Figure 9

Example of structural alignment for a superfamily. All the domains are pairwise aligned against the reference domain. Purple discontinuous box: Domain excluded of the analysis because -ln(E) < 5. Red box: core of the alignment, composed by all the aminoacids of the reference domain aligned at least once and their correspondences. Blue box: Example of reference residue aligned with gaps (core quality: 1/6 = 17%). Green box: reference residue aligned without gaps (core quality: 6/6 = 100%). Black box: Reference residue that is not part of the core because there is not variation info for it (never aligned. Core quality 0/6 = 0%).