The Sena is the BJP's alliance partner in Maharashtra as well as in the Centre, though it frequently attacks the saffron party.
Opposition parties led by the Congress in the past had called for a JPC probe.
The CAG report submitted in the Parliament earlier in the day said the deal negotiated by the NDA government to procure 36 Rafale fighter jets was 2.86 per cent cheaper than the UPA's 2007 negotiation.
"There is a possibility of manipulation in the CAG report as has been in the case of other institutions.
"The CBI and ED have been misused in the past.The BJP is doing what the Congress did," Kayande alleged.
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