºC (Owczarzy '04)|
Consecutive LNA bases hybridized to a DNA template use a model from Owczarzy '11. In the absence of empirical data, LNA bases on an RNA template assume RNA values, and predictions are therefore less accurate.
Non-consecutive LNA bases hybridized to a DNA template use a model from McTigue '04. Consecutive LNA bases on a DNA template and any LNA bases on an RNA template assume RNA energetic parameters and predictions are therefore less accurate.
Effects of chemical modifications are neglected except when the modification contains a base, e.g., 5-Methyl dC, Internal Fluorescein dT. Energetic effects of these modifications are only approximated.
|structure||Image||ΔG (kcal.mole-1)||Tm (oC)||ΔH (kcal.mole-1)||ΔS (cal.K-1mole-1)||Output|
*Note dNTP Concentration is not taken into account.
IDT's licensed UNAFold software is available to our customers for the design of oligonucleotide sequences and for use of the resulting oligos purchased from IDT in the purchaser's research applications only. To obtain access to a license to or a copy of the UNAFold software for any other application, including commercial applications, please visit http://mfold.rna.albany.edu/?q=DINAMelt/commercial-license. For the latest information on UNAFold development and additional resources, visit http://mfold.rna.albany.edu/?q=unafold-man-pages
Copyright © Rensselaer Polytechnic Institute 2006. All rights reserved.
Copyright © Washington University 2000. All rights reserved.