Vast majority of payments were below USD 200 (about Rs 13,000 at current exchange rate) and some were as low as USD 5 (Rs 330) but together totalled millions of dollars.
The three-year federal probe "found evidence of bribery in India, centring on widespread but relatively small payments made to local officials there", the Journal reported citing persons it didn't identify.
"Much of the suspected bribery investigators unearthed in India involves thousands of small payments to low-level local officials to help move goods through customs or obtain real-estate permits.
The world's largest retailer entered India in 2007 through a supermarket joint venture with Bharti Enterprises but split up in 2013. Since then, it is mostly focused on wholesale business.
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Wall Street Journal said investigators found similar payments in Mexico, but "the bulk of such activity seemed to be in India".
Wal-Mart is likely to face charges of violating the US Foreign Corrupt Practices Act due to these payments, the paper said, adding that the charges in India are unlikely to amount to a large fine as FCPA penalties are connected to profits the alleged misconduct generated.
Wal-Mart's Indian unit reportedly had suffered a loss of Rs 232 crore in 2014. Its revenue had dropped 32 per cent to Rs 2,992.7 crore in that year.
In November last year, the retailer had sacked a manager following the probe by the US Department of Justice. Previously, it had sacked its CFO and legal team.