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Table 2 Results of relative frequency comparisons of repeat superfamilies in the somatic and germline genomes of M. edax

From: Billions of basepairs of recently expanded, repetitive sequences are eliminated from the somatic genome during copepod development

Repeat superfamily H0 : f g  = f s (P-value) Dominant f ^ g : f ^ s (Ratio) Threshold λ(95%) Threshold λ(99%)
DNA-Chapaev 0.653 Neither 0.671 NA NA
DNA-Ginger1 5.11e-5 Somatic 0.0419 < 0.0857 < 0.113
DNA-Harbinger 8.66e-7 Somatic 0.0894 < 0.116 < 0.144
DNA-hAT << 1e-16 Germline 1.888 > 1.886 > 1.885
DNA-Kolobok 0.010 Somatic 0.0839 < 0.232 < 0.426
DNA-MuDR << 1e-16 Germline 4.66 > 4.56 > 4.48
DNA-Polinton 0.105 Neither 0.484 NA NA
DNA-Sola 1.04e-5 Somatic 0.194 < 0.233 < 0.269
LINE-CR1 << 1e-16 Somatic 0.119 < 0.1195 < 0.1200
LINE-L1 << 1e-16 Germline 2.827 > 2.826 > 2.826
LINE-MINIME_DN << 1e-16 Somatic 0.166 < 0.169 < 0.170
LINE-Penelope 0.033 Somatic 0.168 < 0.535 NA
LTR-BEL 0.264 Neither 1.19 NA NA
LTR-Copia 0.139 Neither 0.707 NA NA
LTR-DIRS 3.52e-6 Somatic 0.0335 < 0.0639 < 0.0840
LTR-ERV1 << 1e-16 Somatic 0.147 < 0.148 < 0.149
LTR-ERV3 0.072 Neither 0.252 NA NA
LTR-Gypsy << 1e-16 Somatic 0.5324 < 0.5325 < 0.5325
LTR-Pao 0.042 Germline 1.05 > 1.01 NA
  1. The first data column gives the P-value based on a x2 approximation for rejecting the null hypothesis of equal relative frequencies in the two genomes. The second column identifies which genome has a statistically significant higher relative frequency (α = 0.05) The third column gives the ratio of the observed relative frequencies in the experiment. The fourth and fifth columns give 95% and 99% confidence bounds on the ratio, respectively, for a one-sided test.