Table 3.

The explanatory model for each question is specified by the column Equation. The Architecture column and the Padding type column show the architectures and padding types included in each comparison, respectively. All the enzyme types are included for each question. Reference categories are indicated in bold.

Questions on the effect of padding addressed through the explanatory models.
	Question	Equation	Architecture	Padding type
A	Does padding position affect performance?	Eq. 2	only_denses	post-, pre-, mid-, ext-, strf-, rnd-, zoom-, aug-
B	What is the effect of switching between dense paddings?	Eq. 2	stack_conv	post-, pre-, mid-, ext-
C	What is the effect of changing from the standard dense padding to sparse padding?	Eq. 2	stack_conv	post-, strf-, rnd-, zoom-
D	Is an ensemble of paddings beneficial?	Eq. 3	stack_conv 1_conv only_denses	aug-, post-, strf-
E	Does the effect of padding type on performance depends on the enzyme type?	Eq. 4	stack_conv 1_conv only_denses	post-, strf-