SAA and Genotype Data

This excel file contains the genotypic data for the SAA1A SNP for cheetahs. Fixed factors and individual SAA concentrations are also provided

Additional file 2 of Genomic legacy of the African cheetah, Acinonyx jubatus

Supplemental tables. Table S1. Sequenced cheetah reads for de novo genome assembly. Table S2. Re-sequenced cheetah reads for population analyses. Table S3. Estimated cheetah genome size. Table S4. Cheetah genome assembly information. Table S5. Reference-assisted assembly of cheetah chromosomes. Table S6. RepeatMasker results for transposable elements in carnivore genomes. Table S7. Total length of repeat regions in cheetah. Table S8. Tandem repeats in five carnivore genomes. Table S9. Complex tandem repeat families. Table S10. Protein-coding gene annotation. Table S11. Non-coding RNA annotation. Table S12. Nuclear mitochondrial genes. Table S13. Lengths of cheetah synteny blocks. Table S14. Cheetah rearrangements. Table S15. Called SNV statistics. Table S16. SNV effects by impact. Table S17. SNV effects by functional class. Table S18. SNV effects by genomic region. Table S19. SNV locations relative to genes. Table S20. SNV distribution in cheetah genome. Table S21. SNV distribution in tiger genomes. Table S22. SNV locations and effects in coding genes of Felidae genomes. Table S23. SNV counts in genes in domestic cat and tigers. Table S24. SNV counts in genes in cheetahs. Table S25. Nucleotide diversity in mitochondrial genomes of mammals. Table S26. Nucleotide diversity in MHC class I and II genes. Table S27. Demographic models and their log-likelihood values. Table S28. Population data by DaDi. Table S29. Reproductive system genes with identified function. Table S30. Filtration of cheetah reproduction system genes. Table S31. Nucleotide diversity of masked assemblies. Table S32. Statistics on autosomal segmental duplications. (PDF 127 kb