Figure 1
From: Efficient decoding algorithms for generalized hidden Markov model gene finders
An example GHMM topology. Diamonds represent signal states (for fixed-length features) and circles represent content states (for variable-length features). Allowable transitions are shown with arrows. ATG = start codon, TAG = stop codon, GT = donor splice site, AG = acceptor splice site, N = intergenic region, I = intron, Einit = initial exon, Eint = internal exon, Efin = final exon, Esng = single exon gene. The denoted machine operates by transitioning stochastically from state to state, emitting a gene feature of a particular type upon entering a given state.