Table 4 Open in new tab Percentage (%)...

Correction Procedure	s	B1	B2	B3	B4	B5	p₁	FWER	FDR
SC
B, Hg, Hl, R	4	0.5–0.6 (0.2)	0.7 (0.2)	1 (0.4)	0.6 (0.3)	8.3–8.4 (6–6.2)		2.6–2.7 (1.1)	0.7 (0.3)
B–H, S	4	0.6–1.5 (0.2–0.5)	0.9–2.1 (0.5–0.7)	1.1–2.2 (0.4–0.7)	0.8–1.5 (0.3–0.6)	8.7–11.2 (6–7)		3.2–5 (1.2–2)	0.9–1.8 (0.4–0.6)
B, Hg, Hl, R	8	0.3 (0)	0.3 (0)	0.5 (0.3)	0.8 (0.5)	43–44 (37–37.5)		4.5 (1.5)	0.4 (0.1)
B–H, S	8	0.3 (0.1–0.3)	0.8 (0)	0.5 (0.5)	1.5 (0.5)	43–44 (37.5–39)		6 (2.5–3)	0.7 (0.2–0.3)
SI1
B, Hg, Hl, R	4	0.6 (0.4)	1.1–1.2 (0.5)	0.6–0.7 (0.5)	1.1 (0.8)	8.2 (5.2)		3.3–3.5 (2.1)	0.9 (0.6)
B–H, S	4	0.6–0.9 (0.5–0.6)	1.1–1.9 (0.5)	0.6–1.9 (0.5–0.7)	1.1–2.3 (0.8–1.1)	8.2–10.1 (5.3–6.5)		3.3–5.4 (2.1–2.2)	0.9–1.8 (0.6–0.7)
B, Hg, Hl, R	8	0.9–1 (0)	0.3–0.4 (0.3)	0.5 (0.3)	0.5 (0.3)	49.5 (39)		6.0–7.0 (2.0)	0.5–0.6 (0.2)
B–H, S	8	1.6 (0.4–0.5)	0.5–0.6 (0.3–0.4)	0.8 (0.5)	0.8–1 (0.3)	51–52 (40.5–41)		10–11 (3.5–4.5)	1 (0.3–0.4)
SI2
B, Hg, Hl, R	4	11.2–11.5 (8.1–8.3)	0.6–0.7 (0)	1.2 (0.4)	1.7 (0.8–1)	5.5–5.7 (3.8–4)	16.2–16.6 (11.8–12)	3.3 (0.4–0.5)	1.2 (1.1–1.2)
B–H, S	4	12–15.9 (8.3–9.6)	0.8–1.6 (0.3–0.5)	1.4–2.7 (0.6–1.1)	1.8–2.9 (1.1–1.6)	6.3–8.9 (4–5.3)	16.8–21.7 (11.8–13.6)	3.6–6.1 (0.7–2.7)	1.3–5.8 (1.2–3.2)
B, Hg, Hl, R	8	10–10.6 (6.9–7.1)	0.3 (0.1)	0 (0)	0.5 (0.3)	23–23.5 (16)	47.5–48.5 (36.0–36.5)	2.0 (1.0)	0.3 (0.1)
B–H, S	8	13.6–16.4 (8.9–9.8)	0.4 (0.3)	0 (0)	1.3–1.8 (0.5)	26–29 (18.5–19)	50–55.5 (37.5–38.5)	3.5–4.5 (2.0)	0.5–0.6 (0.3)
SI3
B, Hg, Hl, R	4	4.9–5.5 (3.6)	12–12.5 (8.5–8.6)	9.3–9.9 (6.3–6.5)	12.9–13.8 (8.7–8.8)	1.7–1.8 (0.9)	34.8–35.3 (24.5–24.6)	1.7–1.8 (0.9)	1.7–1.8 (0.9)
B–H, S	4	6.8–10.8 (3.8–5.3)	13.6–17.7 (9.5–11.2)	12–17.1 (7.1–9.4)	15.8–21.4 (9.4–11.7)	2.3–3.9 (1.1–1.4)	36.2–41.7 (25–28.6)	2.3–3.9 (1.1–1.4)	2.3–3.9 (1.1–1.4)

Correction Procedure

p₁

FWER

FDR

B, Hg, Hl, R

0.5–0.6 (0.2)

0.7 (0.2)

1 (0.4)

0.6 (0.3)

8.3–8.4 (6–6.2)

2.6–2.7 (1.1)

0.7 (0.3)

B–H, S

0.6–1.5 (0.2–0.5)

0.9–2.1 (0.5–0.7)

1.1–2.2 (0.4–0.7)

0.8–1.5 (0.3–0.6)

8.7–11.2 (6–7)

3.2–5 (1.2–2)

0.9–1.8 (0.4–0.6)

B, Hg, Hl, R

0.3 (0)

0.5 (0.3)

0.8 (0.5)

43–44 (37–37.5)

4.5 (1.5)

0.4 (0.1)

B–H, S

0.3 (0.1–0.3)

0.8 (0)

0.5 (0.5)

1.5 (0.5)

43–44 (37.5–39)

6 (2.5–3)

0.7 (0.2–0.3)

SI1

B, Hg, Hl, R

0.6 (0.4)

1.1–1.2 (0.5)

0.6–0.7 (0.5)

1.1 (0.8)

8.2 (5.2)

3.3–3.5 (2.1)

0.9 (0.6)

B–H, S

0.6–0.9 (0.5–0.6)

1.1–1.9 (0.5)

0.6–1.9 (0.5–0.7)

1.1–2.3 (0.8–1.1)

8.2–10.1 (5.3–6.5)

3.3–5.4 (2.1–2.2)

0.9–1.8 (0.6–0.7)

B, Hg, Hl, R

0.9–1 (0)

0.3–0.4 (0.3)

0.5 (0.3)

49.5 (39)

6.0–7.0 (2.0)

0.5–0.6 (0.2)

B–H, S

1.6 (0.4–0.5)

0.5–0.6 (0.3–0.4)

0.8 (0.5)

0.8–1 (0.3)

51–52 (40.5–41)

10–11 (3.5–4.5)

1 (0.3–0.4)

SI2

B, Hg, Hl, R

11.2–11.5 (8.1–8.3)

0.6–0.7 (0)

1.2 (0.4)

1.7 (0.8–1)

5.5–5.7 (3.8–4)

16.2–16.6 (11.8–12)

3.3 (0.4–0.5)

1.2 (1.1–1.2)

B–H, S

12–15.9 (8.3–9.6)

0.8–1.6 (0.3–0.5)

1.4–2.7 (0.6–1.1)

1.8–2.9 (1.1–1.6)

6.3–8.9 (4–5.3)

16.8–21.7 (11.8–13.6)

3.6–6.1 (0.7–2.7)

1.3–5.8 (1.2–3.2)

B, Hg, Hl, R

10–10.6 (6.9–7.1)

0.3 (0.1)

0 (0)

0.5 (0.3)

23–23.5 (16)

47.5–48.5 (36.0–36.5)

2.0 (1.0)

0.3 (0.1)

B–H, S

13.6–16.4 (8.9–9.8)

0.4 (0.3)

0 (0)

1.3–1.8 (0.5)

26–29 (18.5–19)

50–55.5 (37.5–38.5)

3.5–4.5 (2.0)

0.5–0.6 (0.3)

SI3

B, Hg, Hl, R

4.9–5.5 (3.6)

12–12.5 (8.5–8.6)

9.3–9.9 (6.3–6.5)

12.9–13.8 (8.7–8.8)

1.7–1.8 (0.9)

34.8–35.3 (24.5–24.6)

1.7–1.8 (0.9)

B–H, S

6.8–10.8 (3.8–5.3)

13.6–17.7 (9.5–11.2)

12–17.1 (7.1–9.4)

15.8–21.4 (9.4–11.7)

2.3–3.9 (1.1–1.4)

36.2–41.7 (25–28.6)

2.3–3.9 (1.1–1.4)

Correction Procedure	s	B1	B2	B3	B4	B5	p₁	FWER	FDR
SC
B, Hg, Hl, R	4	0.5–0.6 (0.2)	0.7 (0.2)	1 (0.4)	0.6 (0.3)	8.3–8.4 (6–6.2)		2.6–2.7 (1.1)	0.7 (0.3)
B–H, S	4	0.6–1.5 (0.2–0.5)	0.9–2.1 (0.5–0.7)	1.1–2.2 (0.4–0.7)	0.8–1.5 (0.3–0.6)	8.7–11.2 (6–7)		3.2–5 (1.2–2)	0.9–1.8 (0.4–0.6)
B, Hg, Hl, R	8	0.3 (0)	0.3 (0)	0.5 (0.3)	0.8 (0.5)	43–44 (37–37.5)		4.5 (1.5)	0.4 (0.1)
B–H, S	8	0.3 (0.1–0.3)	0.8 (0)	0.5 (0.5)	1.5 (0.5)	43–44 (37.5–39)		6 (2.5–3)	0.7 (0.2–0.3)
SI1
B, Hg, Hl, R	4	0.6 (0.4)	1.1–1.2 (0.5)	0.6–0.7 (0.5)	1.1 (0.8)	8.2 (5.2)		3.3–3.5 (2.1)	0.9 (0.6)
B–H, S	4	0.6–0.9 (0.5–0.6)	1.1–1.9 (0.5)	0.6–1.9 (0.5–0.7)	1.1–2.3 (0.8–1.1)	8.2–10.1 (5.3–6.5)		3.3–5.4 (2.1–2.2)	0.9–1.8 (0.6–0.7)
B, Hg, Hl, R	8	0.9–1 (0)	0.3–0.4 (0.3)	0.5 (0.3)	0.5 (0.3)	49.5 (39)		6.0–7.0 (2.0)	0.5–0.6 (0.2)
B–H, S	8	1.6 (0.4–0.5)	0.5–0.6 (0.3–0.4)	0.8 (0.5)	0.8–1 (0.3)	51–52 (40.5–41)		10–11 (3.5–4.5)	1 (0.3–0.4)
SI2
B, Hg, Hl, R	4	11.2–11.5 (8.1–8.3)	0.6–0.7 (0)	1.2 (0.4)	1.7 (0.8–1)	5.5–5.7 (3.8–4)	16.2–16.6 (11.8–12)	3.3 (0.4–0.5)	1.2 (1.1–1.2)
B–H, S	4	12–15.9 (8.3–9.6)	0.8–1.6 (0.3–0.5)	1.4–2.7 (0.6–1.1)	1.8–2.9 (1.1–1.6)	6.3–8.9 (4–5.3)	16.8–21.7 (11.8–13.6)	3.6–6.1 (0.7–2.7)	1.3–5.8 (1.2–3.2)
B, Hg, Hl, R	8	10–10.6 (6.9–7.1)	0.3 (0.1)	0 (0)	0.5 (0.3)	23–23.5 (16)	47.5–48.5 (36.0–36.5)	2.0 (1.0)	0.3 (0.1)
B–H, S	8	13.6–16.4 (8.9–9.8)	0.4 (0.3)	0 (0)	1.3–1.8 (0.5)	26–29 (18.5–19)	50–55.5 (37.5–38.5)	3.5–4.5 (2.0)	0.5–0.6 (0.3)
SI3
B, Hg, Hl, R	4	4.9–5.5 (3.6)	12–12.5 (8.5–8.6)	9.3–9.9 (6.3–6.5)	12.9–13.8 (8.7–8.8)	1.7–1.8 (0.9)	34.8–35.3 (24.5–24.6)	1.7–1.8 (0.9)	1.7–1.8 (0.9)
B–H, S	4	6.8–10.8 (3.8–5.3)	13.6–17.7 (9.5–11.2)	12–17.1 (7.1–9.4)	15.8–21.4 (9.4–11.7)	2.3–3.9 (1.1–1.4)	36.2–41.7 (25–28.6)	2.3–3.9 (1.1–1.4)	2.3–3.9 (1.1–1.4)

Table 4

Open in new tab

Percentage (%) of Significant Replicates at the 5% Level Based on the Null Mixture Distribution or the $χ_{1}^{2}$ Distribution (in parentheses) when Data are Simulated with Positive Selection

Correction Procedure	s	B1	B2	B3	B4	B5	p₁	FWER	FDR
SC
B, Hg, Hl, R	4	0.5–0.6 (0.2)	0.7 (0.2)	1 (0.4)	0.6 (0.3)	8.3–8.4 (6–6.2)		2.6–2.7 (1.1)	0.7 (0.3)
B–H, S	4	0.6–1.5 (0.2–0.5)	0.9–2.1 (0.5–0.7)	1.1–2.2 (0.4–0.7)	0.8–1.5 (0.3–0.6)	8.7–11.2 (6–7)		3.2–5 (1.2–2)	0.9–1.8 (0.4–0.6)
B, Hg, Hl, R	8	0.3 (0)	0.3 (0)	0.5 (0.3)	0.8 (0.5)	43–44 (37–37.5)		4.5 (1.5)	0.4 (0.1)
B–H, S	8	0.3 (0.1–0.3)	0.8 (0)	0.5 (0.5)	1.5 (0.5)	43–44 (37.5–39)		6 (2.5–3)	0.7 (0.2–0.3)
SI1
B, Hg, Hl, R	4	0.6 (0.4)	1.1–1.2 (0.5)	0.6–0.7 (0.5)	1.1 (0.8)	8.2 (5.2)		3.3–3.5 (2.1)	0.9 (0.6)
B–H, S	4	0.6–0.9 (0.5–0.6)	1.1–1.9 (0.5)	0.6–1.9 (0.5–0.7)	1.1–2.3 (0.8–1.1)	8.2–10.1 (5.3–6.5)		3.3–5.4 (2.1–2.2)	0.9–1.8 (0.6–0.7)
B, Hg, Hl, R	8	0.9–1 (0)	0.3–0.4 (0.3)	0.5 (0.3)	0.5 (0.3)	49.5 (39)		6.0–7.0 (2.0)	0.5–0.6 (0.2)
B–H, S	8	1.6 (0.4–0.5)	0.5–0.6 (0.3–0.4)	0.8 (0.5)	0.8–1 (0.3)	51–52 (40.5–41)		10–11 (3.5–4.5)	1 (0.3–0.4)
SI2
B, Hg, Hl, R	4	11.2–11.5 (8.1–8.3)	0.6–0.7 (0)	1.2 (0.4)	1.7 (0.8–1)	5.5–5.7 (3.8–4)	16.2–16.6 (11.8–12)	3.3 (0.4–0.5)	1.2 (1.1–1.2)
B–H, S	4	12–15.9 (8.3–9.6)	0.8–1.6 (0.3–0.5)	1.4–2.7 (0.6–1.1)	1.8–2.9 (1.1–1.6)	6.3–8.9 (4–5.3)	16.8–21.7 (11.8–13.6)	3.6–6.1 (0.7–2.7)	1.3–5.8 (1.2–3.2)
B, Hg, Hl, R	8	10–10.6 (6.9–7.1)	0.3 (0.1)	0 (0)	0.5 (0.3)	23–23.5 (16)	47.5–48.5 (36.0–36.5)	2.0 (1.0)	0.3 (0.1)
B–H, S	8	13.6–16.4 (8.9–9.8)	0.4 (0.3)	0 (0)	1.3–1.8 (0.5)	26–29 (18.5–19)	50–55.5 (37.5–38.5)	3.5–4.5 (2.0)	0.5–0.6 (0.3)
SI3
B, Hg, Hl, R	4	4.9–5.5 (3.6)	12–12.5 (8.5–8.6)	9.3–9.9 (6.3–6.5)	12.9–13.8 (8.7–8.8)	1.7–1.8 (0.9)	34.8–35.3 (24.5–24.6)	1.7–1.8 (0.9)	1.7–1.8 (0.9)
B–H, S	4	6.8–10.8 (3.8–5.3)	13.6–17.7 (9.5–11.2)	12–17.1 (7.1–9.4)	15.8–21.4 (9.4–11.7)	2.3–3.9 (1.1–1.4)	36.2–41.7 (25–28.6)	2.3–3.9 (1.1–1.4)	2.3–3.9 (1.1–1.4)

Correction Procedure	s	B1	B2	B3	B4	B5	p₁	FWER	FDR
SC
B, Hg, Hl, R	4	0.5–0.6 (0.2)	0.7 (0.2)	1 (0.4)	0.6 (0.3)	8.3–8.4 (6–6.2)		2.6–2.7 (1.1)	0.7 (0.3)
B–H, S	4	0.6–1.5 (0.2–0.5)	0.9–2.1 (0.5–0.7)	1.1–2.2 (0.4–0.7)	0.8–1.5 (0.3–0.6)	8.7–11.2 (6–7)		3.2–5 (1.2–2)	0.9–1.8 (0.4–0.6)
B, Hg, Hl, R	8	0.3 (0)	0.3 (0)	0.5 (0.3)	0.8 (0.5)	43–44 (37–37.5)		4.5 (1.5)	0.4 (0.1)
B–H, S	8	0.3 (0.1–0.3)	0.8 (0)	0.5 (0.5)	1.5 (0.5)	43–44 (37.5–39)		6 (2.5–3)	0.7 (0.2–0.3)
SI1
B, Hg, Hl, R	4	0.6 (0.4)	1.1–1.2 (0.5)	0.6–0.7 (0.5)	1.1 (0.8)	8.2 (5.2)		3.3–3.5 (2.1)	0.9 (0.6)
B–H, S	4	0.6–0.9 (0.5–0.6)	1.1–1.9 (0.5)	0.6–1.9 (0.5–0.7)	1.1–2.3 (0.8–1.1)	8.2–10.1 (5.3–6.5)		3.3–5.4 (2.1–2.2)	0.9–1.8 (0.6–0.7)
B, Hg, Hl, R	8	0.9–1 (0)	0.3–0.4 (0.3)	0.5 (0.3)	0.5 (0.3)	49.5 (39)		6.0–7.0 (2.0)	0.5–0.6 (0.2)
B–H, S	8	1.6 (0.4–0.5)	0.5–0.6 (0.3–0.4)	0.8 (0.5)	0.8–1 (0.3)	51–52 (40.5–41)		10–11 (3.5–4.5)	1 (0.3–0.4)
SI2
B, Hg, Hl, R	4	11.2–11.5 (8.1–8.3)	0.6–0.7 (0)	1.2 (0.4)	1.7 (0.8–1)	5.5–5.7 (3.8–4)	16.2–16.6 (11.8–12)	3.3 (0.4–0.5)	1.2 (1.1–1.2)
B–H, S	4	12–15.9 (8.3–9.6)	0.8–1.6 (0.3–0.5)	1.4–2.7 (0.6–1.1)	1.8–2.9 (1.1–1.6)	6.3–8.9 (4–5.3)	16.8–21.7 (11.8–13.6)	3.6–6.1 (0.7–2.7)	1.3–5.8 (1.2–3.2)
B, Hg, Hl, R	8	10–10.6 (6.9–7.1)	0.3 (0.1)	0 (0)	0.5 (0.3)	23–23.5 (16)	47.5–48.5 (36.0–36.5)	2.0 (1.0)	0.3 (0.1)
B–H, S	8	13.6–16.4 (8.9–9.8)	0.4 (0.3)	0 (0)	1.3–1.8 (0.5)	26–29 (18.5–19)	50–55.5 (37.5–38.5)	3.5–4.5 (2.0)	0.5–0.6 (0.3)
SI3
B, Hg, Hl, R	4	4.9–5.5 (3.6)	12–12.5 (8.5–8.6)	9.3–9.9 (6.3–6.5)	12.9–13.8 (8.7–8.8)	1.7–1.8 (0.9)	34.8–35.3 (24.5–24.6)	1.7–1.8 (0.9)	1.7–1.8 (0.9)
B–H, S	4	6.8–10.8 (3.8–5.3)	13.6–17.7 (9.5–11.2)	12–17.1 (7.1–9.4)	15.8–21.4 (9.4–11.7)	2.3–3.9 (1.1–1.4)	36.2–41.7 (25–28.6)	2.3–3.9 (1.1–1.4)	2.3–3.9 (1.1–1.4)

NOTE.—p₁, power to correctly detect at least one branch under positive selection. Values for branches under positive selection appear in bold. See legend to table 3.

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