Table 6. Associations between bacterial richness and diversity and study day in those animals classified as ‘responders’ (n = 3) based on raw Streptococcus count data.

Outcome variable	Explanatory variable	Coefficient	P-value	95% confidence interval
Shannon	Study day	-0.09	<0.001	-0.14 to -0.05
	Baseline	6.27	<0.001	5.96 to 6.58
Random effects parameter: Pony ID	Variance (baseline)	0.003		1.77e-08 to 374.62
	Variance (residual)	0.17		0.10 to 0.29
Simpson	Study day	-0.002	0.001	-0.004 to -0.001
	Baseline	0.99	<0.001	0.98 to 1.00
Random effects parameter: Pony ID	Variance (baseline)	4.55e-27		7.83e-49 to 0.002
	Variance (residual)	0.001		0.0001 to 0.0003
Chao1	Study day	-87.90	0.07	-181.75 to 5.95
	Baseline	3427.28	<0.001	2786.23 to 4068.33
Random effects parameter: Pony ID	Variance (baseline)	2.22e-19		0
	Variance (residual)	754286.70		462100.10 to 1231223.0
Sobs	Study day	-56.98	<0.001	-85.80 to -28.17
Random effects parameter: Pony ID	Baseline	1963.24	<0.001	1745.64 to 2180.85
	Variance (baseline)	6720.15		261.82 to 172489.00
	Variance (residual)	71080.07		42472.36 to 118956.80