The complaint against Mukesh, a stonemason in his 20s, was filed by the girl's father who comes from Kannauj in Uttar Pradesh.
The complainant said he has been working as a watchman in an under-construction building in the Sushant Lok area for four months.
Since his wife is dead, he lives with his daughter in the building. He said on May 5, he went to the market to buy some building material.
A police officer said a case under the Protection of Children from Sexual Offences (POCSO) Act has been registered and the accused is on the run.