40-year-old Sai was produced along with two others before the duty magistrate in Rohini who gave 24-hour transit remand to Gujarat Police. He will be taken to Gujarat and produced before a magistrate tomorrow.
Police nabbed Sai, disguised as a Sikh with a red turban, after giving his SUV a hot chase near Kurukshetra.
"Two of his close aides, PSO Kaushal Thakur alias Hanuman (29) and driver Ramesh Malhotra (27) were also arrested with Sai from Pipli near Kurukshetra in the wee hours today," said Joint Commissioner of Police (Crime) SBK Singh.
A reward of Rs 5 lakh had been announced for the arrest of Sai while Hanuman carried a reward of Rs 1 lakh as he too was named in the FIR.
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Later in the day, when police took Sai to Rohini District Courts Complex and produced him before the magistrate, around 200 people, including Sai's supporters and those who were protesting against him clashed.
The younger of the two sisters had accused Sai of repeated sexual assault between 2002 and 2005 when she was living at the Surat ashram.
The elder sister, in her complaint against Asaram, had accused him of repeated sexual assault between 1997 and 2006 during the time she was living at his ashram on the outskirts of Ahmedabad.
Asaram (72) is in judicial custody in Jodhpur jail after being arrested in September for allegedly sexually assaulting a minor.