Table 6

Quality assessment of the filtered putative SNPs identified from the catfish ESTs based on the number of sequences per contig and the sequence frequencies of the minor alleles

Number of sequences in the contig

Number of contigs with SNPs

Number of SNPs

SNP rate (per kb)


2 (1:1)

16,567

96,565

5.2

3 (2:1)

8,374

86,686

10.8

4 (3:1)

5,136

71,155

13.0

Subtotal

30,077

254,406

8.0

4 (2:2)

1,528

5,008

0.9

5-6 (2)

3,099

13,725

2.0

7-8 (3)

805

2,659

0.7

9-12 (4)

730

2,376

0.5

13-20 (5)

629

2,307

0.6

21-30 (5)

628

2,864

1.3

31-50 (6)

730

5,052

3.0

51-100 (6)

542

6,379

6.0

101-500 (6)

316

6,580

13.4

>500

31

1,644

15.0

Subtotal

9,038

48,594

1.6

Total

39,115

303,000

7.7


Wang et al. Genome Biology 2010 11:R8   doi:10.1186/gb-2010-11-1-r8

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