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Cheilinus undulatus is a critically endangered ocean fish, which is also a higher level predator in coral reef.The complete mitochondrial genome of Cheilinus undulatus has been sequenced by high-throughput sequencing technology.According to the results, the mitochondrial genome of Cheilinus undulatus is 17,184 bp long and consists of 38 protein-coding genes, 2 rRNA genes, 22 tRNA genes and a control region.The nucleotides compositions of the light strand are 27.62% of A, 24.82% ofT, 16.66% of G and 30.90% of C.With the exception of ND6 and 8 tRNA genes, all other mitochondrial genes are encoded on the heavy strand.C.undulates mitochondrial genome contains a 568bp sequences that is a non-coding DNA domain.No homology sequence had been found through BLAST in GenBank.The sequences are probably characteristic species marker of C.undulates.