Separating the wheat from the chaff: mitigating the effects of noise in a plastome phylogenomic data set from Pinus L. (Pinaceae)

Table 3 Slopes of regression lines for plots of corrected versus uncorrected pairwise distances

	All accessions	No non- *Pinus* outgroups	Subgenus Pinus	Subgenus Strobus	section Q uinquefoliae + *P. monophylla*	section Pinus + *P. ponderosa*	section Trifoliae + *P. thunbergii*
Full alignment	0.9574	0.9682	0.9898	0.9893	0.9905	0.9925	0.9928
Full alignment	(0.9571-0.9577)	(0.9681-0.9683)	(0.9895-0.9898)	(0.9888-0.9898)	(0.9893-0.9918)	(0.9911-0.9939)	(0.9921-0.9935)
A₁₃₆₆₆₅	0.9604	0.9851	0.9935	0.9903	0.9916	0.9941	0.9948
	(0.9601-0.9607)	(0.9850-0.9853)	(0.9929-0.9941)	(0.9897-0.9908)	(0.9903-0.9928)	(0.9923-0.9958)	(0.9939-0.9958)
A₁₃₃₀₆₅	0.9655	0.9954	0.9959	0.9950	0.9952	0.9955	0.9961
	(0.9653-0.9656)	(0.9950-0.9958)	(0.9953-0.9964)	(0.9938-0.9962)	(0.9932-0.9972)	(0.9935-0.9976)	(0.9953-0.9969)

95% confidence intervals for slopes are shown in parentheses. Slopes with values below 1.0 represent increased levels of saturation in the alignment tested. Intercepts of all lines were significantly different than zero at p < ≤0, with the exception of section Pinus + P. ponderosa for treatment A₁₃₃₀₆₅, which was not significantly different than zero. 95% confidence intervals for intercepts significantly different than zero were all 1.8 × 10^-6 ≤ y ≤ 0.00040.

ISSN: 2730-7182