Table 1 Over-represented and under-represented functional annotations within the different duplicate sets

Over-represented in set of WGDs

   0004672

Protein kinase activity

127

52

2.7 × e^-12

<0.001

   0003735

Structural constituent of ribosome

217

72

3.4 × e^-11

<0.001

   0016773

Phosphotransferase activity, alcohol group as acceptor

171

61

3.9 × e^-11

<0.001

   0016301

Kinase activity

197

67

4.9 × e^-11

<0.001

   0004674

Protein serine/threonine kinase activity

69

32

1.1 × e^-09

<0.001

   0016772

Transferase activity, transferring phosphorus-containing groups

294

78

4.3 × e^-07

<0.001

   0016538

Cyclin-dependent protein kinase regulator activity

23

14

8.8 × e^-07

<0.001

   0005198

Structural molecule activity

338

83

5.6 × e^-06

0.001

   0030234

^Enzyme regulator activity

180

50

1.4 × e^-05

0.002

   0019887

Protein kinase regulator activity

44

18

4.3 × e^-05

0.004

   0016740

Transferase activity

641

135

4.6 × e^-05

0.004

   0005083

Small GTPase regulator activity

47

18

1.2 × e^-04

0.018

   0019207

Kinase regulator activity

47

18

1.2 × e^-04

0.018

   0035251

UDP-glucosyltransferase activity

13

8

2.0 × e^-04

0.027

   0003704

Specific RNA polymerase II transcription factor activity

45

17

2.2 × e^-04

0.029

   0016791

Phosphoric monoester hydrolase activity

88

27

2.4 × e^-04

0.029

   0030508

Thiol-disulfide exchange intermediate activity

8

6

2.9 × e^-04

0.042

Under-represented in set of WGDs

   0008757

S-adenosylmethionine-dependent methyltransferase activity

62

0

2.7 × e^-05

<0.001

   0016741

Transferase activity, transferring one-carbon groups

84

2

8.7 × e^-05

0.003

   0015078

Hydrogen ion transporter activity

54

0

1.1 × e^-04

0.006

   0008168

Methyltransferase activity

82

2

1.2 × e^-04

0.006

   0031202

RNA splicing factor activity, transesterification mechanism

51

0

1.8 × e^-04

0.008

   0016251

General RNA polymerase II transcription factor activity

62

1

3.4 × e^-04

0.014

Over-represented in set of SSDs

   0051119

Sugar transporter activity

25

22

2.7 × e^-20

<0.001

   0015144

Carbohydrate transporter activity

30

23

1.5 × e^-18

<0.001

   0015145

Monosaccharide transporter activity

21

18

2.3 × e^-16

<0.001

   0015149

Hexose transporter activity

21

18

2.3 × e^-16

<0.001

   0015578

Mannose transporter activity

15

15

3.0 × e^-16

<0.001

   0005353

Fructose transporter activity

15

15

3.0 × e^-16

<0.001

   0017111

Nucleoside-triphosphatase activity

243

65

7.3 × e^-16

<0.001

   0005355

Glucose transporter activity

18

16

3.5 × e^-15

<0.001

   0016818

Hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides

264

67

4.4 × e^-15

<0.001

   0016462

Pyrophosphatase activity

264

67

4.4 × e^-15

<0.001

   0016817

Hydrolase activity, acting on acid anhydrides

264

67

4.4 × e^-15

<0.001

   0005215

Transporter activity

410

84

6.7 × e^-13

<0.001

   0003824

Catalytic activity

1885

252

7.3 × e^-13

<0.001

   0016887

ATPase activity

185

46

2.5 × e^-10

<0.001

   0016787

Hydrolase activity

707

109

2.1 × e^-08

<0.001

   0016614

Oxidoreductase activity, acting on CH-OH group of donors

75

24

3.2 × e^-08

<0.001

   0016616

Oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor

67

22

7.2 × e^-08

<0.001

   0004386

Helicase activity

83

24

2.8 × e^-07

<0.001

   0042626

ATPase activity, coupled to transmembrane movement of substances

58

19

5.9 × e^-07

<0.001

   0043492

ATPase activity, coupled to movement of substances

58

19

5.9 × e^-07

<0.001

   0016820

Hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances

58

19

5.9 × e^-07

<0.001

   0016491

Oxidoreductase activity

262

49

1.2 × e^-06

<0.001

   0015075

Ion transporter activity

145

32

2.6 × e^-06

<0.001

   0008324

Cation transporter activity

124

28

6.9 × e^-06

<0.001

   0042623

ATPase activity, coupled

125

28

8.2 × e^-06

0.001

   0018456

Aryl-alcohol dehydrogenase activity

8

6

1.5 × e^-05

0.002

   0015294

Solute:cation symporter activity

8

6

1.5 × e^-05

0.002

   0003924

GTPase activity

54

16

2.0 × e^-05

0.002

   0005354

Galactose transporter activity

6

5

3.9 × e^-05

0.009

   0015293

Symporter activity

9

6

4.3 × e^-05

0.012

   0005537

Mannose binding

4

4

7.6 × e-05

0.017

   0015238

Drug transporter activity

15

7

2.0 × e^-04

0.035

   0003678

DNA helicase activity

35

11

2.2 × e^-04

0.039

Under-represented in set of SSD

   0003676

Nucleic acid binding

494

12

1.8 × e^-10

0

   0005488

Binding

1034

58

1.1 × e^-06

0

   0003723

RNA binding

231

4

1.6 × e^-06

0

   0003677

DNA binding

220

6

8.0 × e^-05

0.002

   0030528

Transcription regulator activity

326

14

3.3 × e^-04

0.006

   0016779

Nucleotidyltransferase activity

80

0

3.7 × e^-04

0.009