Additional file 5: of Application of high-throughput amplicon sequencing-based SSR genotyping in genetic background screening

Table S4 Valid and comparable SSRs in DXB and D62B. The valid SSR loci in each sample are those SSR loci covered by at least 10 reads and with stutter ratios lower than 0.5. Comparable SSRs between two samples are those SSR loci that are valid in both samples. The genotype is the major genotype of the SSR locus, represented as the repeat unit with the repeat number, e.g., CGC4. The coverage represents the number of reads that support the genotype. The stutter ratio represents the ratio of the read numbers of the minor and major genotypes. Asterisks represent the differential SSRs between two samples; > 5, 0 and 1–5 represent the length differences of differential SSRs between two samples. SSRs with length differences less than 5 bp were hardly distinguished by electrophoresis. The name in the national standard represents the name of the differential SSR in the National Agricultural Standard of China No. NY/T 1433–3014. The MSU ID shows the gene symbols of the genes in which the different SSRs are distributed. The region of genes represents the region of the differential SSR within the gene, e.g., the UTR. (XLSX 40 kb)