Assay information for the two TaqMan minor-groove binding dual-probe assays used in this study.

aBranch targeted on the phylogenetic tree (see Fig. S2).bAssay name given as the MST locus [7] containing the SNP target of interest followed by the base position of the SNP within the allele alignments for that locus (see also Fig. S1).cBase call in the whole genome sequence of Nine Mile phase I (RSA493) is listed first, followed by the alternate allele.dRSA493, TaqMan-MGB probe that is specific to the Nine Mile phase I (RSA493) allele; Alt, TaqMan-MGB probe that is specific to the alternate allele.eLower case nucleotides in the probe sequences indicates the position and base of the target SNP; probe sequences also show the fluorescent dye label on the 5′ end and the minor groove binder on the 3′ end.a. 以系统发育树的目标分支为研究对象（参见补充图S2）。 b. 检测名称以MST位点[7]命名，该位点包含目标单核苷酸多态性（Single Nucleotide Polymorphism, SNP）靶点，并标注该SNP在该位点等位基因比对序列中的碱基位置（另参见补充图S1）。 c. 首先列出九英里株I型（RSA493）全基因组序列中的碱基识别结果，随后列出替代等位基因。 d. RSA493：特异性针对九英里株I型（RSA493）等位基因的TaqMan-MGB探针；Alt：特异性针对替代等位基因的TaqMan-MGB探针。 e. 探针序列中的小写核苷酸代表目标SNP的位置与对应碱基；探针序列同时标注了5'端的荧光染料标记与3'端的小沟结合物（minor groove binder, MGB）。