Potential applications of nanolattices often require filling their empty space with eutectic metallic alloys. Due to confinement to nanolattices, the structure of phase segregates in eutectic alloys can differ from that in bulk. These problems are poorly understood now. We have used small angle neutron scattering (SANS) to study the segregation in the Ga-In alloy confined to an opal template with the regular pore network, created by a strict regularity of opal constituents in close similarity with nanolattices. We showed that SANS is a powerful tool to reveal the configuration of segregated phases within nanotemplates. The In-rich segregates were found to have specific structural features as small sizes and ordered arrangement.