This repository has been archived by the owner on Aug 11, 2022. It is now read-only.
-
Notifications
You must be signed in to change notification settings - Fork 8
/
Copy pathcpacific.xml
149 lines (119 loc) · 36 KB
/
cpacific.xml
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
<?xml version="1.0" encoding="UTF-8" standalone="no"?><beast beautitemplate='Standard' beautistatus='' namespace="beast.core:beast.evolution.alignment:beast.evolution.tree.coalescent:beast.core.util:beast.evolution.nuc:beast.evolution.operators:beast.evolution.sitemodel:beast.evolution.substitutionmodel:beast.evolution.likelihood" version="2.0">
<data
id="cpacific"
dataType="standard"
name="alignment">
<sequence id="seq_EastFutuna" taxon="EastFutuna" totalcount="2" value="0100000100000100000011000010010010000001000000001000000000000010010010000000100000000010100111100001110010010100000010000001011100000011000000010100001111000101110000100011010100000100010010011001100000000110010000000111010000011000010010111000100111000010010100001101001001000100000101000100010110000000001100000110000110000000100000000100010000000100000100011001100000000100000000000000100011000001001000000001000000001000000010000000100000001011000100000010011000000000000010000001000000000000010000000100001000000011001111001000010100000000010000110000100000000001000100001000001000000001000000000010100001000001001000000000000100000001000100000000000001000101000110000000000000001010100000100000001001000001100000100100100000001001000010010000100000010000001000001011001000000001100001010000110011100100000100010010001000010001001000100011000110001100000100011010110001100100000010000001000010001001101000010100010000110000110001001010000001010011000101000011000000001011000010001000000000001010100001000000000000010000000000000100000000000010000000100000001000010001000000010000000000000100000000010000110000100001100000000010000000100000100000100000000100000000011001000000100010010100000000100001000100100001001000100000000?????????????001001000000001010000011111001010100110011000010110000100100100000000011000000010000100001000010100011000000001100100000000110010111101011111000000001001001000100"/>
<sequence id="seq_EastUvea" taxon="EastUvea" totalcount="2" value="0????00100001000000011000010000010000000000001001000000000000010010010001000100000000010100110010001000100010?????001000000101010000001100000001000000110000010111000010001001010000010001001001100101100000111000000000011110010001100001000001000000010000011001010000000100???100001000000100010001011000000110000000011000011000000?????????0100010000000000100????100010000000????????????????????01100000100000000000100000010100????????????????1000000110001000000101110000000001??????????100000000000001000000110??????????010001111000000010001000000000001000??????????00001000100001000011000000001000000001010000000000001111000000000001000100????????0000100000000010000000110000000000000001010000000100000001?????????001000100100100000010000010????????01000000????000100000101100100000000100000101000??????110000000010001001000100000000100100010001100?????010000101000110101100011000000000101000010001100????11010000101001100001100001110000010100000000010000001010000110000000???1100001000100000000000100000010000000000000001000000000000000000001000001000000000010000100001100100000000000000000000000001000001000001000000000110000000001000000010000010100?????????01000000000100010000001000100101000000001000010000010000????100010000000000000000000100100000000000010100000111100010101001100110000????????100110000000000011000000010000?????????010000001000000000000100100000110010111??1011???????????????????00100"/>
<sequence id="seq_FijianBau" taxon="FijianBau" totalcount="2" value="01000100000010000001000001000000100001000000000000000100000001001000000000010000000000101100000000010100000101000000001010000000000010000000001000000101000100011000001001000000000101001001001010010000110000000000000001001000100100000100100000110000000000100101000100000010010010000010000010000101000000000000100010000010000000000010000010000000000001000001000100000001000110000000010000000001000010000000010000100000011000000000010000000001000001000000000000000000001100000100000000010000100000000100001000011000000001000000000000000100000010001000000000000001000100000000100000100100000000000100000100000000000001000000000000000010000001000000010000000000000100100000000000000000010000000000001000000011000000000001010000010000010000100001000000010000000100010000000010010010000000010000100001010000011101110000000100000110000100000100001001000010000100000100001000110000101000000000110000010110000100010000111000000000010000010000000010000010000000000100000001000000010100110100000100000000000100000010000000000110000000000000000100000000001000000000001000000100100000100001000000000000000000000000100000000000100001000000001000000000001010000000010000000011000000000100100000010001000100000000100000010000100000100010100000000000011100000000100000000000010000000010110001000101100000010011000000100100001000000100000100000000100000100100001000000000000000000001001000010111101011101000001100001101010000"/>
<sequence id="seq_Hawaiian" taxon="Hawaiian" totalcount="2" value="0100000100001001000011000010000010000110000000000100001000000010000100000000101000000010101000000001100100010100001000000100000000000100000000010000001010001001100000100001100100000010010010011101100000010000001000000110100000000010010001000000100000000000110100001000001101000100000110000100010110000001100000000110000000100001000000000110000000000001000110010001000000000101000000000000000010000100000000000000000010010001000000000000000100000000000010000000101000000000001000000001000000000000010000001000000001000001110000000000010100000000011000000100000000001000001000010001010010001000000000000000001000000000000000011000001000000000001000010000000000010000000000110000000000000000000100????????10010000001000001100001000001000100000011000000100000????010000000100???0000100001000000100000110001100000100000010001000101010100001000100010000110001100001000101010110001100000000010100001000100001001100000011000000000101000001000000010000010000000000100000010011000001011001000001100000000001000000100000000000000000010000000000100000000010000000000010000001001000001000000000010000000000000000001000000010000000010000000001000000000100010000000100000000000000100010000010000001010011000000001000001010001100001001000110000000100001100000000000010000000100000001111000100010111101100001011000010011000000000000001001000000000000001001000000010000000000000000010011001011110101111101000000100100???????"/>
<sequence id="seq_Kapingamarangi" taxon="Kapingamarangi" totalcount="2" value="010000000010???????01100001110001000000000001000000000000010001000000001000000001000001010010000000110001001010000??????0001000000000000000010010000001010000100111000100010001110000110010???01100110000001000000000000011001100000100001001010001000000000001001010100010000???001010000000100010001011000000110000000011000011000000?????????000100000000010000010001000????????0010000000000000001001100000001000000000100000000100??????????????????????0110010000000111100000000000000100000000000000000100100000010000011000000000000110001100100110000000101000000000000001???????10000010000??????0000000000010000000000010000000000100000000100000000001000??????????????1000101000000000000000000100000000000000100100010000010000011000000100?????01000????????00000010????00000000110010010000000010000000100001000111000000000100100????10000100000010001000010001100??????010000100101100010000000001???????10001000010011000000001000000001100001100000000010010000000000001100000110010000010110000100000001000000000100000000000010??????????????????00010000000000000000001010000001001000001000000000000000000000010000000001000100000000010000000000100000000100000100000000000010100000000010000001110100?????????????010000010000001000000110011000000000000000000100000000000010000000010011110001000101011001000000000001100100000000011010000010000000?????????01000000100000000001010000000011001011110??1110100000?????????1001000"/>
<sequence id="seq_Luangiua" taxon="Luangiua" totalcount="2" value="010000000001000001001100101000001000011000000000100000000001001000100000000010000000001010001000000111000001010000??????00010000000000000000010100000010110001011100001010100001000000010100100110010000000000010000000001100000001010000100101100000001000000???1010010100000???100001000000100010001011000000110000000010100011000000??????????????????????1000001000100011000000001000100000000000010010000010110000000010000000010000000000000000100100000000010000001011100100000000000000001000010000000000100000010000010000000010010100000000??10000000001010000000001000000010000?????0100001110000000100000000001000000000000000000100000000100000000001000??????????????1000000010000000000000000100000000000000010100100000000100010010010000010000100001000000000000011000?????????10010011000000000110010100001100011000001000000100001010000100000001101000100001000???????????010010001001000010000010100001000100001001100000000000010000110000110000000000101000100000000101000010001000000111000010000000000001000010000001000000000000000000000011000100000000000010000000010000001000010001000?????????????????????????00001000100100000?????????000110000100100100000001100000000100000000010001000000100010010100000000100001000000100001001001100000000?????????????0000010000000010000000110000110001011110010000101100001001???????????01000001000000000100000001000000100000000000010001000011001011110101110100000?????????1000010"/>
<sequence id="seq_Mangareva" taxon="Mangareva" totalcount="2" value="011000010000???????011000????????????????????????????????????010???????????01000000000???011100000011??????10?????100000??????????????????????0100000010100????1100000100??????100000???010010011001100000000110000000000110?????????????1001010000010010000001001010000001000110100??????011000010001011000000001000000011100?????????00000010000000000010001000001000100010000000001?????????????????01000001100000000000100000????????????????????????????01100000000001110000000000000010000000??????????????10000?????0001000000100000000000000010????????????????????????????0100000???????????100000????????????00010000000000?????????????????100000001000000??????????????10001000000000000000000000110100000100000001??????????????01100001000001000100000100000001100000????010000000100???110000000?????010100001100011000001000000100100001000101000010001000100001000??????100000110101100??10000000001010000100010000100111000001010000000011000011100000??????00011000000001100000110001000010???0101000100000000000100000???????????000000100000000000001100000000100000000000100000?????????010000000000000000000000011000????????10000000000100000000100000000010011000000?????????00010000000100010000001000100100000000???????10000??????01001001100000000?????????????010000000000001000000011?????1000???????110000????????1001????????????????????????????????????????????????????????????????011001011110??1??????????????????1001000"/>
<sequence id="seq_Maori" taxon="Maori" totalcount="2" value="010001000000100100001100001000001000011000000000100000000000001000000100000010000000001010000000010110010001010000100000000010000000000010000001000000101000010000001010000100010000001001001001100110000000000000001000011000000100100001000100000001000000001001010000100000110100001000011000010001011000000110000000011000010100000100000000011000000000000010011001000000001000010100000000000000001000000000010000000100000??????10000000000000001000000000001000000010000000000000000010000000100000000000100000010000010000001000000000000000101000000000110000000100000000000100001000010000100000000100000000000000001000000000000000001000010000000100000000010000000000100000000000000100000001000000000001000000010010000001000000010001000001000100000000100000010000????01000000010000111000000010000001000000011011000001000000100????11100100100010001000100001100??????010000001100010011100000000101000010001000010000100000100000010001100001100000000100000010000000001100000100001000010110000010000000100000000010000000000100000000000001000000010000000000100000000000110000010010000010000000000000000100000000000000001000110000000010000000000000000011000000100001000000000010000000100010100001000100110000000010000011000001000010010011000000001000000100000010000000000000001000011110001000101111011000010110000100101000000000010000011001000010000000010000000100000000000100000000110010111101011111000101010001001001000"/>
<sequence id="seq_Marquesan" taxon="Marquesan" totalcount="2" value="0100001000000110000011000010000001000110100000001000000000000010011000000000100000000010101000000001101000010100011000000000000010000100000000010000001110001001110000100011000100000100010010011101000010100000000000000110???????0110001000100000010000000000101011000100000110100010000011000010001011100001111000100011100010000000000010000011000000000001000011001100100000000011000000011000000001000011000000000000100000??????0000000110000000010100011000000000011110000001100001100000001100001000000010100010000010000000111000000000000010000000100011000000110000000001000001000010000010000011000000000001110000000000010000000100000001000000010000000100010000000010001100000000000000000111100011000110000001010000000100000110000000100110010000010000100110000001000100000001101101100000001000001000000110001100000100000010010000100011000001000100010000110001101001000010010110001100000000010100001000100001001100000010000000000110000111000110110000100000000001000100011100000001011001100001110000000001100000000011000000000001100000000001111000000011000000000010001001001100101000000001100000000000000000001000000100000000000001000011000000010100111000000110000000010001000010001100000110010010001000001000001000001100001001001100000000100000000000001000000000000100000001111100110010111101000001010000010010000010000000010001000000001000000001000011100000000000010000000011001011110101111110100001000???10?????"/>
<sequence id="seq_Nukuoro" taxon="Nukuoro" totalcount="2" value="0100010000001000000011000011100000001110000000001000000010000???0000100000000001000000101001011000011??????100100001000000010000000000010000000100000011100001001110001000100001100001000100100110010000?????????????????11001100000100001001010000000010000001001010100100000???100000010000100010001011000000110000000011100010000000100000000011000000000010000010001000????????001?????????????????00100000001100000000100000010100????????????????000010011001000000011110000000000000010000000001000000000010000?????0001100000000110111000000010?????????010100000??????????001000001000010000010000????????????00000100000000?????????????????1000000????????000000000100001000001000000000000000?????????????001000001000100000?????011000010000?????0100001000000????????????00000001010010010000000010000010100001000011000001000000100????1000010000001000100001000110001000001000010010110001?????????????????100010000110111000001010100000011000011000000??????10000000000001000000110010000010110000100010000000000000100000000001000000000000010000000001001000000000000010000100000010??????010000000000000001000000000000????????10000000000000010000010000000010000010000100000000000000001001000100100????0100101000000001000010000001000010010011000000001000000000000?????????????01000000011111001000??10100??????101000001001???????????01000001000000001000000001000????????????????10000000011001011110101110100000?????????1001000"/>
<sequence id="seq_RapanuiEasterIsland" taxon="RapanuiEasterIsland" totalcount="2" value="0100010000001000000011000???????100000000000001010000000000010100010000001001000011110101010100000011010000101000010000000000000001001000000000100000010100000100100011000010001000001100100100110010000000001100000000001101000000001000100010000001000000000100101000010000011010001000001000001000101100000??????????0100100000000100000000100000000000010001000111010001000000000100000010000000000010000000010000000001000000001100000000000000001??????0110001000000000000010000000000000000100000000000010100000010000010000011001110000000010010110100000100000000000100000010000000001100000100001000010000000000000000000010010000000000001010000110000000100001000000000???000000010000000000000011000000001000000110100100001000000000101000001000100000000100001000000????0000001001001100011000001000001010000001101100000100000000101000110000001001000100010000110000010010000????10110001000101000010100001000100001001110100010000000000110000000100000100000000100000100000001011000000001000101010001000000000000011000000000000100100000000000000001010000000010010000000010000001001000001000000000000000000000000001100000001111000000?????????010100000000100100000010100000000001000000010000010000101010000000000110000001000001100001001000100000000000000000000100000000000110000000101111000100010111000100000001000010011000000000000000101010001100010000001000000000100000000110000000011001011110101111100001?????????1001001"/>
<sequence id="seq_Rarotongan" taxon="Rarotongan" totalcount="2" value="0110010010001001000011010010000010000000010000000010000100000010001100000000100000000010101110000001100100010100001000000110000000000010000000010000001010001001110000110000010100000010010010011001111000001000000100000110010000001000010010100000011100000010010110001000001101000111000110000100010110000001110000000111000111000001000000000110000000000??????1100100010000000001010000000011100000100001111000001100010000001000000000000011000001000000001100000000111100000000000000100000010100001100000110000011000010000001011110000000000101111000000110000000010000000010000010000010000100000001000011110000110000000000011100000000000010000000100000000000011100000100010100000011000000000111100000001000000010010000001000001100001000001000100000100100001000000????010000000110100001100000100000101000011000110000010000001001100110001010000100010001000011000001000100011111000100110000011001011000100000100110110000001011000000011000000110000001000000110000000011000001000110000101100111000100000000000100000???????????00110000000000000001110000000001100110000010000001001100001000011000001111000000000000001100000111000000001000000001000000000100110000000100000000001000000010001000000101010010000000000100001100000100001001000001110000010000000000001000000000000100000001111100100010111001100001011000010011000001000001000001000000001000000001000000011000000000011000000011001011110101111100000110000110??01000"/>
<sequence id="seq_Rennellese" taxon="Rennellese" totalcount="2" value="0100000100000000100011000010000010000000000100001000000000000010010000000000100000000010100010000001100001010100000010000001001000000001000000010000001111000100010000100010010000001110010010011001000000000000100000000110010000001000011000010000000110000010010100001100001001000100000001000100010110000000001100000111000111000000010000000100010010000100000????1000100000000010000010000000000001000001001000000010100000010101000010000000000010000001100010000001011101000000000001000000000100000000001000000010000001000000111001000000001000000001001000011000000100000010000?????0100001100100000100000000001010000000000000001000000100100000000100000001000000000001000000100000000000000000000010000010000000100100000000100010010011000010000100001001000010000001000000011000100100?????????10000010100001000111000000010000100100010000100000010001000100001100010000110000110101100011000000000101000010001100001011000000101000000001100001100000000110010000000000001010000110010000011110000100010000000000010100000011000000000000100000000000011100000000000010000001101000010000100010000000000000000000010000000????????110000000001000000000010111000100000000100000001100100000000010001000000100011010100000000100001000000100001001000000000010100000000000000001000000000100000001111100100010100001100001001100010010001000000001100001000000000100000001000011000100000000010000000011001011110101111100000?????????1001100"/>
<sequence id="seq_Rotuman" taxon="Rotuman" totalcount="2" value="000110010000010000000010010000001000000000100000100000000000000101000000000???????????101100000000010000100101000000100000000000010000000100000000100??0001????0000100100100000100000100001010010010010000000110000000000???100000000100000110000000000000100010001100000000101001000000010000010001010000110000000000100000010000010000100000000000001000000000001000100101000000011000100000000000000000100000000000001000110000001000000000000010000??????000000001000000000000000010010000000000000000001000000010000100000000100100000000000000010??????????????????000000010000000100001001000010000000001000000000000000010000000001000000000000010000????????00000000001000???0000000000000100000000000000001000010000100000100000001??????010000000011010000000001000010000010?????????10010000000111010000???????010000?10000000000101000100?????100000000010100001000100010000100000100110000011000000000???????100001010001100000000000000011000010010000000100000000000010000011000001100000000101100100000000000100000001000???????????000000000000100000000000100000000000001001000001???00010001000000000000000001000000000000000010000001000001000010000010000000???????????10000000000000000010100000010001000001000001000000011110000000110001001000000010001000000000000000000010000000000100010110000001101000100001000000100010100000001000010000010000000101000000000010000000111000000000000010001010111101011101000000000011101000100"/>
<sequence id="seq_Samoan" taxon="Samoan" totalcount="2" value="01000000010010000000110000100000100001010000000000010000000000100000100000001000000000111000100000011001000101000000000100010000000000010010000100010011000001011000001000100001000001000100110110011110000001100000000001101001000010000100101110100000000000100101000011000110010000100000010001000101100000011000000001100001010000010000000000010000000001000001000100011000000001000100000000000000010000000010000000000010001000001000000000000001000000000000001000001100000000000000001110010000000001000100000011000010000000001100100000000100000100000100110000001000000000010001000010000100000100010000000000001000000000010000000000000010010000011000000100000000100100000000000000001000000000011000001000100010010000001100001001001000001010110000111100001000000100001110000010010011000000010000010000001100011000001000000100100000001100010010001000100001101100100110000100101110011000000000100011011001000010011010000001010000000010001100100001011010000000000001010000110001001010110000100010010001000010101001100000000001010000000010000010000000000100100000100111000011000100011010000000000000001000000000010100000100000000110000010001100000001000001010001001000001000000001100010100001000100000100100011000010000001001010010001000000001000000010000010000001100001000000011110001000101110011000010110000001110100000100010000010000000100110000010000100001000100000100000000110010111101011111000001100001101001100"/>
<sequence id="seq_SouthIslandMaori" taxon="SouthIslandMaori" totalcount="2" value="0100010000000000001011000010000001000110000000011000000000000010000000000010000000000110100000000011100000110100001000000010100000010010000000010000001010001000010000100001100100000010010010011001100000000001000000001110???????010001100010000????????????1001001000100000111100001000000010010001000000110000110000011000000000001000000001000000000000101000000101000000100010010000001000000000001000000000010000000100000001000????????????????010000000010000000001100000000000001000000000010000000000100001000010001000000001000000000000110?????????01100000001000000000001000???????????101000????????????000010000000000000000000000000110000000100000000010000000001???0000000000000000001000100000000110000000?001000000???????????010000?????000010100000001100000?????????????100001?????????100000001000??????1001??????????10001000010010100001000100?????00100000001000110001100010011100000000101000010001000????001000001000000000011001011000000001000000100000000011000001000011000101100000010000000000010000100???????????00000000000000000101000000000010000000000010000001001000001000?????????????????????????????????000000011000010000001000000000??0000010000100000000000100000010001100000100????110000000????????????????????????0110000000010000000000000100000000000000000001111100010001001100100000101100001001???????????010000???????????????????????0100101000000000100000000110010111101011101000000010000011101000"/>
<sequence id="seq_TahitianModern" taxon="TahitianModern" totalcount="2" value="0100010010001001000011000010000110110110000000000000100000000010000100000000110000000010101000000001100100001001000001000100000000000100000000001000001010001001100000100000100101000010010010011000000100000000000001000???01000000110001000000010001000000001001010000100000110010001000011000001000111000000110000000011000011000000100000000011000000000000100011001000001000000011000000000000000001000000000001000000000010??????00100000000000000010000001000000010000001000000000000100000000001000000000010000010000010000000000000001000000101000000000110000000010000000000000110000001000100000000001000000000000100000000000001000000000010000000100000000010000000000010001000000000000000000001000000001000000010000001101000000010001000001000100000000010001100100????0100000001001100011000001000000001000001101100000010000001010000100000000101000001010000101000010001000101010000101000000001000000011000100001001100000010010000000110000000100000010000000100000000110000010001000001011001000000000000010000000010100000000000110000000000100000000000001000010000000010000001001000000010010000000000000000000000000100000110000000001000000000001000000010010000000100000000100010000010001000000001010010000000000010001000000100001001000000000100000000000100001000000000000010000001111010100001111101100001011000010011000000000001000000010000000000000101100000000000001000000100000011010111111101111100000011010???1001000"/>
<sequence id="seq_Tikopia" taxon="Tikopia" totalcount="2" value="0100000100001000000011000011000010000001000000000010000000000010000010000000100000000010100110010001100100010100000100000001010000000001000000010000001011000101110000100010000100000100010???01100100000000011000000000011001000000100001001110100000010001001001010000110000100100010000000100010001011000000110000000011000011000000?????????0100100000000100010100010010000001000100000000000001000001000001011000000001000000101000001000000001000100000011000100000000111000000001000010000000001000000000010000001000000000010001001011000000010010000000010010000??????????01000000100001000010000000001000000000000100000000001101000000010001000000????????00001000000000100???????????????????000100000000010000000100100000010000010010010000010000100001000000010000000001?????????100100?????????10000010000101000111001000000000100010010000100000010001000000101100??????01000011010001001100000000000000101000110001001100000000100000000110000110000001010001000000000000100000011000100001111000010001000100000000010100001100000000100100000000000001100000010????????????0001000010000100010000001000000000000000000000????????10000000000100000000001000000010010000000000001000010000000001000100000010001001100000000010000100000110000100100010000000010000000000000001000000000010000000111110010101000100111000101100001001???????????010000010010000100000000?????011000000000000010010000011001011110101110100000?????????1001000"/>
<sequence id="seq_Tongan" taxon="Tongan" totalcount="2" value="01000001000010000000110000000010100001010000000000010000010000100000001000001000000000101100000000010001000101000000100000010000000000000001000000001011000010011000001000100000001001000100100110010000000001100000000001101001000001010100000100100000000000100101000000010011010000100000010001001101100000000011000001100000000010000000100000000001000000001001000100010000000001000010000000000000010000000010000000010000000100001000000000000001000000000001000100000100000000000000100000010000000000000100000001000010000000000000000100000101000000000000010000000000010000010001000010000100000000010000000000010000000000010000000000000010000000010000000001000000000100000000000000000110000000001000001000000010010000001000001001000000100100010000000100001000000100000010000010110000000000110000010000001000111000000000001100010010000000010010001000100000100100000100000100101100011000000000100000010000100010011000000001001000001100000000010000000100000100000001010000110000000010110000100000010000000010000001000000000001010000000000000000000011000000110000000000100010000100010000000000000000000100000000000100000100000000010000000000100000001000000010000010000001000000000100010000001000100000000010001000000010001000010010001000000001000000000000001000000000001000000011110001000101110000000100000010100100100000000010000000010100100000000010000100001000000000100100000001010111101011101000000010001101000100"/>
<sequence id="seq_Tuamotu" taxon="Tuamotu" totalcount="2" value="01100001000010010000110000100000100001100000000010000000000000100010000000001000000000101011100010011001000100001010000001100000000000100000000100000011100011011100001000110101000001100100100110011000000001100000001101100100000010000100101000001001000010100101000010000011010000100001100001000101100000011000000101110001100000010000000000000000001000010001100100010000000001100000000000000000100101010100000000010000001000000100000000000001000000110001000000111100000000000000100000000101000000000110000010000010000000110000000000000101110000010110000011000000000010000010000000001100000001001000000000000000000100000100000000000010000000100000001000000000000100010100000000000001001011100000001000000010000100001000000010001000001000100000100000001100000????0100000001001000010000000000101010000100011100000100000010001000100010100001000100010000110000010011000111110100001101000000010110001000100001101110000011110000000110000111100000010000000100000000000010010001100001011001110001000000000001010000100000000000110000000000000001100000000010000000000010000001001000000100000100000000000000000000000001000111000000?????????010000000000100110000000100000000001000000010101000000100????1100000000010000110000010000100100000000000101000000000000100000000000010000000111110010001010100110000????????1001???????????010000???????????????????????0000010000000000????????011001011110011111100000?????????1001000"/>
<userDataType id="StandardData.0" spec="beast.evolution.datatype.StandardData" ambiguities="" nrOfStates="2"/>
</data>
<map name="Uniform" >beast.math.distributions.Uniform</map>
<map name="Exponential" >beast.math.distributions.Exponential</map>
<map name="LogNormal" >beast.math.distributions.LogNormalDistributionModel</map>
<map name="Normal" >beast.math.distributions.Normal</map>
<map name="Beta" >beast.math.distributions.Beta</map>
<map name="Gamma" >beast.math.distributions.Gamma</map>
<map name="LaplaceDistribution" >beast.math.distributions.LaplaceDistribution</map>
<map name="prior" >beast.math.distributions.Prior</map>
<map name="InverseGamma" >beast.math.distributions.InverseGamma</map>
<map name="OneOnX" >beast.math.distributions.OneOnX</map>
<run id="mcmc" spec="MCMC" chainLength="100000">
<state id="state" storeEvery="5000">
<tree id="Tree.t:cpacific" name="stateNode">
<taxonset id="TaxonSet.cpacific" spec="TaxonSet">
<alignment idref="cpacific"/>
</taxonset>
</tree>
<parameter id="birthRate.t:cpacific" name="stateNode">1.0</parameter>
<parameter id="clockRate.c:cpacific" name="stateNode">1.0</parameter>
</state>
<init id="RandomTree.t:cpacific" spec="beast.evolution.tree.RandomTree" estimate="false" initial="@Tree.t:cpacific" taxa="@cpacific">
<populationModel id="ConstantPopulation0.t:cpacific" spec="ConstantPopulation">
<parameter id="randomPopSize.t:cpacific" name="popSize">1.0</parameter>
</populationModel>
</init>
<distribution id="posterior" spec="util.CompoundDistribution">
<distribution id="prior" spec="util.CompoundDistribution">
<distribution id="YuleModel.t:cpacific" spec="beast.evolution.speciation.YuleModel" birthDiffRate="@birthRate.t:cpacific" tree="@Tree.t:cpacific"/>
<prior id="YuleBirthRatePrior.t:cpacific" name="distribution" x="@birthRate.t:cpacific">
<Uniform id="Uniform.0" name="distr" upper="Infinity"/>
</prior>
<prior id="ClockPrior.c:cpacific" name="distribution" x="@clockRate.c:cpacific">
<Uniform id="Uniform.01" name="distr" upper="Infinity"/>
</prior>
<distribution id="NewZealand.prior" spec="beast.math.distributions.MRCAPrior" monophyletic="true" tree="@Tree.t:cpacific">
<taxonset id="NewZealand" spec="TaxonSet">
<taxon id="Maori" spec="Taxon"/>
<taxon id="SouthIslandMaori" spec="Taxon"/>
</taxonset>
<LogNormal id="LogNormalDistributionModel.0" meanInRealSpace="true" name="distr">
<parameter id="RealParameter.0" estimate="false" name="M">90.0</parameter>
<parameter id="RealParameter.01" estimate="false" lower="0.0" name="S" upper="5.0">0.8</parameter>
</LogNormal>
</distribution>
</distribution>
<distribution id="likelihood" spec="util.CompoundDistribution">
<distribution id="treeLikelihood.cpacific" spec="ThreadedTreeLikelihood" data="@cpacific" tree="@Tree.t:cpacific">
<siteModel id="SiteModel.s:cpacific" spec="SiteModel" gammaCategoryCount="4">
<parameter id="mutationRate.s:cpacific" estimate="false" name="mutationRate">1.0</parameter>
<parameter id="gammaShape.s:cpacific" estimate="false" name="shape">1.0</parameter>
<parameter id="proportionInvariant.s:cpacific" estimate="false" lower="0.0" name="proportionInvariant" upper="1.0">0.0</parameter>
<substModel id="JC69.s:cpacific" spec="JukesCantor"/>
</siteModel>
<branchRateModel id="StrictClock.c:cpacific" spec="beast.evolution.branchratemodel.StrictClockModel" clock.rate="@clockRate.c:cpacific"/>
</distribution>
</distribution>
</distribution>
<operator id="YuleBirthRateScaler.t:cpacific" spec="ScaleOperator" parameter="@birthRate.t:cpacific" scaleFactor="0.75" weight="3.0"/>
<operator id="YuleModelTreeScaler.t:cpacific" spec="ScaleOperator" scaleFactor="0.5" tree="@Tree.t:cpacific" weight="3.0"/>
<operator id="YuleModelTreeRootScaler.t:cpacific" spec="ScaleOperator" rootOnly="true" scaleFactor="0.5" tree="@Tree.t:cpacific" weight="3.0"/>
<operator id="YuleModelUniformOperator.t:cpacific" spec="Uniform" tree="@Tree.t:cpacific" weight="30.0"/>
<operator id="YuleModelSubtreeSlide.t:cpacific" spec="SubtreeSlide" tree="@Tree.t:cpacific" weight="15.0"/>
<operator id="YuleModelNarrow.t:cpacific" spec="Exchange" tree="@Tree.t:cpacific" weight="15.0"/>
<operator id="YuleModelWide.t:cpacific" spec="Exchange" isNarrow="false" tree="@Tree.t:cpacific" weight="3.0"/>
<operator id="YuleModelWilsonBalding.t:cpacific" spec="WilsonBalding" tree="@Tree.t:cpacific" weight="3.0"/>
<operator id="StrictClockRateScaler.c:cpacific" spec="ScaleOperator" parameter="@clockRate.c:cpacific" scaleFactor="0.75" weight="3.0"/>
<operator id="strictClockUpDownOperator.c:cpacific" spec="UpDownOperator" scaleFactor="0.75" weight="3.0">
<up idref="clockRate.c:cpacific"/>
<down idref="Tree.t:cpacific"/>
</operator>
<logger id="tracelog" fileName="cpacific-ctmc- strict.log" logEvery="1000" model="@posterior" sanitiseHeaders="true" sort="smart">
<log idref="posterior"/>
<log idref="likelihood"/>
<log idref="prior"/>
<log idref="treeLikelihood.cpacific"/>
<log id="TreeHeight.t:cpacific" spec="beast.evolution.tree.TreeHeightLogger" tree="@Tree.t:cpacific"/>
<log idref="YuleModel.t:cpacific"/>
<log idref="birthRate.t:cpacific"/>
<log idref="NewZealand.prior"/>
<log idref="clockRate.c:cpacific"/>
</logger>
<logger id="screenlog" logEvery="1000">
<log idref="posterior"/>
<log id="ESS.0" spec="util.ESS" arg="@posterior"/>
<log idref="likelihood"/>
<log idref="prior"/>
</logger>
<logger id="treelog.t:cpacific" fileName="cpacific-ctmc- strict.trees" logEvery="1000" mode="tree">
<log id="TreeWithMetaDataLogger.t:cpacific" spec="beast.evolution.tree.TreeWithMetaDataLogger" tree="@Tree.t:cpacific"/>
</logger>
</run>
</beast>