Transcriptome characterization and high throughput SSRs and SNPs discovery in Cucurbita pepo (Cucurbitaceae)

Table 3 Simple Sequence repeats (SSRs) statistics

di-nucleotide repeat	Number of di-SSRs	%
AG	225	76
AT	60	20
AC	11	4
Total	296	100
tri-nucleotide repeat	Number of tri-SSRs
AAG	699	50
AGC	135	10
ATC	116	8
AGG	99	7
AAT	89	6
Other tri-nucleotide repeats
(% ≤ 6 each one)
AAC, ACC, ACG,CCG, ACT	249	19
Total	1387	100
Tetra-nucleotide repeat	Number of tetra-SSRs	%
AAAT	33	13
AAAG	31	12
AATG	24	10
AATC	21	8
ATCC	18	7
AAAC	17	7
ACAT	16	6
Other tetranucleotide repeats
(% ≤ 6 each one)
ACTC,AACC,AAGG,ACAG,AGGC,AACG,AACT,	92	37
AATT,AGCC,AGCG,AAGC,AGGG,AGAT,ACGG, AGCT,AAGT,ACCC, ACCT
Total	252	100

The number of di-, tri- and tetra-nucleotide repeats identified in the Cucurbita unigene dataset is shown for the complete set of putative SSRs.