Table 1.

The number of loci found in an SSR search and the number of loci found per mega base pair sequence for each software package in each of two data sets used to highlight the vast potential resources available for researchers who cannot generate their own sequence data to search for SSRs.

	Rhizophora RAD-Seqa		Saltugilia gene captureb
Software package	Total no. of loci	Loci/Mbp sequence	Total no. of loci	Loci/Mbp sequence
GMATo	448,569	39.3	181,223	671.2
MISA	448,746	39.4	181,449	672.0
MSATCOMMANDER	372,436	32.7	151,455	560.9
PAL_FINDER	NA	NA	140,463	520.2
Phobos (Geneious, STAMP)	450,948	39.6	181,616	672.7
SSR Locator	447,185	39.2	180,763	669.5

Note: NA = not applicable.

^a114 million single-end reads (1 × 100); 11.4-Gbp sequence; FASTA file: 12.5 GB.

^b900,000 paired-end reads (2 × 150; 1.8 million total reads); 270-Mbp sequence; FASTA file: 275 MB.