#NEXUS [written Sat Jun 07 11:47:58 PDT 2008 by Mesquite version 2.5 BETA 2 (build j76) at Thrandina.local/192.168.0.136 (Wayne Maddison)] BEGIN TAXA; TITLE Untitled_Block_of_Taxa; DIMENSIONS NTAX=100; TAXLABELS taxon_1 taxon_2 taxon_3 taxon_4 taxon_5 taxon_6 taxon_7 taxon_8 taxon_9 taxon_10 taxon_11 taxon_12 taxon_13 taxon_14 taxon_15 taxon_16 taxon_17 taxon_18 taxon_19 taxon_20 taxon_21 taxon_22 taxon_23 taxon_24 taxon_25 taxon_26 taxon_27 taxon_28 taxon_29 taxon_30 taxon_31 taxon_32 taxon_33 taxon_34 taxon_35 taxon_36 taxon_37 taxon_38 taxon_39 taxon_40 taxon_41 taxon_42 taxon_43 taxon_44 taxon_45 taxon_46 taxon_47 taxon_48 taxon_49 taxon_50 taxon_51 taxon_52 taxon_53 taxon_54 taxon_55 taxon_56 taxon_57 taxon_58 taxon_59 taxon_60 taxon_61 taxon_62 taxon_63 taxon_64 taxon_65 taxon_66 taxon_67 taxon_68 taxon_69 taxon_70 taxon_71 taxon_72 taxon_73 taxon_74 taxon_75 taxon_76 taxon_77 taxon_78 taxon_79 taxon_80 taxon_81 taxon_82 taxon_83 taxon_84 taxon_85 taxon_86 taxon_87 taxon_88 taxon_89 taxon_90 taxon_91 taxon_92 taxon_93 taxon_94 taxon_95 taxon_96 taxon_97 taxon_98 taxon_99 taxon_100 ; IDS WM1148f47d2061 WM1148f47d2072 WM1148f47d2073 WM1148f47d2074 WM1148f47d2075 WM1148f47d2076 WM1148f47d2077 WM1148f47d2078 WM1148f47d2079 WM1148f47d20710 WM1148f47d20711 WM1148f47d20712 WM1148f47d20713 WM1148f47d20714 WM1148f47d20715 WM1148f47d20716 WM1148f47d20717 WM1148f47d20718 WM1148f47d20719 WM1148f47d20720 WM1148f47d20721 WM1148f47d20722 WM1148f47d20723 WM1148f47d20724 WM1148f47d20725 WM1148f47d20726 WM1148f47d20727 WM1148f47d20728 WM1148f47d20729 WM1148f47d20830 WM1148f47d20831 WM1148f47d20832 WM114911cd1be833 WM114911cd1be834 WM114911cd1be835 WM114911cd1be836 WM114911cd1be837 WM114911cd1bf838 WM114911cd1bf839 WM114911cd1bf840 WM114911cd1bf841 WM114911cd1bf842 WM114911cd1bf843 WM114911cd1bf844 WM114911cd1bf845 WM114911cd1bf846 WM114911cd1bf847 WM114911cd1bf848 WM114911cd1c0849 WM114911cd1c0850 WM114911cd1c0851 WM114911cd1c0852 WM114911cd1c2853 WM114911cd1c2854 WM114911cd1c2855 WM114911cd1c3856 WM114911cd1c3857 WM114911cd1c3858 WM114911cd1c3859 WM114911cd1c3860 WM114911cd1c3861 WM114911cd1c3862 WM114911cd1c3863 WM114911cd1c5864 WM114911cd1c6865 WM114911cd1c6866 WM114911cd1c7867 WM114911cd1c7868 WM114911cd1c7869 WM114911cd1c7870 WM114911cd1c7871 WM114911cd1c7872 WM114911cd1c7873 WM114911cd1c7874 WM114911cd1c7875 WM114911cd1c7876 WM114911cd1c7877 WM114911cd1c7878 WM114911cd1c7879 WM114911cd1c7880 WM114911cd1c7881 WM114911cd1c7882 WM114911cd1c8883 WM114911cd1c8884 WM114911cd1c8885 WM114911cd1c8886 WM114911cd1c8887 WM114911cd1c8888 WM114911cd1c8889 WM114911cd1c8890 WM114911cd1c8891 WM114911cd1c8892 WM114911cd1c8893 WM114911cd1c8894 WM114911cd1c8895 WM114911cd1c8896 WM114911cd1c8897 WM114911cd1c9898 WM114911cd1c9899 WM114911cd1c9900 ; BLOCKID WM1148f47d2081; END; BEGIN CHARACTERS; TITLE 'Matrix in file "07-contTreeSim.nex"'; DIMENSIONS NCHAR=5; FORMAT DATATYPE = CONTINUOUS GAP = - MISSING = ?; CHARSTATELABELS 1 Sim._with_tree_1, 2 Sim._with_tree_2, 3 Sim._with_tree_3, 4 Sim._with_tree_4, 5 Sim._with_tree_5 ; MATRIX taxon_1 0.09224472101786713 -1.5077552789821327 -2.3077552789821327 -1.9077552789821326 -1.1077552789821328 taxon_2 -1.9077552789821326 -1.9077552789821326 -1.5077552789821327 -0.3077552789821329 -1.5077552789821327 taxon_3 -1.1077552789821328 -1.9077552789821326 -1.5077552789821327 -1.1077552789821328 -0.7077552789821329 taxon_4 -0.7077552789821329 -0.7077552789821329 -3.507755278982134 -0.7077552789821329 -1.5077552789821327 taxon_5 -0.7077552789821329 -0.7077552789821329 -5.507755278982136 -1.5077552789821327 -1.5077552789821327 taxon_6 -0.3077552789821329 -3.1077552789821334 -1.5077552789821327 -5.107755278982135 -0.3077552789821329 taxon_7 -0.3077552789821329 -3.1077552789821334 -3.1077552789821334 -1.5077552789821327 -0.7077552789821329 taxon_8 -0.3077552789821329 -3.907755278982134 -3.507755278982134 -1.1077552789821328 -0.3077552789821329 taxon_9 -0.7077552789821329 -5.507755278982136 -1.5077552789821327 0.09224472101786713 -2.707755278982133 taxon_10 0.49224472101786715 -0.7077552789821329 -1.5077552789821327 -1.1077552789821328 -1.1077552789821328 taxon_11 -0.7077552789821329 -0.3077552789821329 -1.9077552789821326 -0.7077552789821329 -1.1077552789821328 taxon_12 -0.7077552789821329 -1.5077552789821327 -1.5077552789821327 -1.9077552789821326 -0.7077552789821329 taxon_13 -1.5077552789821327 -3.1077552789821334 -1.1077552789821328 -0.3077552789821329 -5.507755278982136 taxon_14 -0.3077552789821329 -1.1077552789821328 -1.5077552789821327 -0.7077552789821329 -1.1077552789821328 taxon_15 -0.3077552789821329 -0.3077552789821329 -1.9077552789821326 -1.9077552789821326 -6.707755278982137 taxon_16 0.49224472101786715 -0.7077552789821329 -1.1077552789821328 0.09224472101786713 -2.707755278982133 taxon_17 -0.3077552789821329 -1.5077552789821327 -3.907755278982134 -0.3077552789821329 -1.5077552789821327 taxon_18 0.49224472101786715 -9.107755278982134 -2.707755278982133 -2.3077552789821327 -0.7077552789821329 taxon_19 0.49224472101786715 -0.7077552789821329 -1.9077552789821326 -2.3077552789821327 -1.1077552789821328 taxon_20 -0.3077552789821329 -1.5077552789821327 -2.707755278982133 -1.1077552789821328 -1.5077552789821327 taxon_21 -1.5077552789821327 -0.3077552789821329 -2.3077552789821327 -1.5077552789821327 -2.3077552789821327 taxon_22 -0.3077552789821329 -1.5077552789821327 -7.107755278982137 -0.7077552789821329 -2.3077552789821327 taxon_23 0.09224472101786713 -0.7077552789821329 -2.707755278982133 -0.7077552789821329 -1.1077552789821328 taxon_24 -0.7077552789821329 -0.3077552789821329 -1.9077552789821326 -1.1077552789821328 -1.5077552789821327 taxon_25 -1.5077552789821327 -0.7077552789821329 -0.3077552789821329 0.09224472101786713 -1.1077552789821328 taxon_26 -0.7077552789821329 -2.3077552789821327 -3.907755278982134 -1.9077552789821326 -1.1077552789821328 taxon_27 -0.7077552789821329 -0.7077552789821329 -2.3077552789821327 -0.3077552789821329 -1.1077552789821328 taxon_28 -1.1077552789821328 0.09224472101786713 -2.707755278982133 -1.5077552789821327 -1.5077552789821327 taxon_29 0.09224472101786713 -0.7077552789821329 -1.9077552789821326 -0.7077552789821329 0.09224472101786713 taxon_30 -8.707755278982136 -1.5077552789821327 -3.1077552789821334 -1.5077552789821327 -0.7077552789821329 taxon_31 -0.3077552789821329 -0.3077552789821329 -5.107755278982135 -1.1077552789821328 -1.5077552789821327 taxon_32 -0.7077552789821329 -1.9077552789821326 -1.1077552789821328 -0.7077552789821329 -1.9077552789821326 taxon_33 0.09224472101786713 -1.5077552789821327 -3.507755278982134 -0.7077552789821329 -0.7077552789821329 taxon_34 0.09224472101786713 -1.1077552789821328 -2.707755278982133 -0.3077552789821329 -1.5077552789821327 taxon_35 -0.3077552789821329 -1.5077552789821327 -2.707755278982133 -7.907755278982138 -4.707755278982135 taxon_36 -6.307755278982136 -0.3077552789821329 -1.9077552789821326 -0.7077552789821329 -1.1077552789821328 taxon_37 -0.7077552789821329 -0.3077552789821329 -1.9077552789821326 -0.7077552789821329 -1.1077552789821328 taxon_38 -0.7077552789821329 -1.1077552789821328 -1.9077552789821326 -1.9077552789821326 -0.7077552789821329 taxon_39 -0.3077552789821329 -1.1077552789821328 -2.3077552789821327 -1.5077552789821327 -1.1077552789821328 taxon_40 -1.5077552789821327 -1.9077552789821326 -3.907755278982134 -0.7077552789821329 -1.5077552789821327 taxon_41 0.49224472101786715 -3.1077552789821334 -1.9077552789821326 -0.3077552789821329 -2.3077552789821327 taxon_42 0.09224472101786713 -1.9077552789821326 -2.707755278982133 -0.7077552789821329 -2.3077552789821327 taxon_43 -0.3077552789821329 -3.507755278982134 -2.3077552789821327 -0.3077552789821329 -1.1077552789821328 taxon_44 -0.7077552789821329 -1.5077552789821327 -1.1077552789821328 -0.7077552789821329 -0.3077552789821329 taxon_45 -0.3077552789821329 -1.1077552789821328 -1.9077552789821326 -0.3077552789821329 -1.5077552789821327 taxon_46 -0.3077552789821329 -0.7077552789821329 -1.1077552789821328 -0.7077552789821329 -0.7077552789821329 taxon_47 0.09224472101786713 -0.7077552789821329 -0.7077552789821329 -1.1077552789821328 -1.1077552789821328 taxon_48 -1.9077552789821326 -0.7077552789821329 -1.5077552789821327 -0.3077552789821329 -1.5077552789821327 taxon_49 -0.3077552789821329 -0.7077552789821329 -0.7077552789821329 0.09224472101786713 -1.5077552789821327 taxon_50 -5.107755278982135 -0.7077552789821329 -2.707755278982133 -0.3077552789821329 -0.7077552789821329 taxon_51 -2.707755278982133 -1.1077552789821328 -5.107755278982135 -1.1077552789821328 -3.1077552789821334 taxon_52 -0.7077552789821329 -0.7077552789821329 -3.507755278982134 -0.3077552789821329 -0.7077552789821329 taxon_53 -1.1077552789821328 -1.5077552789821327 -1.5077552789821327 -0.7077552789821329 -0.7077552789821329 taxon_54 -0.7077552789821329 -1.1077552789821328 -2.3077552789821327 -0.7077552789821329 -1.9077552789821326 taxon_55 -0.7077552789821329 -2.707755278982133 -1.1077552789821328 -1.1077552789821328 -1.5077552789821327 taxon_56 -0.3077552789821329 -2.707755278982133 -3.1077552789821334 -0.7077552789821329 -1.9077552789821326 taxon_57 -2.3077552789821327 -1.5077552789821327 -1.5077552789821327 -0.3077552789821329 -1.5077552789821327 taxon_58 -0.3077552789821329 -0.3077552789821329 -1.9077552789821326 -1.5077552789821327 -1.5077552789821327 taxon_59 -1.1077552789821328 -1.9077552789821326 -3.1077552789821334 -1.1077552789821328 -3.1077552789821334 taxon_60 -0.3077552789821329 -3.507755278982134 -2.3077552789821327 -0.7077552789821329 -6.307755278982136 taxon_61 -0.3077552789821329 -1.1077552789821328 -1.1077552789821328 -1.5077552789821327 -1.5077552789821327 taxon_62 -0.3077552789821329 -0.7077552789821329 -2.3077552789821327 -0.7077552789821329 -3.1077552789821334 taxon_63 -0.3077552789821329 -1.5077552789821327 -3.507755278982134 0.09224472101786713 -2.707755278982133 taxon_64 -5.107755278982135 -0.7077552789821329 -1.9077552789821326 -0.7077552789821329 -1.1077552789821328 taxon_65 -1.1077552789821328 -0.7077552789821329 -1.9077552789821326 -2.3077552789821327 -0.7077552789821329 taxon_66 -0.7077552789821329 -1.9077552789821326 -3.1077552789821334 -1.9077552789821326 -2.3077552789821327 taxon_67 0.09224472101786713 -1.1077552789821328 -5.507755278982136 -1.1077552789821328 -0.7077552789821329 taxon_68 0.49224472101786715 0.09224472101786713 -1.1077552789821328 -0.7077552789821329 -1.1077552789821328 taxon_69 -1.9077552789821326 -1.5077552789821327 -1.5077552789821327 -0.3077552789821329 -1.9077552789821326 taxon_70 -0.3077552789821329 -0.7077552789821329 -1.1077552789821328 -0.7077552789821329 -1.5077552789821327 taxon_71 -0.3077552789821329 -0.3077552789821329 -2.3077552789821327 -0.3077552789821329 -1.1077552789821328 taxon_72 -1.1077552789821328 -5.107755278982135 -4.707755278982135 -0.7077552789821329 -2.707755278982133 taxon_73 -0.7077552789821329 -1.1077552789821328 -1.5077552789821327 -0.7077552789821329 -1.5077552789821327 taxon_74 0.09224472101786713 -0.3077552789821329 -2.3077552789821327 -0.7077552789821329 -0.7077552789821329 taxon_75 -1.1077552789821328 -1.1077552789821328 -3.907755278982134 -0.3077552789821329 -3.907755278982134 taxon_76 0.09224472101786713 -2.3077552789821327 -3.907755278982134 -1.5077552789821327 -0.3077552789821329 taxon_77 -0.7077552789821329 -1.9077552789821326 -2.3077552789821327 -1.5077552789821327 -2.3077552789821327 taxon_78 -0.7077552789821329 -0.3077552789821329 -2.707755278982133 -2.3077552789821327 -0.7077552789821329 taxon_79 -0.7077552789821329 -1.1077552789821328 -2.3077552789821327 -0.7077552789821329 -0.7077552789821329 taxon_80 0.49224472101786715 -0.7077552789821329 -2.3077552789821327 -0.7077552789821329 -0.7077552789821329 taxon_81 0.09224472101786713 -5.907755278982136 -3.507755278982134 0.09224472101786713 -0.3077552789821329 taxon_82 -0.3077552789821329 -1.5077552789821327 -3.507755278982134 -0.3077552789821329 -1.9077552789821326 taxon_83 0.09224472101786713 -0.7077552789821329 -2.707755278982133 -0.7077552789821329 0.09224472101786713 taxon_84 -0.3077552789821329 -0.3077552789821329 -2.3077552789821327 -1.1077552789821328 -0.7077552789821329 taxon_85 -0.7077552789821329 -2.3077552789821327 -1.5077552789821327 -5.107755278982135 -0.7077552789821329 taxon_86 -0.7077552789821329 -2.3077552789821327 -2.3077552789821327 0.09224472101786713 -0.3077552789821329 taxon_87 -0.3077552789821329 -1.1077552789821328 -1.1077552789821328 -0.3077552789821329 -2.707755278982133 taxon_88 0.49224472101786715 -1.1077552789821328 -1.9077552789821326 -0.7077552789821329 -2.707755278982133 taxon_89 -4.3077552789821345 -1.5077552789821327 -2.707755278982133 -7.907755278982138 -1.1077552789821328 taxon_90 -1.1077552789821328 -1.1077552789821328 -2.707755278982133 -0.7077552789821329 -1.5077552789821327 taxon_91 -0.3077552789821329 -7.107755278982137 -1.5077552789821327 -0.3077552789821329 -2.707755278982133 taxon_92 -0.7077552789821329 -0.7077552789821329 -1.5077552789821327 -0.3077552789821329 -2.3077552789821327 taxon_93 -0.7077552789821329 -1.9077552789821326 -1.1077552789821328 -0.3077552789821329 -0.7077552789821329 taxon_94 -0.7077552789821329 -1.1077552789821328 -1.5077552789821327 -0.7077552789821329 -1.1077552789821328 taxon_95 -0.3077552789821329 -2.3077552789821327 -4.3077552789821345 -0.7077552789821329 -0.7077552789821329 taxon_96 -0.3077552789821329 -0.3077552789821329 -1.1077552789821328 -1.5077552789821327 -2.707755278982133 taxon_97 0.09224472101786713 -0.7077552789821329 -1.1077552789821328 -0.7077552789821329 -8.707755278982136 taxon_98 -0.3077552789821329 -0.7077552789821329 -5.907755278982136 -0.3077552789821329 -2.3077552789821327 taxon_99 -0.3077552789821329 -0.7077552789821329 -1.9077552789821326 0.09224472101786713 -2.3077552789821327 taxon_100 0.09224472101786713 -0.7077552789821329 -1.1077552789821328 0.09224472101786713 -3.507755278982134 ; IDS WM1149124016241 WM1149124016242 WM1149124016243 WM1149124016244 WM1149124016245 ; BLOCKID WM11493f9adec0; END; BEGIN TREES; Title 'Trees from "07-contTreeSim.nex"'; LINK Taxa = Untitled_Block_of_Taxa; TRANSLATE 1 taxon_1, 2 taxon_2, 3 taxon_3, 4 taxon_4, 5 taxon_5, 6 taxon_6, 7 taxon_7, 8 taxon_8, 9 taxon_9, 10 taxon_10, 11 taxon_11, 12 taxon_12, 13 taxon_13, 14 taxon_14, 15 taxon_15, 16 taxon_16, 17 taxon_17, 18 taxon_18, 19 taxon_19, 20 taxon_20, 21 taxon_21, 22 taxon_22, 23 taxon_23, 24 taxon_24, 25 taxon_25, 26 taxon_26, 27 taxon_27, 28 taxon_28, 29 taxon_29, 30 taxon_30, 31 taxon_31, 32 taxon_32, 33 taxon_33, 34 taxon_34, 35 taxon_35, 36 taxon_36, 37 taxon_37, 38 taxon_38, 39 taxon_39, 40 taxon_40, 41 taxon_41, 42 taxon_42, 43 taxon_43, 44 taxon_44, 45 taxon_45, 46 taxon_46, 47 taxon_47, 48 taxon_48, 49 taxon_49, 50 taxon_50, 51 taxon_51, 52 taxon_52, 53 taxon_53, 54 taxon_54, 55 taxon_55, 56 taxon_56, 57 taxon_57, 58 taxon_58, 59 taxon_59, 60 taxon_60, 61 taxon_61, 62 taxon_62, 63 taxon_63, 64 taxon_64, 65 taxon_65, 66 taxon_66, 67 taxon_67, 68 taxon_68, 69 taxon_69, 70 taxon_70, 71 taxon_71, 72 taxon_72, 73 taxon_73, 74 taxon_74, 75 taxon_75, 76 taxon_76, 77 taxon_77, 78 taxon_78, 79 taxon_79, 80 taxon_80, 81 taxon_81, 82 taxon_82, 83 taxon_83, 84 taxon_84, 85 taxon_85, 86 taxon_86, 87 taxon_87, 88 taxon_88, 89 taxon_89, 90 taxon_90, 91 taxon_91, 92 taxon_92, 93 taxon_93, 94 taxon_94, 95 taxon_95, 96 taxon_96, 97 taxon_97, 98 taxon_98, 99 taxon_99, 100 taxon_100; TREE 'Simulated Tree (with character) 1' = (((((((69:0.03,13:0.03):0.03,48:0.060000000000000005):0.12999999999999998,((((5:0.01,66:0.01):0.05,(((4:0.02,55:0.02):0.02,9:0.04):0.01,((72:0.02,90:0.02):0.02,(((86:0.01,26:0.01):0.01,11:0.02):0.01,(99:0.02,(38:0.01,27:0.01):0.01):0.01):0.01):0.01):0.01):0.03,(25:0.02,65:0.02):0.07):0.07,((((((((6:0.01,20:0.01):0.01,(49:0.01,8:0.01):0.01):0.02,(88:0.03,((47:0.01,74:0.01):0.01,(7:0.01,62:0.01):0.01):0.01):0.01):0.01,(((63:0.01,31:0.01):0.01,(78:0.01,24:0.01):0.01):0.01,(75:0.01,59:0.01):0.02):0.02):0.01,(((23:0.01,42:0.01):0.01,(96:0.01,84:0.01):0.01):0.01,((95:0.01,39:0.01):0.01,94:0.02):0.01):0.03):0.02,((((((68:0.01,19:0.01):0.02,80:0.03):0.01,(70:0.02,79:0.02):0.02):0.01,((32:0.02,93:0.02):0.02,((35:0.02,15:0.02):0.01,(56:0.02,17:0.02):0.01):0.01):0.01):0.01,((((54:0.02,37:0.02):0.01,(60:0.02,85:0.02):0.01):0.01,(43:0.03,(45:0.02,77:0.02):0.01):0.01):0.01,(((10:0.02,16:0.02):0.01,(81:0.02,18:0.02):0.01):0.01,((76:0.02,87:0.02):0.01,(91:0.02,73:0.02):0.01):0.01):0.01):0.01):0.01,((((58:0.02,33:0.02):0.01,41:0.03):0.01,61:0.04):0.02,((((97:0.02,67:0.02):0.01,(82:0.02,34:0.02):0.01):0.01,((83:0.02,29:0.02):0.01,(46:0.02,22:0.02):0.01):0.01):0.01,(((98:0.02,52:0.02):0.01,14:0.03):0.01,(1:0.02,100:0.02):0.02):0.01):0.01):0.01):0.01):0.060000000000000005,((51:0.05,2:0.05):0.04,((21:0.060000000000000005,3:0.060000000000000005):0.01,(((44:0.02,12:0.02):0.02,((53:0.02,92:0.02):0.01,(28:0.02,40:0.02):0.01):0.01):0.01,71:0.05):0.02):0.02):0.05):0.01,57:0.15):0.01):0.03):0.4300000000000002,36:0.6200000000000003):1.330000000000001,50:1.9500000000000015):0.16,30:2.109999999999999):0.19000000000000003,(89:0.10999999999999999,64:0.10999999999999999):2.1899999999999973):0.0; TREE 'Simulated Tree (with character) 2' = (18:3.139999999999977,((9:0.7000000000000004,81:0.7000000000000004):0.24000000000000007,((((((93:0.04,56:0.04):0.02,2:0.060000000000000005):0.01,(59:0.060000000000000005,66:0.060000000000000005):0.01):0.48000000000000026,6:0.5500000000000003):0.10999999999999999,91:0.6600000000000004):0.10999999999999999,(((76:0.09,((26:0.07,7:0.07):0.01,(((32:0.02,86:0.02):0.03,(35:0.03,44:0.03):0.02):0.02,(95:0.02,85:0.02):0.05):0.01):0.01):0.21000000000000005,(43:0.03,55:0.03):0.2700000000000001):0.18000000000000002,((8:0.34000000000000014,(((((25:0.01,19:0.01):0.05,((17:0.01,89:0.01):0.03,((97:0.02,79:0.02):0.01,(27:0.01,46:0.01):0.02):0.01):0.02):0.02,(((((11:0.01,31:0.01):0.01,(98:0.01,47:0.01):0.01):0.01,((5:0.01,52:0.01):0.01,(96:0.01,74:0.01):0.01):0.01):0.01,(62:0.01,49:0.01):0.03):0.02,73:0.060000000000000005):0.02):0.01,(((((75:0.03,100:0.03):0.01,(15:0.01,24:0.01):0.03):0.01,((80:0.01,4:0.01):0.01,21:0.02):0.03):0.01,((78:0.01,71:0.01):0.04,(64:0.02,(54:0.01,87:0.01):0.01):0.03):0.01):0.02,(((((22:0.02,94:0.02):0.01,(61:0.01,34:0.01):0.02):0.01,(((50:0.01,16:0.01):0.01,65:0.02):0.01,29:0.03):0.01):0.01,(39:0.04,((10:0.01,48:0.01):0.02,23:0.03):0.01):0.01):0.02,((30:0.05,(((12:0.01,53:0.01):0.01,(82:0.01,63:0.01):0.01):0.01,(20:0.02,42:0.02):0.01):0.02):0.01,((70:0.02,88:0.02):0.03,(51:0.04,92:0.04):0.01):0.01):0.01):0.01):0.01):0.02,((((14:0.02,38:0.02):0.01,1:0.03):0.04,((99:0.05,((36:0.02,58:0.02):0.02,((37:0.02,28:0.02):0.01,(84:0.02,68:0.02):0.01):0.01):0.01):0.01,((90:0.04,33:0.04):0.01,83:0.05):0.01):0.01):0.02,(3:0.08,(67:0.05,(45:0.03,57:0.03):0.02):0.03):0.01):0.02):0.23000000000000007):0.060000000000000005,(((41:0.13999999999999999,(69:0.09999999999999999,77:0.09999999999999999):0.04):0.05,(40:0.060000000000000005,13:0.060000000000000005):0.12999999999999998):0.02,(72:0.18000000000000002,60:0.18000000000000002):0.03):0.19000000000000003):0.08):0.2900000000000001):0.17):2.199999999999997):0.0; TREE 'Simulated Tree (with character) 3' = (22:2.159999999999998,((((67:0.5100000000000002,5:0.5100000000000002):0.15,40:0.6600000000000004):0.22000000000000006,((((62:0.060000000000000005,74:0.060000000000000005):0.3300000000000001,((63:0.09,((7:0.02,18:0.02):0.02,(76:0.01,17:0.01):0.03):0.05):0.10999999999999999,75:0.20000000000000004):0.19000000000000003):0.01,((((20:0.01,50:0.01):0.01,42:0.02):0.17,((80:0.060000000000000005,60:0.060000000000000005):0.04,((43:0.04,(36:0.03,58:0.03):0.01):0.02,(71:0.03,84:0.03):0.03):0.04):0.09):0.04,(((((14:0.02,11:0.02):0.02,(85:0.03,((94:0.01,73:0.01):0.01,57:0.02):0.01):0.01):0.02,86:0.060000000000000005):0.04,39:0.09999999999999999):0.10999999999999999,((((((9:0.02,13:0.02):0.04,(16:0.02,12:0.02):0.04):0.08,((1:0.07,(90:0.05,(34:0.04,83:0.04):0.01):0.02):0.04,(93:0.060000000000000005,((27:0.03,78:0.03):0.02,38:0.05):0.01):0.05):0.03):0.02,((((48:0.07,(64:0.01,29:0.01):0.060000000000000005):0.05,((((53:0.02,68:0.02):0.04,77:0.060000000000000005):0.03,(((2:0.02,92:0.02):0.04,((97:0.01,44:0.01):0.02,6:0.03):0.03):0.02,((96:0.01,100:0.01):0.01,3:0.02):0.060000000000000005):0.01):0.01,19:0.09999999999999999):0.02):0.01,((89:0.05,23:0.05):0.060000000000000005,(((((47:0.02,46:0.02):0.02,70:0.04):0.01,(45:0.03,69:0.03):0.02):0.02,((((87:0.01,55:0.01):0.01,10:0.02):0.02,99:0.04):0.02,49:0.060000000000000005):0.01):0.01,(25:0.04,(32:0.03,61:0.03):0.01):0.04):0.03):0.02):0.02,((24:0.09,((91:0.04,37:0.04):0.02,(41:0.05,21:0.05):0.01):0.03):0.04,(30:0.060000000000000005,54:0.060000000000000005):0.07):0.02):0.01):0.01,((65:0.060000000000000005,88:0.060000000000000005):0.01,(28:0.05,(35:0.04,79:0.04):0.01):0.02):0.09999999999999999):0.02,((56:0.04,66:0.04):0.11999999999999998,((8:0.02,81:0.02):0.10999999999999999,82:0.12999999999999998):0.03):0.03):0.02):0.02):0.17):0.05,((98:0.3200000000000001,(72:0.10999999999999999,31:0.10999999999999999):0.21000000000000005):0.060000000000000005,(51:0.37000000000000016,((((59:0.05,33:0.05):0.01,52:0.060000000000000005):0.09,15:0.15):0.060000000000000005,95:0.21000000000000005):0.16):0.01):0.07):0.4300000000000002):0.03,(4:0.5100000000000002,26:0.5100000000000002):0.4000000000000002):1.2500000000000009):0.0; TREE 'Simulated Tree (with character) 4' = (89:2.8399999999999834,((((((((((37:0.01,42:0.01):0.01,32:0.02):0.01,((91:0.01,98:0.01):0.01,68:0.02):0.01):0.02,(11:0.01,64:0.01):0.04):0.01,((80:0.01,79:0.01):0.01,(71:0.01,43:0.01):0.01):0.04):0.08,((((30:0.08,((28:0.04,(65:0.02,18:0.02):0.02):0.01,(1:0.02,39:0.02):0.03):0.03):0.02,(78:0.04,(66:0.02,19:0.02):0.02):0.060000000000000005):0.02,(((34:0.02,13:0.02):0.01,(51:0.02,36:0.02):0.01):0.08,(61:0.09,(((((86:0.02,25:0.02):0.01,(57:0.02,90:0.02):0.01):0.02,((56:0.02,72:0.02):0.01,67:0.03):0.02):0.02,((8:0.05,(((87:0.02,99:0.02):0.01,(45:0.02,17:0.02):0.01):0.01,69:0.04):0.01):0.01,((70:0.02,24:0.02):0.03,(((83:0.02,53:0.02):0.01,(41:0.02,16:0.02):0.01):0.01,((82:0.02,95:0.02):0.01,48:0.03):0.01):0.01):0.01):0.01):0.01,7:0.08):0.01):0.02):0.01):0.01,((((40:0.04,(20:0.02,59:0.02):0.02):0.04,((22:0.05,(((29:0.02,94:0.02):0.01,(52:0.02,100:0.02):0.01):0.01,((50:0.02,93:0.02):0.01,(49:0.02,2:0.02):0.01):0.01):0.01):0.02,((((76:0.02,21:0.02):0.01,(10:0.02,14:0.02):0.01):0.01,60:0.04):0.02,(((75:0.02,62:0.02):0.01,(63:0.02,81:0.02):0.01):0.01,((9:0.02,92:0.02):0.01,(73:0.02,54:0.02):0.01):0.01):0.02):0.01):0.01):0.02,((((97:0.03,(27:0.02,4:0.02):0.01):0.01,(44:0.03,(23:0.02,74:0.02):0.01):0.01):0.01,55:0.05):0.01,77:0.060000000000000005):0.04):0.01,((((96:0.02,5:0.02):0.03,(47:0.04,(46:0.02,33:0.02):0.02):0.01):0.02,(3:0.02,31:0.02):0.05):0.01,((84:0.02,58:0.02):0.02,88:0.04):0.04):0.03):0.02):0.01):0.02,((12:0.03,(26:0.02,15:0.02):0.01):0.02,38:0.05):0.10999999999999999):0.36000000000000015,85:0.5200000000000002):0.2700000000000001,6:0.7900000000000005):1.8600000000000014,35:2.6499999999999875):0.19000000000000003):0.0; TREE 'Simulated Tree (with character) 5' = (97:3.799999999999963,(15:1.0100000000000007,((((((96:0.05,(41:0.03,9:0.03):0.02):0.09999999999999999,62:0.15):0.09999999999999999,((((36:0.03,(49:0.01,2:0.01):0.02):0.03,82:0.060000000000000005):0.03,21:0.09):0.12999999999999998,((((77:0.03,22:0.03):0.07,(((67:0.03,50:0.03):0.03,56:0.060000000000000005):0.03,(((8:0.02,29:0.02):0.02,((83:0.02,6:0.02):0.01,(81:0.02,38:0.02):0.01):0.01):0.01,((79:0.03,95:0.03):0.01,((71:0.02,33:0.02):0.01,65:0.03):0.01):0.01):0.04):0.01):0.060000000000000005,(40:0.15,(70:0.10999999999999999,((52:0.04,(14:0.02,7:0.02):0.02):0.02,(47:0.05,((3:0.03,18:0.03):0.01,26:0.04):0.01):0.01):0.05):0.04):0.01):0.03,(((25:0.07,((32:0.02,5:0.02):0.01,24:0.03):0.04):0.060000000000000005,((58:0.04,61:0.04):0.060000000000000005,((69:0.05,((1:0.02,23:0.02):0.02,20:0.04):0.01):0.02,(28:0.03,(10:0.02,31:0.02):0.01):0.04):0.03):0.03):0.05,((42:0.060000000000000005,72:0.060000000000000005):0.09999999999999999,((((((30:0.03,(44:0.02,76:0.02):0.01):0.01,(12:0.03,93:0.03):0.01):0.01,19:0.05):0.02,((90:0.03,94:0.03):0.01,(4:0.02,57:0.02):0.02):0.03):0.05,(((53:0.02,39:0.02):0.03,55:0.05):0.04,((11:0.04,((86:0.02,85:0.02):0.01,46:0.03):0.01):0.04,54:0.08):0.01):0.03):0.01,((84:0.04,43:0.04):0.01,(34:0.04,64:0.04):0.01):0.08):0.03):0.02):0.01):0.03):0.03):0.03,((((75:0.13999999999999999,(16:0.04,92:0.04):0.09999999999999999):0.01,(((51:0.02,63:0.02):0.09,91:0.10999999999999999):0.01,(88:0.09,98:0.09):0.03):0.03):0.03,(((48:0.02,45:0.02):0.03,66:0.05):0.07,((((89:0.02,74:0.02):0.02,(27:0.03,(68:0.02,80:0.02):0.01):0.01):0.01,78:0.05):0.02,((73:0.04,17:0.04):0.01,37:0.05):0.02):0.05):0.060000000000000005):0.04,((100:0.09,(59:0.02,87:0.02):0.07):0.08,99:0.17):0.05):0.060000000000000005):0.3200000000000001,(13:0.3900000000000002,35:0.3900000000000002):0.21000000000000005):0.11999999999999998,60:0.7200000000000004):0.2900000000000001):2.7899999999999845):0.0; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = Squared: 1 - 5; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = Brownian_default: 1 - 5; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 6732219986260810463 WM1148f47d2081; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 2591902839263838224 WM11493f9adec0; checksum 0 2295126586 WM11493f9adec0; endTell; getWindow; tell It; setResourcesState false false 72; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1163 648; setLocation 8 22; setFont SanSerif; setFontSize 10; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #6732219986260810463 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 786.1187814845004.4817563795317733133; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1091 581; setLocation 8 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.trees.BasicTreeWindowMaker.BasicTreeWindow.arrow; endTell; setActive; getTreeDrawCoordinator #mesquite.trees.BasicTreeDrawCoordinator.BasicTreeDrawCoordinator; tell It; suppress; setTreeDrawer #mesquite.trees.SquareTree.SquareTree; tell It; setNodeLocs #mesquite.trees.NodeLocsStandard.NodeLocsStandard; tell It; stretchToggle off; branchLengthsToggle on; toggleScale on; toggleBroadScale off; toggleCenter on; toggleEven on; endTell; setEdgeWidth 6; orientUp; toggleCorners on; endTell; setBackground White; setBranchColor Black; showNodeNumbers off; showBranchColors on; labelBranchLengths off; centerBrLenLabels on; showBrLensUnspecified on; showBrLenLabelsOnTerminals on; setBrLenLabelColor 0 0 255; setNumBrLenDecimals 6; desuppress; getEmployee #mesquite.trees.BasicDrawTaxonNames.BasicDrawTaxonNames; tell It; setColor Black; toggleColorPartition on; toggleShadePartition off; toggleNodeLabels on; toggleCenterNodeNames off; toggleShowNames on; namesAngle ?; endTell; endTell; setTreeNumber 3; useSuggestedSize off; toggleSizeToFit on; toggleTextOnTree off; showWindow; newAssistant #mesquite.ancstates.TraceCharacterHistory.TraceCharacterHistory; tell It; suspend ; setDisplayMode #mesquite.ancstates.ShadeStatesOnTree.ShadeStatesOnTree; tell It; toggleLabels off; toggleGray off; endTell; setHistorySource #mesquite.ancstates.RecAncestralStates.RecAncestralStates; tell It; getCharacterSource #mesquite.charMatrices.CharSrcCoordObed.CharSrcCoordObed; tell It; setCharacterSource #mesquite.charMatrices.StoredCharacters.StoredCharacters; tell It; setDataSet #2591902839263838224; endTell; endTell; setMethod #mesquite.parsimony.ParsAncestralStates.ParsAncestralStates; tell It; setModelSource #mesquite.parsimony.CurrentParsModels.CurrentParsModels; toggleMPRsMode off; getEmployee #mesquite.parsimony.ParsimonySquared.ParsimonySquared; tell It; toggleWeight on; endTell; endTell; endTell; setCharacter 3; setMapping 1; toggleShowLegend on; toggleGray off; toggleWeights on; setInitialOffsetX -162; setInitialOffsetY -307; setLegendWidth 142; setLegendHeight 302; resume ; endTell; endTell; desuppressEPCResponse; getEmployee #mesquite.trees.ColorBranches.ColorBranches; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.ornamental.BranchNotes.BranchNotes; tell It; setAlwaysOn off; endTell; getEmployee #mesquite.ornamental.ColorTreeByPartition.ColorTreeByPartition; tell It; colorByPartition off; endTell; getEmployee #mesquite.ornamental.DrawTreeAssocDoubles.DrawTreeAssocDoubles; tell It; setOn on; setDigits 4; writeAsPercentage off; toggleHorizontal on; setFontSize 10; setOffset 0 0; endTell; getEmployee #mesquite.trees.TreeInfoValues.TreeInfoValues; tell It; panelOpen false; endTell; endTell; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #2591902839263838224 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1091 581; setLocation 8 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.arrow; colorCells #mesquite.charMatrices.NoColor.NoColor; colorRowNames #mesquite.charMatrices.TaxonGroupColor.TaxonGroupColor; colorColumnNames #mesquite.charMatrices.CharGroupColor.CharGroupColor; colorText #mesquite.charMatrices.NoColor.NoColor; setBackground White; toggleShowNames on; toggleShowTaxonNames on; toggleTight off; toggleShowChanges on; toggleSeparateLines off; toggleShowStates on; toggleAutoWCharNames on; toggleShowDefaultCharNames off; toggleConstrainCW on; setColumnWidth 70; toggleBirdsEye off; toggleAllowAutosize on; toggleColorsPanel off; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; hideWindow; getEmployee #mesquite.charMatrices.ColorCells.ColorCells; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.charMatrices.AnnotPanel.AnnotPanel; tell It; togglePanel off; endTell; getEmployee #mesquite.charMatrices.CharReferenceStrip.CharReferenceStrip; tell It; showStrip off; endTell; getEmployee #mesquite.cont.ItemsEditorForInfoPanel.ItemsEditorForInfoPanel; tell It; panelOpen false; endTell; endTell; endTell; newAssistant #mesquite.basic.ExamplesNavigator.ExamplesNavigator; tell It; setNextFileName '08-binaryTreeSim.nex'; setPrevFileName '06-BiSSEtrees.nex'; getWindow; tell It; popAsTile false; popOut; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 515 205; setLocation 108 630; setFont SanSerif; setFontSize 10; setExplanation 'This shows a tree and character simulated together. The character evolved by brownian motion; the tree speciated with a rate that is the value of the simulated character.^n^nA block of simulated trees and accompanying matrix (such that the i''th character was simulated with the i''th tree) was made by selecting Trees & Diversification Characters from the Taxa & Trees menu. You can choose to simulate as shown (with a continuous character) or with the BiSSE model using a binary character.'; setTitle Simulated_trees_&_characters; toggleFileNames off; setPrevButtonName Previous; setNextButtonName Next; endTell; showWindow; endTell; endTell; end;