Table 3 Prevalence and proportion of total reads for “species” detected in at least 50% of samples.

Lactobacillus jensenii

81.6–100

181 (99.4)

10.66

Streptococcus devriesei

83

180 (98.9)

0.34

Lactobacillus crispatus

78.8–99.8

178 (97.8)

31.93

Lactobacillus acidophilus

91.8–100

178 (97.8)

1.22

Atopobium vaginae

82.5–96.9

176 (96.7)

1.62

Weissella viridescens

58.8–99.5

173 (95.0)

0.22

Desulfotalea psychrophila

76.1

167 (91.7)

0.12

Lactobacillus iners

86.8–100

165 (90.6)

15.85

Lactobacillus gasseri

65.4–100

164 (90.1)

5.69

Streptococcus parasanguinis

94.9–97.0

162 (89.0)

0.08

Prevotella tannerae

77.5–98.7

162 (89.0)

0.07

Faecalibacterium cf. prausnitzii

77.5–79.6

159 (87.3)

0.16

Gardnerella vaginalis subgroup C

78.5–99.3

156 (85.7)

4.45

Peptoniphilus harei

89.9–98.5

156 (85.7)

0.07

Clostridium innocuum

75.4

148 (81.3)

0.06

Sphingobium yanoikuyae

99.3–99.4

145 (79.6)

0.08

Eubacterium siraeum

84.4

144 (79.1)

0.05

Gardnerella vaginalis subgroup B

93.2–99.6

133 (73.0)

0.54

Massilia timonae

82

126 (69.2)

0.03

Gardnerella vaginalis subgroup A

86.7–99.6

123 (67.5)

7.64

Bifidobacterium breve

89.6–99.5

119 (65.3)

2.12

Megasphaera sp. genomsp. type 1

58.1–86.7

112 (61.5)

3.09