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There is a wide variety in the various wild populations and five varieties recognized in the Jepson Manual: Higher Plants of California. Kew recognizes three varieties, but people observing this species in the wild say there is such a variation in the different populations, that even the characteristics that are supposed to separate them are not constant.
The Calochortus clavatus lily produces tall stems up to 1 metre (3.3 ft) in height and only basal leaves.
Atop the stem is a lily bloom with sepals up to 4 centimeters long. The petals are up to 5 centimeters long and yellow with a darker line or series of bands near the base, which are often red. The cup of the flower is filled with hairs which have clubbed ends. The anthers are often deep purple.
The capsule fruit is up to 9 centimeters long.
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