The pair of patches was spotted by a NASA-led international team of researchers investigating the chemical make-up of Titan's atmosphere.
The large patches of trace gases were spotted shining brightly near the north and south poles.
These regions are curiously shifted off the poles, to the east or west, so that dawn is breaking over the southern region while dusk is falling over the northern one, researchers said.
"These kinds of east-to-west variations have never been seen before in Titan's atmospheric gases. Explaining their origin presents us with a fascinating new problem," he said.
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The mapping comes from observations made by the Atacama Large Millimeter/submillimeter Array (ALMA), a network of high-precision antennas in Chile. At the wavelengths used by these antennas, the gas-rich areas in Titan's atmosphere glowed brightly.
Because of ALMA's sensitivity, the researchers were able to obtain spatial maps of chemicals in Titan's atmosphere from a "snapshot" observation that lasted less than three minutes.
Studying this complex chemistry may provide insights into properties of Earth's very early atmosphere, which may have shared many chemical characteristics with present-day Titan.
In this study, the researchers focused on two organic molecules, hydrogen isocyanide (HNC) and cyanoacetylene (HC3N), that are formed in Titan's atmosphere. At lower altitudes, the HC3N appears concentrated above Titan's north and south poles.
The surprise came when the researchers compared the gas concentrations at different levels in the atmosphere. At the highest altitudes, the gas pockets appeared to be shifted away from the poles.
Within each zone, the atmospheric gases should, for the most part, be thoroughly mixed, researchers said.
"It seems incredible that chemical mechanisms could be operating on rapid enough timescales to cause enhanced 'pockets' in the observed molecules," said Conor Nixon, a planetary scientist at Goddard and a coauthor of the paper, published in the Astrophysical Journal Letters.