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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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