From: SNP frequency, haplotype structure and linkage disequilibrium in elite maize inbred lines
Parameter | Value | Comments |
---|---|---|
Number of loci screened | 18 | Â |
Total length of amplicons, bp. | 6935 | 2349 coding, 4586 non-coding |
Number of bases of sequence screened, bp. | 213999 | Â |
Number of all sequence variants (SNPs and Indels) | 169 | 1 per 41 bp |
Number of nucleotide substitutions | 114 | Â |
Transitions / Transversions ratio | 1.53 | Â |
Frequency of polymorphic sites per bp | 0.0164 | 1 per 60.8 bp |
Frequency of polymorphic sites per bp (coding) | 0.0077 | 1 per 130.5 bp |
Frequency of polymorphic sites per bp (non-coding) | 0.021 | 1 per 47.7 bp |
Number of Indels | 55 | Â |
Overall indel frequency | 0.0079 | 1 per 126.1 bp |
Frequency of indels per bp (coding) | 0.0004 | 1 per 2349 bp |
Frequency of indels per bp (non-coding) | 0.0118 | 1 per 85 bp |
Mean nucleotide diversity (Ï€) | 0.0063 | Â |
Mean nucleotide expected heterozygosity | 0.26 | Â |
Mean haplotype expected heterozygosity | 0.56 | Â |