Use SW1, available on SOM board. To download .sof file into FPGA through JTAG, set to as fast mode or standard mode as below. Before that Make sure SW1 POS 3 set ON. Refer the table shared below.
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Please find the detailed product information here:
Agilex™ 7 (R31A/R31B/R31C) SoC FPGA System on Module