|
Gene fragment
|
πa
|
θb
|
Number of polymorphic sites
|
Genotypic diversity
|
Number of genotypes
|
Typing efficiencyc
|
Ratio of NS to SN changesd
|
|---|
|
GPX
|
0.0897
|
0.20069
|
35
|
0.959
|
29
|
0.087
|
0.654
|
|
HMCOAR
|
0.00515
|
0.00828
|
16
|
0.792
|
11
|
0.736
|
0.659
|
|
PDH
|
0.00467
|
0.00713
|
20
|
0.766
|
14
|
0.833
|
0.127
|
|
GTP
|
0.02268
|
0.06233
|
38
|
0.941
|
24
|
0.163
|
0.223
|
|
STPP2
|
0.00439
|
0.00581
|
14
|
0.848
|
13
|
0.500
|
1.564
|
|
RHO1
|
0.01457
|
0.01656
|
26
|
0.959
|
28
|
0.771
|
1.759
|
|
SODA
|
0.00704
|
0.00979
|
19
|
0.893
|
14
|
0.377
|
0.427
|
|
SODB
|
0.01299
|
0.02177
|
28
|
0.763
|
8
|
0.208
|
0.369
|
|
LAP
|
0.00231
|
0.00290
|
7
|
0.424
|
6
|
0.857
|
0.0125
|
|
GPI
|
0.00001
|
0.00145
|
3
|
0.212
|
2
|
0.666
|
0.0698
|
|
LYT1
|
0.01722
|
0.02261
|
27
|
0.966
|
28
|
1.037
|
0.831
|
|
RB19
|
0.00873
|
0.00377
|
11
|
0.401
|
7
|
0.636
|
0.507
|
|
TR
|
0.00772
|
0.00357
|
10
|
0.383
|
7
|
0.700
|
1.352
|
- aπ is an index of nucleotide diversity. This measure is defined as the average number of nucleotide differences per site between any two DNA sequences chosen randomly from the sample population.
- bThe mutation parameter (θ) is defined as 4 Nm for autosomal loci of diploid organisms, where N is the effective population size (diploid individuals) and m is the neutral mutation rate (per gene or per base pair) per generation.
- cTyping efficiency is defined as the number of different genotypes described per polymorphic site.
- dSNPs in the coding region of a gene are of two types, synonymous (SN) and nonsynonymous (NS) SNPs. Synonymous SNPs do not affect the protein sequence while nonsynonymous SNPs change the amino acid sequence of protein.
