Table 2 Estimated genome-wide genetic diversity estimates of H. malabaricus samples from different geographic sampling sites and karyomorphs (including individual karyomorph A and F samples and also diversity in pooled samples from different localities with the same karyomorphs).

Population code (see Table 1)	Sample Size	π	θ_W	Tajima’s D	Δθ
A1	6	0.0007 ± 0.00006	0.0007 ± 0.00006	0.0068 ± 0.041	−0.006 ± 0.017
A2	6	0.0005 ± 0.00005	0.0006 ± 0.00005	0.0188 ± 0.055	−0.011 ± 0.023
A3	8	0.0012 ± 0.00007	0.0015 ± 0.00007	−0.35 ± 0.041	0.17 ± 0.020
A4	6	0.0040 ± 0.00015	0.0027 ± 0.00010	1.23 ± 0.031	−0.49 ± 0.012
Karyotype A populations pooled	26	0.0069 ± 0.00019	0.0054 ± 0.00013	0.5 ± 0.028	−0.29 ± 0.017
B1	1	0.0007 ± 0.00008	0.0007 ± 0.00008	Not calculated (only one individual sequenced)
C1	6	0.0006 ± 0.00005	0.0006 ± 0.00005	−0.082 ± 0.00005	0.032 ± 0.021
D1	6	0.0013 ± 0.00008	0.0012 ± 0.00007	0.166 ± 0.047	−0.07 ± 0.019
F1	6	0.0009 ± 0.00006	0.0009 ± 0.00006	−0.074 ± 0.052	0.032 ± 0.022
F2	6	0.0009 ± 0.00006	0.0010 ± 0.00006	−0.077 ± 0.049	0.031 ± 0.020
F3	3	0.0011 ± 0.00008	0.0010 ± 0.00007	0.33 ± 0.063	−0.08 ± 0.015
Karyotype F populations pooled	15	0.0031 ± 0.00012	0.0026 ± 0.00009	0.4 ± 0.043	−0.23 ± 0.025
G1	6	0.0009 ± 0.00006	0.0009 ± 0.00006	−0.0016 ± 0.048	−0.002 ± 0.020

Sample sizes are shown, as well as nucleotide diversity (π), Watterson’s theta per site (θ_W), Tajimaʼs D values (D) and values of the Δθ statistic which measures variant frequencies (see the “Methods” section), and their 95% confidence intervals.

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