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Table 5 SSRs in 454 ESTs.

From: Transcriptome sequencing in an ecologically important tree species: assembly, annotation, and marker discovery

Type of SSR repeat Reference based assembly De novo assembly of remaining reads Total
Di 1,267 (54) 10,366 (1,487) 11,633 (1,541)
Tri 551 (520) 2,480 (1,748) 3,031 (2,268)
Tetra 23 (19) 397 (192) 420 (211)
Total 1,841 (593) 13,243 (3,427) 15,084 (4,020)
  1. Numbers of di-, tri-, and tetranucleotide simple sequence repeats (SSRs) occurring in contigs from both the reference-based and de novo assemblies. In parentheses following the number of loci identified are the number of potentially amplifiable loci for which PCR primers were designed in BatchPrimer3 [42] with stringent criteria (see Additional file 1: Supplemental Table S1).