Table 3 Comparison of prevalent compositionally biased regions for the whole proteome, translated intergenic DNA, known proteins, hypothetical proteins and dORFs in budding yeast

P_bias < 1 × 10^-5

P_bias < 1 × 10^-9

P_bias < 1 × 10^-13

S

37,006

S

18,502

S

10,630

E

21,163

E

9,147

T

5,900

L

18,064

T

6,836

E

4,704

K

17,067

N

6462 (9.3)

Q

3,924 (10.4)

N

15,577 (7.4)

Q

5,212 (7.5)

N

3,745 (10.0)

A

13,974

K

4,280

P

2,049

G

12,927

P

3,831

K

1,910

D

10,004

L

3,512

D

1,292

P

9,892

D

3,176

G

961

T

9,866

A

2,473

A

916

F

8,934

G

2,115

L

554

Q

8,689 (4.1)

C

810

C

256

I

6,939

F

764

R

204

R

5,333

H

662

H

195

V

4,121

R

509

M

163

C

3,293

I

264

F

94

Y

2,960

Y

262

V

90

H

2,645

M

245

Y

33

W

2,009

V

150

W

0

M

850

W

0

I

0

Total

211,313

Total

69,212

Total

37,620

(b) Translated igDNA*

P_bias < 1 × 10^-5

P_bias < 1 × 10^-9

P_bias < 1 × 10^-13

F

28,949

F

5,692

F

1,211

C

10,074

C

1,280

H

602

K

7,800

H

908

V

490

R

7,551

V

814

T

448

Y

6,450

K

753

C

377

L

6,283

Y

690

L

366

I

3,789

T

681

Y

282

H

3,157

P

675

P

243

P

1,650

R

594

S

222

S

1,613

L

576

K

186

V

1,566

S

380

I

185

T

1,299

G

380

R

178

G

1,136

I

353

N

173 (3.2)

N

798 (0.9)

W

299

G

166

W

746

N

242 (1.7)

W

98

Q

498 (0.6)

Q

125 (0.9)

Q

51 (1.0)

M

282

E

85

E

39

A

268

M

26

D

16

E

241

D

16

M

15

D

16

A

0

A

0

Total

84,166

Total

14,569

Total

5,348

(c) Known yeast proteins^†

P_bias < 1 × 10^-5

P_bias < 1 × 10^-9

P_bias < 1 × 10^-13

S

27,539

S

15,328

S

9,819

E

17,519

E

8,074

T

5,900

L

13,928

N

5,716 (9.9)

E

4,289

K

13,785

T

5,413

N

3,551 (11.9)

N

12,854 (7.7)

Q

4,520 (7.8)

Q

3,348 (11.3)

A

12,482

K

3,653

K

1,723

G

11,783

L

2,864

P

1,669

D

1,934

L

595

P

170

P

1,883

P

453

G

62

Q

7,299 (4.4)

A

2,434

G

899

P

7,045

G

1,969

L

451

F

6,154

C

608

C

207

I

5,495

H

530

H

162

R

3,973

R

447

R

155

V

3,415

F

443

M

113

C

2,400

I

264

F

78

Y

2,158

Y

218

V

0

H

1,536

M

195

Y

0

W

1,484

V

60

W

0

M

656

W

0

I

0

Total

166,920 (13)

Total

57,938 (38)

Total

33,070 (19)

(d) Hypothetical yeast proteins^†

P_bias < 1 × 10^-5

P_bias < 1 × 10^-9

P_bias < 1 × 10^-13

S

8,621

S

2,958

T

1,240

L

3,905

T

1,423

S

772

E

3,630

E

1,073

Q

576 (13.7)

K

3,043

Q

680 (6.8)

E

415

F

2,747

N

664 (6.6)

D

262

N

2,506 (6.4)

K

602

N

194 (4.6)

T

2,050

D

600

K

187

D

1,934

L

595

P

170

P

1,883

P

453

G

62

A

1,386

F

321

V

55

I

1,267

C

202

M

50

R

1,264

G

146

L

50

Q

1,171 (3.0)

H

106

R

49

G

882

R

62

C

49

C

863

V

55

Y

33

H

528

M

50

H

33

W

514

Y

44

F

16

Y

512

A

14

A

0

V

389

V

0

W

0

M

179

W

0

I

0

Total

39,274 (16)

Total

10,048 (221)

Total

4,213 (150)

(e) dORFs

P_bias < 1 × 10^-5

P_bias < 1 × 10^-9

P_bias < 1 × 10^-13

R

459

R

254

R

254

H

307

L

204

L

204

S

288

T

138

H

122

G

271

Q

129 (11.0)

T

120

L

248

H

122

C

99

Q

225 (6.8)

C

99

Q

74 (8.3)

T

208

S

82

N

23 (2.6)

N

172 (5.2)

P

72

A

0

F

168

Y

50

D

0

C

163

N

23 (2.0)

E

0

V

151

A

0

F

0

A

149

D

0

G

0

D

111

E

0

I

0

I

98

F

0

K

0

P

84

G

0

P

0

Y

67

I

0

S

0

E

45

K

0

V

0

K

37

M

0

Y

0

W

23

V

0

W

0

M

14

W

0

M

0

Total

3,288

Total

1,173

Total

896