Court registrar Esther Nyaiyaki received piles of bound papers from lawyers representing the National Super Alliance (NASA) coalition, 90 minutes before the midnight deadline for challenges to be lodged.
"The entire process of tallying recording, transmitting, verifying and confirmation of results was so fundamentally flawed that you cannot talk of any meaningful results," NASA said in a statement late yesterday outlining the alleged irregularities.
"This petition asks the court and by extension the people of Kenya to nullify the entire exercise because it is fatally compromised, in order to pave the way for fresh, legitimate elections."
The seven Supreme Court judges now have two weeks to hear the NASA petition and any legal responses from Kenyatta's Jubilee Party or the Independent Electoral and Boundaries Commission (IEBC) before ruling.
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Following national elections on August 8, Kenyatta, the incumbent president, was declared the winner, with 54 per cent of the vote, a week ago.
Opposition leader Raila Odinga has refused to recognise the result believing that he has been cheated for a third time in a row.
When Odinga was declared the loser to Kenyatta in 2013 he took his complaints to the Supreme Court, and lost.
The veteran opposition leader had previously said court was not an option, raising the spectre of further violent protests after 17 people were killed and scores injured over the weekend, but on Thursday he relented, saying hacking and rigging meant Kenyans had been given "computer-generated leadership".
He also called for peaceful protests.
Election observer groups, while praising the conduct of polling day itself, have raised concerns over the transmission and tallying or results with some pointing to discrepancies in numbers and the absence of original polling station tally sheets.
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