Table 2 Classification of scaffolds identified as Z or autosomal scaffolds. Classification for each of the approaches: depth, heterozygosity, LASTZ, and SNP-loading analysis. The identification was found by comparison to the golden eagle genome bAquChr1.2 (GCA_900496995.2) with known chromosomes. Results for the different methods are given in a) for total size of scaffolds (bp), and in b) for the number of scaffolds, missing is obtained by comparison with the golden eagle scaffold assembly
From: Evaluation of four methods to identify the homozygotic sex chromosome in small populations
Depth | Heterozygosity | LASTZ | SNP-loading | ||||||
|---|---|---|---|---|---|---|---|---|---|
a) | Z | A | Za | A | Z | A | Z | A | |
Z | 76,239,124 | 10,056,095 | – | 60,214,856 | 86,569,008 | 270,522 | 69,355,267 | 13,642,226 | |
A | 93,786 | 1100,765,118 | – | 1,050,885,219 | 597,603 | 1,105,305,943 | 11,720,756 | 1,078,283,284 | |
Total | 1,187,154,123 | 1,159,757,217 | 1192,725,744 | 1,173,001,533 | |||||
Missing | 5,571,621 | 29,104,198 | 0 | 19,714,211 | |||||
b) | Z | 79 | 13 | – | 34 | 110 | 58 | 28 | 12 |
A | 14 | 512 | – | 254 | 33 | 941 | 9 | 231 | |
Total | 618 | 365 | 1141 | 280 | |||||
# NA | 523 | 776 | 0 | 861 | |||||