Eunotia incisa is similar to E. canicula and E. acicularis because the helictoglossae in these species are inset from the valve apices which gives each apex the appearance of a 'nose'. Generally, the valves of E. incisa are wider and the helicotoglossae are farther from the apex (more inset) compared to E. canicula. The dorsal margin of E. incisa is more convex and the helictoglossae are closer to the apex (less inset) compared to E. acicularis. Eunotia incisa is also similar to E. papilioforma and E. rhomboidea. Valves of E. incisa, however, are symmetric in regard to apex width and position of the helictoglossae compared to the asymmetry in these features in E. rhomboidea and E. papilioforma. Eunotia novaeangliae is very narrow, and nearly linear.
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