The growth in MySuper assets was accompanied by a 30.2 per cent decrease in total assets in accrued default amounts to $41.3 billion.
The number of MySuper products remained stable at 116 between June 2015 and June 2016, according to APRA.
Of the total amount invested in super entities with four or more members, MySuper products represented 37 per cent (up from 34 per cent).
Meanwhile, the number of SMSFs increased by just under 30,000 during the year to 577,236, up 5.5 per cent.
Self-managed funds remained the largest single sector of the total $2.1 trillion superannuation sector, representing 29.5 per cent of total assets.
Retail superannuation held a 25.8 per cent stake of the market, while industry funds captured 22.1 per cent of total super assets.
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