Table 3 Annotations of single nucleotide polymorphisms (SNPs), small fragments insertions and deletions (Indels), structural variations (SVs), and copy number variations (CNVs) detected in Hongyingzi
From: Genome-wide variations analysis of sorghum cultivar Hongyingzi for brewing Moutai liquor
Category | Numbers of SNPs | Numbers of Indels | Numbers of SVs | Numbers of CNVs | Region |
|---|---|---|---|---|---|
Intergenic | 1,515,993 | 190,165 | 9661 | 17,082 | |
1 kb of upstream | 89,326 | 38,198 | 1915 | 985 | |
1 kb of downstream | 75,170 | 28,361 | 1460 | 789 | |
Upstream/downstream | 6344 | 2779 | 176 | 96 | |
Gain of stop codons | 453 | 103 | Coding regions | ||
Loss of stop codons | 125 | 22 | Coding regions | ||
Synonymous | 38,176 | Coding regions | |||
Non-synonymous | 37,774 | Coding regions | |||
Frameshift (insertions) | 1354 | Coding regions | |||
Frameshift (deletions) | 1476 | Coding regions | |||
Non-frameshift (insertions) | 3219 | Coding regions | |||
Non-frameshift (deletions) | 3201 | Coding regions | |||
Exonic | 3657 | 1822 | |||
Intronic | 122,211 | 40,223 | 1119 | 496 | |
Splicing sites | 202 | 189 | 5 |