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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

From: Assembly of 500,000 inter-specific catfish expressed sequence tags and large scale gene-associated marker development for whole genome association studies

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