"I believe that Madrid and Barcelona are receptive and are ready to be more flexible in the sharing out of [income from] rights," Wert was quoted as saying in Wednesday's edition of As sports daily.
He also warned that if media firms were unwilling or unable to continue paying current prices for rights, which are one of the principle sources of income for football clubs, "the situation for football will be difficult".
The disparity in wealth means the big two's domestic rivals struggle to afford the best players or meet their wage demands and have no chance of challenging for the league title.
Spanish clubs had combined debt of some 3.53 billion euros in the 2010/11 season, Gay's research showed.
"We are in a very difficult liquidity situation," Wert said.
"I do not believe that any club will fail to meet its obligations and that the situation will be resolved relatively rapidly," he added.
"The professional football league (LFP) is very committed and very active in the preparation of the protocol and I believe the clubs will meet their obligations scrupulously.
"But it has to be regulated by the sector itself."
