Additional file 7: of Characterization of phenotypic variation and genome aberrations observed among Phytophthora ramorum isolates from diverse hosts

Details of physical linkage of genome scaffolds and inferred haplotype combinations at each scaffold. Two datasheets are in the file. Datasheet “31 Scaffolds”: CCNVs found in the largest 31 scaffolds are shown. A and B denote homologous haplotypes at each scaffold. Inferred haplotype combinations are shown when those are deviated from a heterozygous disomic haplotype combination, AB. AAB, AA, and A denote trisomy, cnLOH, and monosomy, respectively. AB + XXX indicates a mixture of AB disomy and trisomy with an unknown haplotype combination. HK in CCNV type indicates a heterokaryon. Scaffolds 5, 8, 14, 15, and 20 are likely physically linked, whereas each of scaffolds 9 and 10 do not link to any of the 31 largest scaffolds in the current assembly. Datasheet “Fig. 6 SNPs”: Three representative SNPs located near the left border, center and right border of each scaffold in combination with read coverage were used to infer haplotype combinations presented in Fig. 6. (XLSX 23 kb)

本数据集涵盖基因组支架（scaffold）的物理连锁信息，以及各基因组支架的推定单倍型组合详情。该文件包含两张数据表：数据表"31个支架"：展示了最大的31个基因组支架中检出的拷贝数变异（CCNV）。A与B分别代表各基因组支架上的同源单倍型。当推定的单倍型组合偏离杂合二体式组合AB时，将展示该推定单倍型组合。其中AAB、AA、A分别代表三体性（trisomy）、拷贝数中性杂合性缺失（cnLOH）与单体性（monosomy）。AB + XXX则代表AB二体与单倍型组合未知的三体性的混合情况。CCNV类型标注中的HK代表异核体（heterokaryon）。基因组支架5、8、14、15与20大概率存在物理连锁；而在当前的基因组组装结果中，基因组支架9与10均未与其余31个最大的基因组支架发生连锁。数据表"图6 单核苷酸多态性（SNPs）"：该数据表选取了位于各基因组支架左边界、中心与右边界附近的3个代表性单核苷酸多态性位点，并结合测序读段覆盖度，用于推定图6中展示的单倍型组合。（XLSX 格式，大小23 KB）