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. Author manuscript; available in PMC: 2014 Jan 9.
Published in final edited form as: J Am Chem Soc. 2012 Dec 21;135(1):354–366. doi: 10.1021/ja3095558

Table 1. Extension rates, mutation frequencies, and stalling factors after matches and different mis-matches in a DNA systema.

Apparent first-order rate constants (k) are given. Subscript ‘G’ refers to formation of correctly extended product. Subscript ‘total’ refers to total primer conversion to both correctly or incorrectly extended products. Relative incorporation frequency (f) is given for the base indicated by the subscript, Fidelities (equivalently, fG for these reactions) are also shown by horizontal bars (0 = no bar, 1 = full bar). Stalling factors are calculated for extension by the correct monomer (SG); note that slight differences between SG calculated from raw data and the corresponding kG ratio from the table may occur due to rounding (non-significant digits are not presented in the table).

Reactants kG (h-1) ktotal (h-1) fC/fT/fA Fidelity (fG) SG
1tg, 2a, 3a-t 0.06 0.18 0.15/0.09/0.35 0.41 14
1tg, 2c, 3a-t 0.86 1.3 0.03/0.03/0.07 0.87 -
1tg, 2g, 3a-t 0.09 0.46 0.04/0.02/0.81 0.13 9.3
1tg, 2t, 3a-t 0.1 0.2 0.07/0.06/0.23 0.63 8.4

1tc, 2a, 3a-t 0.06 0.19 0.12/0.09/0.45 0.34 20
1tc, 2c, 3a-t 0.01 0.04 0.14/0.12/0.48 0.26 110
1tc, 2g, 3a-t 1.2 1.8 0.01/0.01/0.1 0.88 -
1tc, 2t, 3a-t 0.02 0.06 0.1/0.12/0.47 0.31 74

1ta, 2a, 3a-t 0.04 0.13 0.11/0.11/0.5 0.28 13
1ta, 2c, 3a-t 0.02 0.08 0.1/0.14/0.54 0.22 27
1ta, 2g, 3a-t 0.05 0.19 0.09/0.09/0.59 0.24 9.4
1ta, 2t, 3a-t 0.48 0.64 0.01/0.01/0.07 0.91 -
a

Underlined reactants indicate a matched base pair. Reactions were analyzed by MS. See Supporting Table S6 and Figures S7-9 for more details.