Examples of adjustments to existing annotations based on evolutionary signatures. (A) Translation start adjustment. The annotated coding sequence begins at the indicated ATG, but the informant species show frameshifts, nonsense mutations, and nonconservative substitutions in the immediately downstream region. Strikingly, however, coding signatures begin at a slightly downstream ATG. (B) Incorrect reading frame annotated. The transcript model contains two overlapping reading frames, the slightly longer of which is annotated as the coding sequence; but the evolutionary signatures clearly show that the other is the frame under selection. (C) Nonsense mutation in (the sequenced strain of) D. melanogaster.
