Table 1. Background information and sequencing statistics for genome of T. pallidum.

Strain	Origin Place	Year of isolation	Raw data	Clean data	Ratio	unique reads	unique ratio(%)	Coverage (%)	Mean depth	SNV number	Count of treponemes
SHC-0	Shanghai	2014	40416294	37469842	92.71%	33483604	89.36%	99.99%	1899.73	286	1×107
SHD-R	Shanghai	2014	28323906	26245436	92.66%	21129166	80.51%	99.99%	2253.37	282	1×107
SHE-V	Shanghai	2014	26352892	24296460	92.20%	23352990	96.12%	99.99%	413.53	277	1×107
SHG-I2	Shanghai	2014	23141660	20869470	90.18%	20312002	97.33%	99.99%	163.98	279	1×107
B3	Shanghai	2015	26527340	26340014	99.29%	26046390	98.89%	99.99%	55.28	243	1×106
C3	Shanghai	2015	26746096	26581754	99.39%	25883586	97.37%	99.99%	487.29	268	7×107
K3	Shanxi	2015	25504866	25293142	99.17%	24091738	95.25%	99.99%	796.43	284	1×107
Q3	Anhui	2015	24819110	24649998	99.32%	20028148	81.25%	99.99%	2047.53	281	1×107