Fig. 1

a Pipeline for calling single nucleotide variants (SNVs) using fastq reads from the NCBI SRA database and BWA, Samtools, and GATK as the main tools; b calculation of the number of NFAA (nearly fixed alternative allele, AA ≥ 0.95) sites for Bos taurus taurus and Bos taurus indicus sequences aligned to a specific reference genome. We carried out the work flows twice using ARS_UCD1.2 and UOA_Brahman_1 as reference genome, independently