Table 1.

NRY, mtDNA, and X chromosome diversity statistics for chimpanzees, bonobos, and humans

	n	s	Indels	π, %	θ, %*	Ne†	Tajima's D, P value	Reference
NRY
P.t.s. (+Pt?2)	6	2	0	0.024	0.032	7,000	−1.13 (>0.10)	This study
P.t.s. (−Pt?2)	5	0	0	0.000	0.000			This study
P.t.t. (+Pt?1)	18	12	2	0.092	0.105	28,000	−0.42 (>0.10)	This study
P.t.t. (−Pt?1)	16	4	0	0.051	0.043	16,000	0.57 (>0.10)	This study
P.t.v.‡	77	0	1	0.001	0.007	300	−1.06 (>0.10)	This study
P. troglodytes	101	16	3	0.067	0.111	21,000	−1.12 (>0.10)	This study
P. paniscus	7	4	0	0.079	0.059	24,000	1.63 (>0.10)	This study
H. sapiens	42	0	0	0.000	0.000			This study
mtDNA ND2 (synonymous sites)§
P.t.s.	6	5	0	0.718	0.837	7,000	−0.63 (>0.10)	This study; 5
P.t.t.	17	13	0	1.200	1.489	12,000	−1.19 (>0.10)	This study; 5
P.t.v.	22	25	0	2.410	2.697	23,000	−0.63 (>0.10)	This study; 5
P. troglodytes	45	52	0	4.320	4.613	41,000	−0.31 (>0.10)	This study; 5
P. paniscus	5	13	0	2.879	2.365	28,000	1.39 (>0.10)	This study; 51
H. sapiens	73	33	0	0.609	2.565	4,000	−2.44 (<0.01)	5; 27
Xq13.3
P.t.t.	12	64	4	0.175	0.209	52,000	−0.75 (>0.10)	9
P.t.v.	17	24	2	0.050	0.070	15,000	−1.15 (>0.10)	9
P. troglodytes	30	85	6	0.131	0.211	39,000	−1.47 (>0.10)	9
P. paniscus	5	5	1	0.022	0.024	7,000	−0.56 (>0.10)	9
H. sapiens	69	33	0	0.033	0.068	7,000	−1.63 (>0.05)	56
HOXB6¶
P.t.s.	4	0	0	0.000	0.000			21
P.t.t.	19	4	0	0.094	0.112	28,000	−0.48 (>0.10)	21
P.t.v.	58	5	0	0.105	0.106	31,000	−0.02 (>0.10)	21
P. troglodytes	89	8	0	0.176	0.155	52,000	0.33 (>0.10)	21
P. paniscus	36	6	0	0.175	0.142	52,000	0.64 (>0.10)	21
H. sapiens	210	4	0	0.060	0.066	13,000	−0.16 (>0.10)	21

n is the number of chromosomes; s is the number of segregating sites. 

^*Calculated from s. 

^† Calculated using π. 

^‡ P.t.v. was calculated with the indel represented as a base substitution. 

^§ Tajima's D was based on all sites. 

^¶ Chimpanzee data do not include recombinant haplogroup Trog G.