Groupings of the 22 disseminated gonococcal infection hybrid PacBio/Illumina genomes based on the phase on/off combinations of the lgtAC/D genes within the lgtABCDE operon. The green shapes represent functional protein domains with the red flags representing stop codons. The gene was determined to be phase on/off based on the translated protein sequence and the subsequent protein motif Hidden Markov Model matches found in Pfam. lgtA and lgtC were considered phase on when the protein showed a completed functional protein sequence with a stop codon at the end of the translated sequence. We determined lgtD to be considered phase on (ie, group 2) when the partial protein sequence was observed with a stop codon at the end of the sequence. The partial functional protein sequence in lgtD observed might be due to the absence of Neisseria species–specific sequences possibly absent in the Pfam database.