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Table 4 Divergence aggregated by class, linkage, CpG censoring, and differences used. Differences used were classified as: all differences (EQ+/−); CG equilibrating differences only (EQ+); and non CG equilibrating differences only (EQ-). Sites were classified as one of: ERV (PV); selfish DNA (RM+); or non-repetitive or repetitive but non-selfish (RM-)

From: Orthologous endogenous retroviruses exhibit directional selection since the chimp-human split

  

Uncensored (CpG+)

Censored (CpG-)

Linkage

Class

EQ+/−

EQ+

EQ-

EQ+/−

EQ+

EQ-

A

PV

0.01649

0.01430

0.00222

0.01066

0.00885

0.00182

A

RM+

0.01446

0.01230

0.00217

0.01017

0.00831

0.00187

A

RM-

0.01144

0.00969

0.00177

0.00865

0.00712

0.00154

X

PV

0.01365

0.01182

0.00184

0.00829

0.00694

0.00135

X

RM+

0.01087

0.00929

0.00159

0.00776

0.00639

0.00137

X

RM-

0.01005

0.00841

0.00166

0.00767

0.00627

0.00140