NJ phylogenetic tree of pol 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 sequences are Ni and PN9. U-NZpol1 and U-NZpol2 are groups of NZ sequences that do not group with a known subtype. Reference sequences from GENBANK are; subtype A: T90 (S67753, Australia), Petaluma (M25381, USA), FIV-Fca155-1 (U53760, Argentina), FIV-FcaTK1-11 (U53762, England); subtype B: TM2 (E03581, Japan), USIL2489 (U11820, USA); subtype C: BM3070 (AF474246, Canada), FIV-C36 (AY600517, USA).