NJ phylogenetic tree of gag sequences from NZ domestic cats. Tree is rooted by subtype B. Subtypes are shown along the right side of the tree. Bootstrap values based on 1000 replicates are shown for the major groups. Sequences with ⇐ are used as reference sequences in the RIP analyses. Outlier sequence is PN6. U-NZgag is a group of NZ sequences that does not group with a known subtype. Reference sequences from GENBANK are; subtype A: CaONA22 (AY369383, Canada), Petaluma (M25381, USA); subtype B: CaONB06 (AY369381, Canada), TM2 (M59418, Japan), RP1 (AJ304962, Portugal); subtype C: BM3070 (AF474246, Canada), FIVC36 (AY600517, USA), CaONC02 (AY369384, Canada).