Additional file 2 of Integrating parental genomes to reduce reference bias and identify intramuscular fat genes in Qinchuan Black pigs

Additional file 2: Table S1. Summary information for a total of 108 samples. Table S2. Summary of all primers. Table S3. Statistical summary of the sequences generated by the genome assembly. Table S4. Summary of reference genome and pseudomolecules parental genomes of QCB pig. Table S5. Summary of repetitive sequences in the reference genome and parental genomes of the QCB pig. Table S6. Using Sscrofa 11.1 as the reference genome, this is a summary statistic of INDELs and SVs identified in the parental genomes of Qinchuan Black pigs. Table S7. Summary of the number of variants obtained by the two genotyping methods. Table S8. Summary of genotype frequency statistics. Table S9. Summary of variant types after annotation. Table S10. Summary of candidate genes identified for intramuscular fat. Table S11. Summary of genes annotated by EigenGWAS.