Table 2.

mtDNA haplotypes by abundance

Sites										Individuals, n
1	2	3	4	5	6	7	8	9	10
A	–––	T	A	––	–––––	C	A	A	A	48*†‡
A	A––	T	A	––	–––––	C	A	A	A	24*‡
A	–––	T	A	––	–––––	C	G	A	A	11*‡
A	–––	T	A	––	–––––	G	A	G	A	7*
A	–––	T	A	––	–––––	G	A	A	A	7*‡
A	–––	T	C	––	–––––	G	A	G	A	3*
A	–––	T	A	§	–––––	G	A	A	A	2
A	AAA	C	A	––	–––––	C	A	A	A	2†‡
A	–––	T	A	CC	–––––	C	A	A	A	2†‡
A	A––	T	A	––	AAAAC	G	A	A	A	1*
A	–––	T	A	––	–––––	C	A	G	A	1*
G	–––	T	A	––	AAAAC	C	A	A	A	1*‡
A	–––¶	T	A	––	–––––	C	A	A	A	1
A	–––	T	C	––	–––––	C	A	A	A	1*
G	–––	T	A	––	–––––	C	A	A	A	1*
A	A––	T	A	––	–––––	G	A	A	A	1*
A	–––	T	A	––	–––––	G	G	G	A	1*
–‖	–––‖	T	A	––	–––––	G	A	A	A	1
A	–––	T	A	––	–––––	C	A	A	T	1
A	A––	T	C	––	–––––	G	A	A	A	1*‡
A	A––	T	A	––	–––––	G	A	G	A	1*
A	A––	T	A	––	–––––	C	G	A	A	1*
A	AA–	T	A	––	–––––	G	A	A	A	1
A	–––	T	A	––	–––––			A	A	1

Numbered sites are the same as in Fig. 1. The two most frequent alleles at each site are designated 1 and 2, respectively, below and in Table 2. Sites 2, 5, and 6 represent insertion/deletions in which the absence of a base is indicated by a dash. Blanks for Sites 7 and 8 in the last haplotype indicate missing data; genotypic data from this line were included in the pairwise comparisons of loci (Table 3) but were omitted from the multilocus association test (see text). 

^*Designates the 16 haplotypes used in the phylogenetic analysis (see text). 

^†Individuals from which multiple isolates were assayed in each of the 10 variable sites belonged to these haplotype classes. 

^‡The 10 individuals fully sequenced over 6.8 kb are characterized by these eight haplotypes. 

^§Large insertion of undetermined sequence. 

^¶ 

^‖

Sequences at sites 1 and 2 are as follows:

 

∥ 

Note that this deletion encompasses sites 1 and 2.