Anyway your setting of axes map is wrong, you have arrows on the EBB silkscreen, the arrows are to show you the directions of the axis, look at the arrows and make them coincident with the directions at your machine, maybe you’ll need to use the minus - symbol, to match the real machine’s movements, I have almost the same orientation, but white big connector it’s in the lefthand side, and this is my setup for it:
[adxl345]
cs_pin: EBBCan: PB12
spi_software_sclk_pin: EBBCan: PB10
spi_software_mosi_pin: EBBCan: PB11
spi_software_miso_pin: EBBCan: PB2
axes_map: z,x,-y
[resonance_tester]
probe_points: 65, 55, 60
accel_chip: adxl345