Phylogenetic analysis of human Chlamydia pneumoniae strains reveals a distinct Australian indigenous clade that predates European exploration of the continent

Roulis, Eileen; Bachmann, Nathan; Humphrys, Michael; Myers, Garry; Huston, Wilhelmina; Polkinghorne, Adam; Timms, Peter

doi:10.1186/s12864-015-2281-y

Table 1 Percentage nucleotide pairwise identities of all C. pneumoniae strains

From: Phylogenetic analysis of human Chlamydia pneumoniae strains reveals a distinct Australian indigenous clade that predates European exploration of the continent

	CM1	GiD	TOR-1	AR39	YK41	J138	CV14	PB2	PB1	CWL011	Wien3	CWL029	U1271	CV15	Wien1	K7	Wien2	MUL2216	Panola	H12	UZG1	TW183	A03	WA97001	1979	SH511	IOL207	DC9	LPCoLN	B21
CM1		100	100	100	99.9	99.7	99.7	99.7	99.7	99.8	99.8	99.6	99.8	99.7	99.7	99.8	99.8	99.8	99.8	99.4	99.6	99.6	99.5	99.7	98.6	98.7	99.2	97.9	94.6	94.6
GiD	100		100	100	99.9	99.7	99.7	99.7	99.7	99.8	99.8	99.6	99.8	99.7	99.7	99.8	99.8	99.8	99.8	99.4	99.6	99.6	99.5	99.7	98.6	98.7	99.2	97.9	94.6	94.6
TOR-1	100	100		100	99.9	99.7	99.7	99.7	99.7	99.8	99.8	99.6	99.8	99.7	99.7	99.8	99.8	99.8	99.8	99.4	99.6	99.6	99.5	99.7	98.6	98.7	99.2	97.9	94.6	94.6
AR39	100	100	100		99.9	99.7	99.7	99.7	99.7	99.8	99.8	99.6	99.8	99.7	99.7	99.8	99.8	99.8	99.8	99.4	99.6	99.6	99.5	99.7	98.6	98.7	99.2	97.9	94.6	94.6
YK41	99.9	99.9	99.9	99.9		99.6	99.7	99.7	99.7	99.7	99.7	99.6	99.7	99.7	99.7	99.7	99.7	99.7	99.7	99.4	99.5	99.5	99.5	99.7	98.6	98.6	99.2	97.9	94.6	94.6
J138	99.7	99.7	99.7	99.7	99.6		99.7	99.7	99.7	99.7	99.7	99.6	99.7	99.7	99.7	99.7	99.7	99.7	99.7	99.4	99.5	99.5	99.5	99.5	98.7	98.7	99.2	97.9	94.8	94.8
CV14	99.7	99.7	99.7	99.7	99.7	99.7		100	100	100	100	99.8	100	100	100	100	100	100	100	99.6	99.7	99.7	99.6	99.5	98.7	98.7	99.4	98	94.7	94.7
PB2	99.7	99.7	99.7	99.7	99.7	99.7	100		100	100	100	99.8	100	100	100	99.9	99.9	99.9	99.9	99.6	99.7	99.7	99.6	99.5	98.7	98.7	99.4	98	94.7	94.7
PB1	99.7	99.7	99.7	99.7	99.7	99.7	100	100		100	100	99.8	100	100	100	100	100	100	99.9	99.6	99.7	99.7	99.6	99.5	98.7	98.7	99.4	98	94.7	94.7
CWL011	99.8	99.8	99.8	99.8	99.7	99.7	100	100	100		100	99.9	100	100	100	100	100	100	100	99.7	99.7	99.7	99.6	99.5	98.7	98.8	99.4	98	94.7	94.7
Wein3	99.8	99.8	99.8	99.8	99.7	99.7	100	100	100	100		99.9	100	100	100	100	100	100	100	99.7	99.7	99.7	99.6	99.5	98.7	98.8	99.4	98	94.7	94.7
CWL029	99.6	99.6	99.6	99.6	99.6	99.6	99.8	99.8	99.8	99.9	99.9		99.9	99.8	99.8	99.9	99.9	99.9	99.9	99.5	99.6	99.6	99.8	99.4	98.9	98.9	99.3	97.9	94.6	94.6
U1271	99.8	99.8	99.8	99.8	99.7	99.7	100	100	100	100	100	99.9		100	100	100	100	100	100	99.7	99.7	99.7	99.6	99.5	98.7	98.8	99.4	98	94.7	94.7
CV15	99.7	99.7	99.7	99.7	99.7	99.7	100	100	100	100	100	99.8	100		100	100	100	100	100	99.6	99.7	99.7	99.6	99.5	98.7	98.7	99.4	98	94.7	94.7
Wein1	99.7	99.7	99.7	99.7	99.7	99.7	100	100	100	100	100	99.8	100	100		100	100	100	100	99.6	99.7	99.7	99.6	99.5	98.7	98.7	99.4	98	94.7	94.7
K7	99.8	99.8	99.8	99.8	99.7	99.7	100	99.9	100	100	100	99.9	100	100	100		100	100	100	99.7	99.7	99.7	99.6	99.5	98.7	98.8	99.4	98	94.7	94.7
Wein2	99.8	99.8	99.8	99.8	99.7	99.7	100	99.9	100	100	100	99.9	100	100	100	100		100	100	99.7	99.7	99.7	99.6	99.5	98.7	98.8	99.4	98	94.7	94.7
MUL2216	99.8	99.8	99.8	99.8	99.7	99.7	100	99.9	100	100	100	99.9	100	100	100	100	100		100	99.7	99.7	99.7	99.6	99.5	98.7	98.8	99.4	98	94.7	94.7
Panola	99.8	99.8	99.8	99.8	99.7	99.7	100	99.9	99.9	100	100	99.9	100	100	100	100	100	100		99.7	99.7	99.7	99.6	99.5	98.7	98.8	99.4	98	94.7	94.7
H12	99.4	99.4	99.4	99.4	99.4	99.4	99.6	99.6	99.6	99.7	99.7	99.5	99.7	99.6	99.6	99.7	99.7	99.7	99.7		99.4	99.4	99.3	99.2	98.4	98.4	99.1	97.8	94.4	94.4
UZG1	99.6	99.6	99.6	99.6	99.5	99.5	99.7	99.7	99.7	99.7	99.7	99.6	99.7	99.7	99.7	99.7	99.7	99.7	99.7	99.4		100	99.6	99.3	98.8	98.8	99.2	98.2	94.5	94.5
TW183	99.6	99.6	99.6	99.6	99.5	99.5	99.7	99.7	99.7	99.7	99.7	99.6	99.7	99.7	99.7	99.7	99.7	99.7	99.7	99.4	100		99.6	99.3	98.8	98.8	99.2	98.2	94.5	94.5
A03	99.5	99.5	99.5	99.5	99.5	99.5	99.6	99.6	99.6	99.6	99.6	99.8	99.6	99.6	99.6	99.6	99.6	99.6	99.6	99.3	99.6	99.6		99.3	98.9	98.9	99.1	97.9	94.5	94.4
WA97001	99.7	99.7	99.7	99.7	99.7	99.5	99.5	99.5	99.5	99.5	99.5	99.4	99.5	99.5	99.5	99.5	99.5	99.5	99.5	99.2	99.3	99.3	99.3		98.8	98.8	99	97.8	94.5	94.5
1979	98.6	98.6	98.6	98.6	98.6	98.7	98.7	98.7	98.7	98.7	98.7	98.9	98.7	98.7	98.7	98.7	98.7	98.7	98.7	98.4	98.8	98.8	98.9	98.8		99.7	98.4	97.5	94.2	94.2
SH511	98.7	98.7	98.7	98.7	98.6	98.7	98.7	98.7	98.7	98.8	98.8	98.9	98.8	98.7	98.7	98.8	98.8	98.8	98.8	98.4	98.8	98.8	98.9	98.8	99.7		98.4	97.5	94.3	94.3
IOL207	99.2	99.2	99.2	99.2	99.2	99.2	99.4	99.4	99.4	99.4	99.4	99.3	99.4	99.4	99.4	99.4	99.4	99.4	99.4	99.1	99.2	99.2	99.1	99	98.4	98.4		97.6	94.3	94.3
DC9	97.9	97.9	97.9	97.9	97.9	97.9	98	98	98	98	98	97.9	98	98	98	98	98	98	98	97.8	98.2	98.2	97.9	97.8	97.5	97.5	97.6		93.6	93.6
LPCoLN	94.6	94.6	94.6	94.6	94.6	94.8	94.7	94.7	94.7	94.7	94.7	94.6	94.7	94.7	94.7	94.7	94.7	94.7	94.7	94.4	94.5	94.5	94.5	94.5	94.2	94.3	94.3	93.6		100
B21	94.6	94.6	94.6	94.6	94.6	94.8	94.7	94.7	94.7	94.7	94.7	94.6	94.7	94.7	94.7	94.7	94.7	94.7	94.7	94.4	94.5	94.5	94.4	94.5	94.2	94.3	94.3	93.6	100

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