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Table 3 SSR summary statistics for whole and reference transcriptomes

From: De novo assembly, characterization and functional annotation of Senegalese sole (Solea senegalensis) and common sole (Solea solea) transcriptomes: integration in a database and design of a microarray

Type of SSR

S. senegalensis

S. solea

Whole transcriptome

266,434

316,388

  Di-nucleotide

107,828

126,260

  Tri-nucleotide

96,076

114,198

  Tetra-nucleotide

39,102

44,118

  Others

23,428

31,812

Reference transcriptome

49,955

67,610

  Di-nucleotide

16,405

22,371

  Tri-nucleotide

22,394

29,764

  Tetra-nucleotide

6,935

8,829

  Others

4,221

6,646

Blast-based orthologs

12,418

18,486

Species-specific SSR1

1,273

4,803

Conserved SSR

11,145

13,683

  Same repeat motif2

6,596

6,772

  Different repeat motif

4,549

6,911

  1. Total number of SSRs and frequency according to their repeat motif are indicated.
  2. (1)SSRs present in one species but not in orthologs of the other species.
  3. (2)Exactly the same SSR repeat motif was found in both orthologs; in a few cases, SSR occurs once in one ortholog and twice in the other.
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BMC Genomics

ISSN: 1471-2164

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