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This research enhances published articles that extract combination of various features. It does so by processing entire eye-tracking records either in time or frequency whereas applying only basic signal pre-processing. Such signals were classified as a whole by Convolutional Neural Networks (CNN) that hierarchically extract substantial features scatter either in time or frequency and nonlinearly binds them using machine learning to minimize a detection error. In the experiments we used a 100 fold cross validation and a dataset containing signals of 185 subjects (88 subjects with low risk and 97 subjects with high risk of dyslexia). In a series of experiments it was found that magnitude spectrum based representation of time interpolated eye-tracking signals recorded the best results, i.e. an average accuracy of 96.6% was reached in comparison to 95.6% that is the best published result on the same database. 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