Table 3 Number and percentage of polymorphisms’ effects in X. couchianus and X. hellerii compared with the X. maculatus reference genome

Downstream

1,542,508

12.06

1,942,329

11.71

Codon InDel

2467

0.02

2,863

0.02

Exon

211

0.00

230

0.00

Intergenic

5,007,423

39.16

6,594,737

39.79

Intron

4,103,306

32.09

5,358,720

32.33

Non synonymous coding

84,752

0.66

101,178

0.61

Splice site

35,823

0.29

44,523

0.28

Loss of start codon

116

0.00

133

0.00

Gain of stop codon

805

0.01

945

0.01

Loss of stop codon

314

0.00

445

0.00

Synonymous coding

140,717

1.10

174,526

1.05

Upstream

1,564,218

12.23

1,937,840

11.91

3'-UTR

243,474

1.90

304,241

1.84

5'-UTR

51,921

0.41

64,017

0.39

Total

12,778,055^a

100.00

16,526,727^a

100.00