S1 File.Trees used for validation:
1. “Simple” tree:
((A:1,B:0.5)E:2, (C:1,D:2.5)F:1)G;
2. Saccharomyces mtDNA tree: https://www.treebase.org/treebase-web/search/downloadATree.html?id=17639&treeid=87814
3. Birth-death tree simulated using script from https://mrnoutahi.com/2017/12/05/How-to-simulate-a-tree/:
((((((T1:116.79,(T2:83.6603,T3:83.6603)N38:33.1294)N24:12.5317,(T4:46.3838,(T5:18.5444,T6:18.5444)N39:27.8395)N25:25.5976)N13:32.5415,((((((T7:37.5678,T8:37.5678)N82:8.74768,(T9:44.8613,T10:44.8613)N83:1.45419)N65:17.4953,(T11:45.5087,T12:45.5087)N66:18.3022)N53:25.988,T13:89.7988)N40:1.19262,(((((T14:27.9386,T15:27.9386)N93:0.0749511,T16:28.0135)N84:20.3702,((T17:22.1673,T18:22.1673)N94:25.9224,T19:38.4437)N85:0.294016)N67:5.54332,(T20:27.0281,T21:27.0281)N68:26.899)N54:7.00789,T22:60.4419)N41:33.3388)N26:4.34746,((((((T23:10.1826,T24:10.1826)N95:9.06651,T25:19.2491)N86:35.4158,((T26:26.0815,(T27:10.5388,T28:10.5388)N98:15.5426)N96:17.5474,T29:43.6289)N87:11.036)N69:64.4076,(T30:2.57187,T31:2.57187)N70:99.9484)N55:7.72235,((T32:61.2703,T33:19.4179)N71:10.8131,(T34:16.436,(T35:14.3702,T36:14.3702)N88:2.0658)N72:61.5218)N56:18.6267)N42:5.357,(((T37:17.1222,T38:17.1222)N73:59.9,(T39:34.2924,(T40:21.3191,T41:21.3191)N89:12.9733)N74:43.416)N57:15.9109,(((T42:16.9741,T43:16.9741)N90:27.2024,T44:44.1765)N75:3.75551,T45:106.276)N58:4.61042)N43:7.04061)N27:6.07344)N14:2.97827)N7:2.75786,((((((T46:32.9801,T47:32.9801)N76:35.2911,(T48:2.22907,T49:2.22907)N77:66.0421)N59:48.5097,T50:116.781)N44:7.34268,(T51:44.9325,T52:16.9697)N45:22.4632)N28:42.3678,(T53:93.6323,(((T54:28.9287,T55:28.9287)N78:5.82522,T56:34.7539)N60:7.52801,T57:36.3987)N46:51.3503)N29:35.9276)N15:3.79065,((((T58:61.987,T59:61.987)N61:57.2967,T60:56.3115)N47:36.2522,(((T61:78.3479,((T62:0.122175,T63:0.122175)N97:62.7904,T64:62.9126)N91:15.4353)N79:3.00615,(T65:18.4186,T66:18.4186)N80:24.9385)N62:28.4884,(T67:29.2966,((T68:2.20881,T69:2.20881)N92:24.89,T70:27.0988)N81:2.19777)N63:62.4042)N48:3.73611)N30:2.52766,(((T71:63.7099,T72:60.4323)N64:8.64423,T73:65.5634)N49:29.4824,(T74:70.9517,T75:25.9515)N50:77.3304)N31:3.43585)N16:6.19689)N8:2.38843)N3:4.38384,(T76:63.0162,T77:52.8485)N4:26.4793)N1:10.0516,(((((T78:1.03215,T79:1.03215)N32:38.0444,(T80:22.9699,T81:22.9699)N33:16.1066)N17:11.2126,(T82:39.6653,T83:39.6653)N18:10.6238)N9:68.7463,((T84:43.3612,T85:43.3612)N19:4.16272,((T86:1.1611,T87:1.1611)N34:37.9485,(T88:32.0615,(T89:25.2452,T90:25.2452)N51:6.8163)N35:7.0481)N20:8.41433)N10:53.9877)N5:2.37979,((((T91:35.0329,(T92:28.1815,T93:28.1815)N52:6.85144)N36:22.3159,(T94:19.6899,T95:19.6899)N37:37.6589)N21:23.1941,(T96:13.6986,T97:7.3596)N22:66.8443)N11:33.2229,((T98:35.4812,T99:35.4812)N23:24.8949,T100:60.3761)N12:5.49216)N6:7.64935)N2:8.61008);
4. Metazoan Mitochondrial Tree
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5. The “comb-like” tree ((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((((A0:1.0,A1:1.0)A2:1.0,A3:1.0)A4:1.0,A5:1.0)A6:1.0,A7:1.0)A8:1.0,A9:1.0)A10:1.0,A11:1.0)A12:1.0,A13:1.0)A14:1.0,A15:1.0)A16:1.0,A17:1.0)A18:1.0,A19:1.0)A20:1.0,A21:1.0)A22:1.0,A23:1.0)A24:1.0,A25:1.0)A26:1.0,A27:1.0)A28:1.0,A29:1.0)A30:1.0,A31:1.0)A32:1.0,A33:1.0)A34:1.0,A35:1.0)A36:1.0,A37:1.0)A38:1.0,A39:1.0)A40:1.0,A41:1.0)A42:1.0,A43:1.0)A44:1.0,A45:1.0)A46:1.0,A47:1.0)A48:1.0,A49:1.0)A50:1.0,A51:1.0)A52:1.0,A53:1.0)A54:1.0,A55:1.0)A56:1.0,A57:1.0)A58:1.0,A59:1.0)A60:1.0,A61:1.0)A62:1.0,A63:1.0)A64:1.0,A65:1.0)A66:1.0,A67:1.0)A68:1.0,A69:1.0)A70:1.0,A71:1.0)A72:1.0,A73:1.0)A74:1.0,A75:1.0)A76:1.0,A77:1.0)A78:1.0,A79:1.0)A80:1.0,A81:1.0)A82:1.0,A83:1.0)A84:1.0,A85:1.0)A86:1.0,A87:1.0)A88:1.0,A89:1.0)A90:1.0,A91:1.0)A92:1.0,A93:1.0)A94:1.0,A95:1.0)A96:1.0,A97:1.0)A98:1.0,A99:1.0)A100:1.0,A101:1.0)A102:1.0,A103:1.0)A104:1.0,A105:1.0)A106:1.0,A107:1.0)A108:1.0,A109:1.0)A110:1.0,A111:1.0)A112:1.0,A113:1.0)A114:1.0,A115:1.0)A116:1.0,A117:1.0)A118:1.0,A119:1.0)A120:1.0,A121:1.0)A122:1.0,A123:1.0)A124:1.0,A125:1.0)A126:1.0,A127:1.0)A128:1.0,A129:1.0)A130:1.0,A131:1.0)A132:1.0,A133:1.0)A134:1.0,A135:1.0)A136:1.0,A137:1.0)A138:1.0,A139:1.0)A140:1.0,A141:1.0)A142:1.0,A143:1.0)A144:1.0,A145:1.0)A146:1.0,A147:1.0)A148:1.0,A149:1.0)A150:1.0,A151:1.0)A152:1.0,A153:1.0)A154:1.0,A1T55:1.0)A156:1.0,A157:1.0)A158:1.0,A159:1.0)A160:1.0,A161:1.0)A162:1.0,A163:1.0)A164:1.0,A165:1.0)A166:1.0,A167:1.0)A168:1.0,A169:1.0)A170:1.0,A171:1.0)A172:1.0,A173:1.0)A174:1.0,A175:1.0)A176:1.0,A177:1.0)A178:1.0,A179:1.0)A180:1.0,A181:1.0)A182:1.0,A183:1.0)A184:1.0,A185:1.0)A186:1.0,A187:1.0)A188:1.0,A189:1.0)A190:1.0,A191:1.0)A192:1.0,A193:1.0)A194:1.0,A195:1.0)A196:1.0,A197:1.0)A198:1.0,A199:1.0)A200;