Table 1.
Summary of sequencing and mapping statistics.
Table 2.
Short INDELs detected in 12 diverse chicken breeds.
Figure 1.
INDELs with multiple genotypes were not included.
Figure 2.
INDEL and SNP density in each chromosome.
Densities were calculated as the number per 10 kb (INDEL) and kb (SNP), respectively. Densities are averaged by chicken individuals and corrected by read depth. Coverage was calculated based on Q20 reads.
Figure 3.
The ratios were plotted based on the non-redundant (Union) data and the data averaged by chickens (Average), respectively. A: SNP to INDEL ratio across chromosomes. B: SNP to INDEL ratios in functional categories.
Table 3.
Statistics of INDELs and SNPs in functional regions.