Congress candidate Surendra Furtado lost the election to BJP's Siddharth Kuncolienkar in a four-corner fight, which saw both the independent candidates losing their deposits.
Congress had polled around 4,000 votes in the last assembly election and managed to get similar number of votes in the Friday's bypoll.
"The election was fought against all the odds. The BJP government was working against the party candidate," GPCC media cell chairman Ramakant Khalap told reporters today.
Congress said the silver lining in the dark cloud is that the party has managed to retain its base in the constituency.
The bypoll was necessitated after the resignation of former chief minister Manohar Parrikar, who took up assignment as the Defence Minister.