Since morphemes are the smallest unit of meaning in Korean, it is necessary to develop an accurate morphemes analyzer to improve the performance of the Korean language model. However, most existing analyzers present morpheme analysis results by learning word unit tokens as input values. However, since Korean words are consist of postpositions and affixes that are attached to the root, even if they have the same root, the meaning tends to change due to the postpositions or affixes. Therefore, learning morphemes using word unit tokens can lead to misclassification of postposition or affixes. In this paper, we use morpheme-level tokens to grasp the inherent meaning in Korean sentences and propose a morpheme analyzer based on a sequence generation method using Transformer. In addition, a user dictionary is constructed based on corpus data to solve the out-of-vocabulary problem. During the experiment, the morpheme and morpheme tags printed by each morpheme analyzer were compared with the correct answer data, and the experiment proved that the morpheme analyzer presented in this paper performed better than the existing morpheme analyzer.