anomaly is a part of the Glimmer package, for finding genes in microbial DNA, especially the genomes of bacteria, archaea, and viruses..

This program reads the bases in the first command-line file and then takes the start and end positions specified in the second command-line file and checks for anomalous start/stop codons and frame shifts.

References:
Salzberg SL, Delcher AL, Kasif S, White O: Microbial gene identification using interpolated Markov models. Nucleic Acids Res. 1998 Jan 15;26(2):544-8. [Entrez]

Delcher AL, Harmon D, Kasif S, White O, Salzberg SL: Improved microbial gene identification with GLIMMER. Nucleic Acids Res. 1999 Dec 1;27(23):4636-41. [Entrez]