In this article, the dynamics of an unbalanced two-ion crystal comprising the 'target' and the 'sensor' ions confined in a Penning trap has been studied. First, the low amplitude regime is addressed. In this regime, the overall potential including the Coulomb repulsion between the ions can be considered harmonic and the axial, magnetron and reduced-cyclotron modes split up into the so-called 'stretch' and 'common' modes, that are generalizations of the well-known 'breathing' and 'center-of-mass' motions of a balanced crystal made of two ions. By measuring the frequency modes of the crystal and the sensor ion eigenfrequencies using optical detection, it will be possible to determine the target ion's free-cyclotron frequency. The measurement scheme is described and the non-harmonicity of the Coulomb interaction is discussed since this might cause large systematic effects.I. * mjgutierrez@ugr.es.; This work is part of the PhD thesis of M.J. Gutiérrez. † danielrodriguez@ugr.es