Morphological, Simple Sequence Repeats SSR allele diversity and association mapping were performed using 29 morphological traits and 15 SSR primers in 58 cassava accessions. The percentage of contribution of each trait to total genetic variation were estimated through PCA analysis, first three principal components were accounted for 68% of the total variation in which PCA1 (48.1), PCA2 (12.7%) and PCA3 (7.4%) variation respectively. In SSR analysis, a total of 71 alleles were generated and out of which 63 allele were found to be polymorphic and the level of polymorphism was 86.56%. Morphological descriptors revealed 6 clusters of accessions and While the SSR marker revealed 9 distinct clusters of accessions. The varieties; CO1, CO2, CO3 and CO (TP) 4 from TNAU and CTCRI varieties (Sree Prakash and Sree Padmanabha) were allele specific to SSRY324. The SSR allele indicated the existence of a wide genetic diversity among the cassava accessions compare to morphological data.