Prionailurus rubiginosus**

1
Species
Lineage
Supplemental Figure 3
Domestic cat European wild cat Chinese desert
cat African wild cat Sand cat Black-footed
cat Jungle cat
64/61/67 0.98/0.98
Felis catus
Felis silvestris
Domestic Cat
Felis bieti
91/78/89 1.0/1.0
Felis libyca
Felis margarita
74/87/75 1.0/1.0
Felis nigripes
Felis chaus
92/60/65 0.95/0.95
Fishing cat Flat-headed cat Asian leopard cat
93/96/98 0.95/0.95
Prionailurus viverrinus
Asian Leopard Cat
Prionailurus planiceps
Prionailurus bengalensis
Pallas cat Cheetah Puma Jaguarondi
Otocolobus manul
Puma
Acinonyx jubatus
Puma concolor
Puma yagouaroundi
Rusty-spotted cat Iberian lynx Siberian
lynx Canadian lynx Bobcat
68/80/75 1.0/1.0
94/97/97 1.0/1.0
Prionailurus rubiginosus
Lynx pardinus
Lynx
80/89/89 1.0/1.0
Lynx lynx
0/60/53 0.50/0.51
Lynx canadensis
55/ / 0.53/0.49
Lynx rufus
97/100/100 1.0/1.0
Serval Caracal African golden cat
Caracal serval
100/100/100 1.0/1.0
Caracal
Caracal caracal
Caracal aurata
Tigrina Guigna Geoffroys cat Pampas
cat Ocelot Margay
89/88/86 1.0/1.0
69/62/63 0.96/0.96
Leopardus tigrinus
Leopardus guigna
97/99/100 1.0/1.0
Leopardus geoffroyi
Ocelot
Leopardus colocolo
Leopardus pardalis
75/65/70 0.95/0.94
Leopardus weidii
100/99/100 1.0/1.0
Marbled cat Asian golden cat
Bay Cat
Pardofelis marmorata
Pardofelis temminckii
Clouded leopard Tiger Leopard Lion Jaguar Snow
leopard
Neofelis nebulosa
/ / 53 0.91/0.91
Panthera tigris
Panthera
Panthera pardus
100/99/100 1.0/1.0
Panthera leo
Panthera onca
Panthera uncia
0.01
2
Species
Lineage
Supplemental Figure 4
66 / / 59 0.99 /0.99
African wild cat European wild cat Domestic
cat Chinese desert cat Sand cat Black-footed cat
Jungle cat
Felis libyca D
67/ 65 /70 0.96 /0.97
Felis silvestris D
67/ 70 /71 1 / 1
Felis catus
Domestic Cat
59 / 84 / 59 0.96/ 0.96
Felis bieti
95/ 64 / 99 1 / 1
Felis margarita
Felis nigripes
Felis chaus
Flat-headed cat Asian leopard cat Fishing
cat Rusty-spotted cat Pallas cat
70/ 62 /65 0.99 / 0.99
Prionailurus planiceps
64/ 95 / 62 0.95 / 0.95
Asian Leopard Cat
// 0.78 / 0.79
Prionailurus bengalensis
64 / / 71 1 / 1
Prionailurus viverrinus
100 / 68 /99 1 / 1
Prionailurus rubiginosus
Otocolobus manul
Cheetah Jaguarondi Puma
Puma
Siberian lynx Canadian lynx Iberian lynx Bobcat
54/ 60 /53 0.90 / 0.91
Lynx
Tigrina Guigna Geoffroys cat Pampas
cat Ocelot Margay
Ocelot
Serval Caracal African golden cat
Caracal
Marbled cat Asian golden cat
100/ 91 /100 1 / 1
Pardofelis marmorata
Bay Cat
Pardofelis temminckii
Clouded leopard Leopard Lion Jaguar Snow
leopard Tiger
Neofelis nebulosa
54// / 0.75 / 0.76
100/100 /100 1 / 1
Panthera pardus
Panthera leo
Panthera
Panthera onca
75/ 100 /75 0.91 / 0.92
Panthera uncia
98/ 98 /94 1 /1
Panthera tigris
0.005 substitutions/site