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Table 6 Summary of putative SNP identification from the catfish expressed short reads assembly

From: Generation of genome-scale gene-associated SNPs in catfish for the construction of a high-density SNP array

 

Channel catfish

Blue catfish

All catfish

Contigs under analysis

523,815

525,428

526,099

Total SNPs

2,030,410

2,497,806

4,236,135

   Transitions

1,311,220

1,616,477

2,751,244

   Transversions

719,190

881,329

1,484,891

SNP/100 bp

1.6

1.8

3.0

  1. Putative SNPs include all base variations involved in the sequence assemblies with at least four sequences present at the SNP position with minor allele sequences represented at least twice. All catfish represents both intra-specific and inter-specific SNPs. Note that the total SNPs from all catfish assembly is fewer than the sum of total SNPs from channel catfish and blue catfish due to shared SNP positions in the two catfish species.
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BMC Genomics

ISSN: 1471-2164

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