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Table 4 SNP polymorphic rates as a function of contig size and minor sequence allele frequency

From: Quality assessment parameters for EST-derived SNPs from catfish

# of sequences in the contig

# Successful Loci

Sequence ratio*

Minimal Minor Sequence Frequency

Polymorphic rate (%)

2

24

1:1

50%

33.3

3

37

1:2

33.3%

45.9

4

26

1:3

25%

15.4

Subtotal

87

  

33.3*

4

44

2:2

50%

70.5

5–6

60

2:3 & 2:4 & 3:3

33.%

60.0

7–8

17

3:4 & 3:5 & 4:4

37.5%

64.7

9–12

21

4:5 & 4:6 & 4:7 & 4:8 & 5:5 & 5:6 & 5:7 & 6:6

33.3%

76.2

>12

37

5:7 & 6:6 & 5:8 & 6:7......... & 12:57

17.4%

89.2

Subtotal

179

  

70.9*

Total

266

  

58.6*

  1. *Average polymorphic rate in respective categories.