Table 1 Assembly and annotation metrics of Amoebophrya A25, A120, and AT5 genomes, of the Symbiodiniaceae Breviolum minutum (Bmin), Fugacium kawagutii (Fkav), S. microadriaticum (Smic), and for Perkinsus marinus (Pmar)

 Number of scaffolds

557

50

2351

30,040

21,899

9695

17,897

 Cumulative size (Mb)

116

115.5

87.7

935

609

808

87

 Scaffold N50 / L50

1.082 Mb / 35

9.243 Mb / 5

83.9 kb / 298

381 kb / 772

125 kb / 1448

574 kb / 420

158 kb / 124

 Scaffold N90 / L90

423 kb / 106

1.464 Mb / 18

19.6 kb / 1095

109 kb / 2477

31 kb / 5103

146 kb / 1442

1.2 kb / 9284

 Scaffold max. size

3.013 Mb

16.512 Mb

537 kb

1.914 Mb

811 kb

3.145 Mb

1.8 Mb

 %N

2.27

1.41

2.25

3.4

0.9

7.7

0.64

 %GC

47.8

51.2

55.92

45.5

43.5

50.5

47.4

 Number

28,091

26,441

19,925

31,520

32,803

29,728

23,654

 Density (genes/Mb)

247.78

232.18

227.2

39.4

68.78

60.8

273.1

 Average length (bp)

2965

3482

2782

8836

10,069

9281

1581

 Median length (bp)

1890

2442

1803

2039

7899

7255

1038

 Number

117,411

121,327

67,639

150,118

985,369

1,072,528

133,410

 Av. length (bp)

475

541

578

256

99

109

177

 Median length (bp)

235

265

319

81

53

51

112

 Longest (bp)

79,744

44,016

14,772

11,064

14,818

13,755

16,293

 Average number of exons / gene

4.18

4.59

3.39

4.07

20.96

21.8

5.64

 % GC

51.9%

56.3%

54.7%

52.7%

50.8%

56.9%

50.95%

 Number

81,610

90,882

47,714

113,268

938,355

1,023,342

109,756

 % of spliced genes

69.8%

66.9%

71.3%

64.1%

95.4%

98.6%

72.4%

 Average length (bp)

345

335

337

893

517

505

124

 Median length (bp)

208

247

228

501

297

231

49

 Longest (bp)

90,415

35,152

3556

9977

88,176

177,825

11,034

 % GC

44%

46.5%

49.4%

44.5%

41.8%

47.1%

43.4%

 % of introns with GT-AG splice sites

34.02%

30.41%

99.98%

65.38%

48.23%

0.26

99.3%

 % of introns with GC|GA-AG splice sites

0.45%

2.95%

0.02%

25.30%

51.77%

73.95%

0.7%

 % of introns with other splices sites

65.53%

66.64%

0%

9.32%

0%

0.05%

0%

 Average coding size (bp)

1337

1773

1962

1041

1916

2375

4839

 Genome coverage of coding bases, % in brackets

32.4%

40.6%

44.6%

4.1%

13.1%

14.4%

26.4%

 Number of genes belonging to families, % in brackets

7074 (25.2)

7428 (28.1)

ND

20,374 (55.3)

25,809 (61.5)

32,796 (66.8)

18,258 (77.2)

 Avg. of genes in a family

3.5

3.6

ND

6.7

5.9

7

ND

 Max. of genes in a family

171

157

ND

889

703

831

ND

 Number of proteins with at least one significant match

8360

8690

4366

29,720

13,813

5538

ND

 Number of proteins with KO assignation

5774 (21%)

5983 (23%)

2018

14,926 (40%)

10,954 (65%)

3008 (54%)

ND

 Number of proteins with BRITE assignation

5774

5856

14,764

10,755

2960

ND

 Number of proteins of with an IPR domains

8444

9054

7404

16,895

13,541

4059

ND

 Number of proteins with UniProt matches (%)

9101 (32.4)

9404 (35.6)

ND

ND

ND

ND

ND