Abstract：The SSR loci which exist in 42 362 Unigenes in Elsholtzia?densa transcriptome were detected by MISA softwar，additionally，the structure and distribution?characteristics were analysed. The results indicated that：A total of 17 564 SSR repeating?sequences have been searched，which were distributed on 11 903 Unigenes，and the frequency?of?occurrence of SSR loci was 28.10% with an average of one SSR locus per 3 200 bp. The dominant repeat motifs in Elsholtzia?densa transcriptome were mono-nucleotide，di-nucletide and tri-nucleotide，accounting for 97.27% of the total SSR and，among the three dominant motif types, the number of motif type formed by mono-nucleotide was the largest with a total of 169 motif types (51.22%)，the (A/T)n in mono-nucleotide repeats and (AG/CT)n in di-nucleotide repeats，were dominating motifs，accounting for 50.60% and 12.17%，respectively. The mono-nucleotide motif was the type which repeated the most (49)，the repetition times were between 10 and 66，and the difference of the SSR number was widely showed in the same motif with different repetition，the number of SSR was declined as the increase of repetition times.The length of SSR was concentrate?on a range from 12 to 30 bp which contained a total of 8 190 SSR loci，accounting for 95.60% of the total SSR in di-nucletide to six nucleotide motifs，and the number of highly?polymorphic SSR sequences was 1 589 (≥20 bp) which accounting for 18.54% of the total SSR. The SSR sequences showed higher potential?polymorphism and greater?value?for?development，based on the results of multiple studies，such as occurrence frequency，distribution density，motif repetition and length variation. This study laid a theoretical foundation for the development of SSR primers in a follow-up?studies for Elsholtzia?densa.