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)表S4 DXB与D62B中的有效可比较简单序列重复位点（Simple Sequence Repeats, SSR）。每个样本中的有效SSR位点，指测序读段（reads）覆盖度不低于10条且滑动比率低于0.5的SSR位点。两个样本间的可比较SSR，指在两个样本中均为有效的SSR位点。基因型指该SSR位点的主要等位基因型，以重复单元加重复次数的形式表示，例如CGC4。覆盖度指支持该等位基因型的测序读段数量。滑动比率指次要等位基因型与主要等位基因型的测序读段数之比。星号（*）代表两个样本间的差异SSR；>5、0和1–5分别代表两个样本间差异SSR的长度差值。长度差值小于5bp的SSR，通过电泳技术几乎无法区分。国家标准名称列代表中国农业行业标准NY/T 1433–3014中规定的差异SSR名称。MSU ID为分布有该差异SSR的基因的基因符号。基因区域列代表差异SSR在基因内部的位置，例如非翻译区（Untranslated Region, UTR）。（XLSX格式，文件大小40 KB）