I have predicted some SSR repeat on the gene of interest using SSRLocator program, which the result creates a question for me. Please consider the below sequence, which is part of gene sequence of interest (coding sequence):
GGTGATGAGGTAGAGGAAGAGGCTGAGGAACCCTACGAAGAAGCCACAGA GAGAACCACCAGCATTGCCACCACCACCACCACCACCACAGAGTCTGTGG AAGAGGTGGTTCGAGAGGTGTGCTCTGAACAAGCCGAGACGGGGCCGTGC
The program reported CCA motif as a repeat; since this repeat located on CDS, I expected to find the related amino acid track (prolin), but I observed the Threonine track in the corresponding protein sequence.Threonine is coded by ACC. Now I would like to know which motif is really a repeat, CCA or ACC. Is it possible to consider CCA as a repeat, but just on the transcript level not protein sequence or the real repeat is ACC and the software didn't work well here? Please share me any your opinion in this regard.
Thanks so much for your help and participation.