The fossil forest in the Çamlıdere-Çeltikçi-Güdül region of the province of Ankara in Turkey has a large number of petrified coniferous and oak tree remains. Petrification occurred in volcanic ashes and tuffs with permineralization, and Fe, Mg, Ca and Ni ions played important roles in the substitution of Si for C. However, the petrified wood samples are heterogeneous in colouration, weight, toughness, and durability, despite being obtained from the same source. Those features are very important for end-users because petrified woods, if cut and polished, are used widely as both decorative indoor tiles and gemstone objects, but heterogeneous materials suffer large wastage while they are being worked and used. Chemical analyses, specific gravity measurements, polarizing microscope studies, X-ray diffraction patterns, and scanning electron image evaluations were performed to classify and identify the homogenous material of the petrified woods relating to its physical and mineralogical characteristics. The different characteristics of the petrified wood samples are due to their varying inner structures, which depend on the replacement silica-building phases and their ratios, and silica particle sizes. Thin sections and XRD patterns revealed that petrified woods in the region were silicified by replacement with both chalcedonic quartz components, including chalcedony (length-fast quartz), moganite and orthorhombic-silica (length-slow quartz), and opalline quartz components including opal-CT and opal-C (length-slow quartz). The scanning electron microscope images were shown that the internal structures of the petrified woods consist of mostly submicron-sized (100–800 nm), and partially nano-sized (60–120 nm) silica-building particles. So, the petrified wood samples can be firstly classified into five main-groups based on their colourations and specific gravity values, then, into three sub-groups based on the principal chalcedonic and opalline quartz silica-building phases and related particle sizes, and also weighing, toughness, and durability. In the first group (samples 1, 2, and 3), the crystallinity gradation of the petrified woods can be classified as quasi-coarse crystalline because they include mainly chalcedony and moganite phases with 800–200 nm ranging in particle size. They are heavy, tough, and resistance as a material, as shown by specific gravity values of 2.60, 2.56, and 2.54, respectively. In the second group (sample 4), the crystallinity gradation of the petrified wood can be classified as quasi-fine crystalline because it includes mainly o-silica and moganite phases with 400–100 nm ranging in particle size. It is medium-heavy, semi-tough and quasi-resistance as a material, as shown by a specific gravity value of 2.42. In the third group (sample 5), the crystallinity gradation of the petrified wood can be classified as quasi-nano-crystalline because it includes mainly opal-CT and opal-C phases with 120–60 nm ranging in particle size. The material is slight, brittle, and weak as a material, as shown by a specific gravity value of 2.18. Ultimately, in the petrified wood found in the Çamlıdere-Çeltikçi-Güdül region of Ankara province in Turkey, it is revealed that samples 1, 2, and 3 represent flint and chalcedony quartz mineral species, samples 4 and 5 represent chalcedony and opal quartz mineral species.