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Parameter estimation of gravitational wave data is often computationally expensive, requiring simplifying assumptions such as circularisation of binary orbits. Although, if included, the sub-dominant effects like orbital eccentricity may provide crucial insights into the formation channels of compact binary mergers. To address these challenges, we present a pipeline strategy leveraging minimally modelled waveform reconstruction to identify the presence of eccentricity in real time. Using injected signals, we demonstrate that ignoring eccentricity ($e_{\rm 20Hz} \gtrsim 0.1$) leads to significant biases in parameter recovery, including chirp mass estimates falling outside the 90% credible interval. Waveform reconstruction shows inconsistencies increase with eccentricity, and this behaviour is consistent for different mass ratios. Our method enables low-latency inferences of binary properties supporting targeted follow-up analyses and can be applied to identify any physical effect of measurable strength.