The North East Java Basin is known to be one of the basins that consist of Miocene carbonate rocks, like the reef carbonate of Tuban Formation. It has the potential hydrocarbons that can be explored. Therefore, the FMI log analysis is very important to identify carbonate rocks of Tuban Formation to know facies and characteristics of that carbonate rocks. The method used descriptive and analysis process of FMI and Gamma Ray log to determine facies of the carbonate rock and the system tract. Based on the result of FMI log analysis, there are variations lithofasies include mudstone, wackestone, packstone, grainstone, floatstone, rudstone and claystone. A collection of rock associations can interpret the reef facies. It involves back reef facies, reef core facies, and fore reef facies. The changes of lithofasies and reef facies are caused by sea level fluctuations and subsidence resulting in the system tract. The system tracts generated in the research area include transgressive and highstand system tract.