Table 4 Descriptive statistics of mapped data based on the new assembly for modern and museum samples.

Species	Date	N	Mapping results				Gene diversity
Species	Date	N	Overall coverage	Mean coverage among samples	Read heterozygous rate	% GC	Loci counts	Variable loci	Deamination	SNPs	SNP/locus	tsi/tsv	MMAF	HHet.
Modern samples
J. edwardsii	2013	8	48.89 ± 1.46	8.39 ± 0.76^a	0.0066 ± 0.0006	44.96 ± 0.88^a	4,106	3,363	0.861	30,334	9.02	1.28	0.28	0.27
J. frontalis	2010	8	11.25 ± 0.36	3.21 ± 0.14^b	0.0271 ± 0.0035	47.32 ± 0.31^b	2,698	1,375	0.897	6,632	4.82	1.24	0.32	0.21
J. lalandii	2015	8	20.69 ± 0.49	4.02 ± 0.26^a	0.0151 ± 0.0015	43.41 ± 0.10^a	3,297	2,338	0.883	17,223	7.37	1.31	0.28	0.2
J. paulensis	2015	8	40.56 ± 1.16	7.00 ± 0.33^a	0.0082 ± 0.0005	45.00 ± 0.14^a	4,035	3,261	0.86	28,673	8.79	1.28	0.28	0.24
J. tristani	2015	8	18.50 ± 0.53	3.90 ± 0.42^c	0.0152 ± 0.0036	45.28 ± 0.45^a	3,735	2,604	0.888	16,121	6.19	1.28	0.3	0.21
Museum samples
J. caveorum	1995	7	30.28X ± 0.94	7.01 ± 1.74	0.0090 ± 0.0020	44.29 ± 1.00	3,828	2,745	0.864	18,140	6.61	1.27	0.33	0.37
J. edwardsii	1991	8	17.63X ± 0.48	3.55 ± 1.00	0.0170 ± 0.0070	43.68 ± 1.10	3,377	2,103	0.887	12,782	6.08	1.3	0.41	0.35
J. lalandii	1967	8	14.15X ± 0.74	9.38 ± 1.97	0.0136 ± 0.0045	43.00 ± 1.48	2,248	982	0.936	4,408	4.49	1.22	0.34	0.28
J. lalandii	1991	8	35.19X ± 1.93	4.02 ± 1.46	0.0103 ± 0.0025	37.05 ± 0.64	1,043	315	0.835	941	2.99	1.1	0.4	0.55
J. paulensis	1967	8	5.96X ± 0.22	2.38 ± 0.17	0.0170 ± 0.0031	36.66 ± 0.37	1,380	483	1.00609	1,978	4.1	1.19	0.36	0.19

Mean coverage and GC content (GC%) per sample was compared across species in modern samples. Data expressed as mean (SEM). ^a,b,cDifferent superscripts within a column denote significant differences (P < 0.01). Adjustment for multiple comparisons: Bonferroni.

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