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Analyzing 3D structure of G-quadruplex is not a trivial task as it is not always possible to use the common methods like X-Ray or NMR. However alternative methods might provide the answer to this question. One of such methods is SAXS method. In this project thrombin-binding G-quadruplex aptamers RE31, NU172 and HD22 have been studied. SAXS method has made it possible to discover structural difference between crystallized and dilluted samples. Moreover the methods has given us the ability to estimate to what extent do different concentration of bivalent ions affect the structure of RE31, NU172 and HD22.