Figure (4).

For predicting trans-membrane spans from the sequence, the hydrophobicity values have to be averaged over a certain number of residues (“window”). The percent per-amino acid agreements between prediction and known location of the residues were computed as a function of window size for the scales from the literature (EW: Eisenberg & Weiss ¹⁷, GES: Goldman, Engelman, Steitz ², HW: Hopp & Woods ¹, KD: Kyte & Doolittle ¹⁰, WW: Wimley & White ⁵, Guy: Guy ¹⁸, Janin: Janin ⁷, PM1D and PM3D: Punta & Maritan ⁸) and for the Unified Hydrophobicity Scale (UHS). The shaded region indicates a range of window lengths for the UHS, which all yield similarly good performance. The best performance is seen for the UHS scale and the scale from GES.