The report, dated January 13, reports cases around Ajmer and Nagaur, in several villages.
The total number of confirmed cases in the region is 27, with India saying 1136 horses in the area are considered susceptible to the highly contagious disease.
India says control measures include movement controls within the country, screening, disinfection of infected premises and treatment of affected animals.
No vaccination programme has been implemented.
Testing has revealed that the flu in question is the H3N8 strain.
The report was filed by Natarajan Gokulram, secretary to the Government of India in the Department of Animal Husbandry, Dairying and Fisheries, Ministry of Agriculture.