The purpose of the study was to investigate the effects of reading hypertext on EFL learners' reading comprehension and analysis of contributing factors. Eighty-eight students joined the study. They took two reading comprehension tests: Hypertext Version and Printed text Version. After the tests, they were asked to fill out a questionnaire of Visual Analogue Scale (VAS). The results show that students received higher scores in the Printed-text Version than they did on Hypertext Version. The factors students experienced when reading hypertext were: they could not take notes or underline any words or text on computer screens and they experienced eyestrain. The subjective correlated factors influencing the test results were eyestrain, font size, and background color. The study supports the claim that students find hypertext more difficult and discusses the factors that students encountered in the process of reading hypertext. (Contains 3 tables and 1 figure.)