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Table 1 Regression results for neutral substitution rates estimated from non-CpG and all sites

From: Human-macaque comparisons illuminate variation in neutral substitution rates

  Non-CpG sites All sites
Predictors t value* Significance VIF Variability explained§ t value* Significance VIF Variability explained§
X chromosome/autosome indicator 13.94 <10-4 1.2 0.08 15.25 <10-4 1.3 0.09
GC content         
   Linear term -10.34 <10-4 3.7 0.12 -5.08 <10-4 3.4 0.14
   Quadratic term 15.85 <10-4 1.3   18.78 <10-4 1.2  
Exon density -7.03 <10-4 2.4 0.02 -9.37 <10-4 2.4 0.03
SNP density 6.25 <10-4 1.2 0.02 6.85 <10-4 1.2 0.02
Male recombination rate 3.69 0.003 1.6 0.01 4.46 <10-4 1.6 0.01
Female recombination rate NS NS NS NS NS NS NS NS
Distance to telomere         
   Linear term -12.33 <10-4 2.5 0.06 -16.78 <10-4 2.5 0.11
   Quadratic term 7.63 <10-4 2.0   10.77 <10-4 2.0  
Mouse-rat orthologous neutral rate 7.95 <10-4 1.8 0.09 6.64 <10-4 1.4 0.07
Dog-cow orthologous neutral rate 10.56 <10-4 1.3   10.41 <10-4 1.4  
Multiple R2     0.52     0.53
Adjusted R2     0.52     0.52
  1. Non-CpG and all sites were taken in ancestral repeats orthologous to mouse, rat, dog and cow for each of 2,270 windows of size 1 Mb. *t value, test statistic of null hypothesis that each predictor's coefficient is equal to zero; p-values adjusted for multiple tests (using Bonferroni correction); VIF, variance inflation factor; §relative contribution to explained variability computed for each predictor. NS, non-significant