Objective The high density SNP genotype data were obtained by whole genome sequencing (WGS), the accuracy of genotype was evaluated, and this study is intended to establish the method of using whole genome sequencing data for SNP kinship relationship prediction.Methods The samples were sequenced at a depth of 30× through the MGISEQ-200RS sequencing platform, and 645 199 autosomal SNP in the Wegene GSA DNA microarray were extracted from the sequencing data. After quality control and filtering, the prediction relationship was calculated and predicted by IBS/IBD algorithm, and the ancestry of the samples was analyzed.Results The coincidence rate between SNP genotype extracted from sequencing data and Wegene GSA genotype is more than 99.62%.The SNP genotype obtained by sequencing can predict kinship from level 1 to level 4 by using IBS algorithm, and confidence interval accuracy of level 4 kinship prediction is 100%. Using IBD algorithm, the confidence interval accuracy of level 1 to 7 kinship prediction is 100%. The pedigree inference ability of SNP obtained from high-depth whole genome sequence data is not significantly different from that of DNA microarray prediction.At the same time, the use of whole genome sequencing data for ancestry inference is consistent with the survey results.Conclusion The whole genome resequencing technique can be applied to SNP genealogy inference to provide clues for case detection.