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. Author manuscript; available in PMC: 2010 May 11.
Published in final edited form as: J Phys Chem B. 2008 Jan 16;112(5):1515–1524. doi: 10.1021/jp709827m

Table 3.

Base pair interactions obtained for the central 8 base pairs of the duplexes averaged over the final 9 ns. The errors given are the standard error of the mean calculated from the averages of 1 ns windows.

Base Pair DD DR RD RR
A2-T9 −7.1 ± 0.0 −9.4 ± 0.0 −6.9 ± 0.0 −6.8 ± 0.9
A3–A8 −7.1 ± 0.0 −9.6 ± 0.0 −7.1 ± 0.0 −9.6 ± 0.0
G4-C7 −22.0 ± 0.0 −21.3 ± 0.1 −21.6 ± 0.0 −14.0 ± 2.0
A5-T6 −7.3 ± 0.0 −9.4 ± 0.1 −7.3 ± 0.0 −9.5 ± 0.0
G6-C5 −21.8 ± 0.0 −21.5 ± 0.1 −21.6 ± 0.0 −16.9 ± 1.7
A7-T4 −7.1 ± 0.0 −9.5 ± 0.0 −7.0 ± 0.0 −9.5 ± 0.1
A8-T3 −7.2 ± 0.0 −9.5 ± 0.0 −7.1 ± 0.0 −9.6 ± 0.0
G9-C2 −22.1 ± 0.0 −22.2 ± 0.2 −21.5 ± 0.0 −19.5 ± 0.9
Average −12.7 −14.0 −12.5 −11.9