Additional file 2 of Investigating the impact of reference assembly choice on genomic analyses in a cattle breed

Additional file 2 Table S2: Number of mapped reads contained in the original files but not considered for our study. Number of reads mapped to sexual chromosomes and to unplaced contigs for both assemblies. Low quality mapping includes the number of reads filtered out when considering only uniquely mapped properly paired reads with a mapping quality threshold of 10. Sample-wise mean and standard deviation can be found between parentheses. The length of the sexual chromosomes and unplaced contigs is also included.