MOESM2 of Multiple selective sweeps of ancient polymorphisms in and around LTα located in the MHC class III region on chromosome 6

Additional file 2 : Table S1. contains the frequency of alleles at polymorphic sites across LTα and 5′ regulatory region in global populations, and estimates of per site FST. Tables S2. gives summary statistics for the 5′ regulatory region only. Table S3. lists the observed Tajima’s D (DT) statistics for the LTα gene and their corresponding P-values under different scenarios of population growth. Table S4. shows the observed Fay and Wu’s H (H) statistics for the LTα gene and their corresponding P-values under different scenarios of population growth. Table S5. lists the observed DT statistics for the 5′ regulatory region and their corresponding P-values for different scenarios of population growth. Table S6. contains the observed H statistics for the 5′ regulatory region and their corresponding P-values under different scenarios of population growth. Table S7A. presents haplotype frequencies in global populations. Table S7B. lists the polymorphic sites where the highest-frequency haplotypes in the network differ from one another and also indicates the alleles (on these haplotypes) that are shared with Neandertal and Denisovan genomes. Table S8. presents the frequencies of common haplotypes in non-African populations. Table S9. shows the frequencies of common haplotypes in African populations. Table S10. gives the genomic coordinates for markers in the LD plots (spanning ~9.64 kbs) in Fig. 3 and in Additional file 1: Figure S1. Table S11. gives the genomic coordinates for markers in the LD plots (spanning ~35.5 kbs) in Additional file 1: Figure S2. Table S12. lists outlier standardized |iHS| and |nSL| scores for SNPs in each population. Table S13. presents the inferred ages of mutations across LTα and the 5′ regulatory region.