IQ-TREE 3.1.3 built Jul 26 2026 Partition file name: partition.nex Input file name: nd2_alignment.fasta Type of analysis: ModelFinder + tree reconstruction + ultrafast bootstrap (1000 replicates) Random seed number: 361018 REFERENCES ---------- To cite IQ-TREE 3 please use: Thomas K.F. Wong, Nhan Ly-Trong, Huaiyan Ren, Piyumal Demotte, Hector Banos, Andrew J. Roger, Edward Susko, Chris Bielow, Nicola De Maio, Nick Goldman, Matthew W. Hahn, Mario dos Reis, Le Sy Vinh, Gavin Huttley, Robert Lanfear, Bui Quang Minh (2026) IQ-TREE 3: Phylogenomic Inference Software using Complex Evolutionary Models. Molecular Biology and Evolution, msag117. https://doi.org/10.1093/molbev/msag117 Since you used ModelFinder please also cite: Subha Kalyaanamoorthy, Bui Quang Minh, Thomas KF Wong, Arndt von Haeseler, and Lars S Jermiin (2017) ModelFinder: Fast model selection for accurate phylogenetic estimates. Nature Methods, 14:587–589. https://doi.org/10.1038/nmeth.4285 Since you used ultrafast bootstrap (UFBoot) please also cite: Diep Thi Hoang, Olga Chernomor, Arndt von Haeseler, Bui Quang Minh, and Le Sy Vinh (2018) UFBoot2: Improving the ultrafast bootstrap approximation. Mol. Biol. Evol., 35:518–522. https://doi.org/10.1093/molbev/msx281 Since you used partition models please also cite: Olga Chernomor, Arndt von Haeseler, and Bui Quang Minh (2016) Terrace aware data structure for phylogenomic inference from supermatrices. Syst. Biol., 65:997-1008. https://doi.org/10.1093/sysbio/syw037 SEQUENCE ALIGNMENT ------------------ NOTE: Alignment sequence type is auto-detected. If in doubt, specify it via -st option. Input data: 156 taxa with 3 partitions and 1041 total sites (0% missing data) ID Type Seq Site Unique Infor Invar Const Name 1 DNA 153 347 241 179 143 143 pos1 2 DNA 153 347 161 90 229 229 pos2 3 DNA 153 347 347 338 0 0 pos3 Column meanings: Unique: Number of unique site patterns Infor: Number of parsimony-informative sites Invar: Number of invariant sites Const: Number of constant sites (can be subset of invariant sites) ModelFinder ----------- Best-fit model according to BIC: TVM+F+I+G4:pos1,TIM3+F+I+R2:pos2,TIM3+F+ASC+R4:pos3 List of best-fit models per partition: ID Model LogL AIC w-AIC AICc w-AICc BIC w-BIC 1 TVM+F+I+G4 -6452.036 12924.072 + 3.03e-314 12924.727 + 2.14e-314 12962.565 + 2.45e-314 2 TIM3+F+I+R2 -2727.372 5474.743 + 3.03e-314 5475.398 + 2.14e-314 5513.237 + 2.45e-314 3 TIM3+F+ASC+R4 -15387.144 30800.288 + 3.03e-314 30801.381 + 2.14e-314 30850.329 + 2.45e-314 AIC, w-AIC : Akaike information criterion scores and weights. AICc, w-AICc : Corrected AIC scores and weights. BIC, w-BIC : Bayesian information criterion scores and weights. Plus signs denote the 95% confidence sets. Minus signs denote significant exclusion. SUBSTITUTION PROCESS -------------------- Edge-linked-proportional partition model with separate substitution models and separate rates across sites ID Model Speed Parameters 1 TVM+F+I+G4 0.5743 TVM{0.4114,4.93523,0.414752,0.0741577}+F{0.362619,0.282489,0.15387,0.201022}+I{0.355156}+G4{0.960946} 2 TIM3+F+I+R2 0.1486 TIM3{3.25888,55.768,16.841}+F{0.174191,0.354869,0.0857083,0.385232}+I{0.614804}+R2{0.315385,1.37856,0.0698109,8.09646} 3 TIM3+F+ASC+R4 2.2771 TIM3{0.436474,19.573,11.9756}+F{0.437195,0.373078,0.0573427,0.132384}+ASC+R4{0.0383626,0.109191,0.359354,0.526727,0.564413,1.20362,0.0378707,3.35859} MAXIMUM LIKELIHOOD TREE ----------------------- Log-likelihood of the tree: -24561.0382 (s.e. 726.0517) Unconstrained log-likelihood (without tree): -5323.0663 Number of free parameters (#branches + #model parameters): 335 Akaike information criterion (AIC) score: 49792.0765 Corrected Akaike information criterion (AICc) score: 50111.3956 Bayesian information criterion (BIC) score: 51449.6354 Marginal log-likelihood of the tree: -24914.3616 Marginal Akaike information criterion (mAIC) score: 50498.7232 Total tree length (sum of branch lengths): 9.8257 Sum of internal branch lengths: 4.5285 (46.0881% of tree length) WARNING: 15 near-zero internal branches (<0.0010) should be treated with caution Such branches are denoted by '**' in the figure below NOTE: Tree is UNROOTED although outgroup taxon 'Meropogon_forsteni_EU021535' is drawn at root Numbers in parentheses are SH-aLRT support (%) / ultrafast bootstrap support (%) +------------Actenoides_bougainvillei_excelsus_MG008066 +--| (79/81) | | +-----Actenoides_concretus_MG008065 | +--| (87/98) | +---Actenoides_hombroni_KP291331 +--| (82.6/69) | | +-----Actenoides_lindsayi_MG008067 | +--| (40.6/70) | +----Caridonax_fulgidus_MG008078 +---| (100/100) | | +--Actenoides_monachus_MG008068 | +--| (99.6/100) | +---Actenoides_princeps_MG008070 +--| (84.8/93) | | +--Halcyon_ruficollaris_DQ111853 | | +--| (97.5/100) | | | +**Todiramphus_ruficollaris_MG008180 | | +--| (98.2/99) | | | | +--Todiramphus_gertrudae_KP291321 | | | | +--| (89.1/99) | | | | | | +**Todiramphus_tutus_DQ111854 | | | | | +--| (86.6/99) | | | | | | +**Todiramphus_tutus_atiu_KP291302 | | | | | +**| (0/77) | | | | | +**Todiramphus_tutus_mauke_KP291373 | | | +**| (0/96) | | | | +--Todiramphus_veneratus_KP291261 | | | +--| (81/100) | | | +**Todiramphus_veneratus_youngi_KP291371 | | +--| (98/100) | | | +--Todiramphus_godeffroyi_KP291247 | | +--| (75.3/66) | | | | +**Todiramphus_chloris_MG845643 | | | | +--| (100/100) | | | | | +**Todiramphus_chloris_KP291238 | | | +--| (82.6/97) | | | | +**Todiramphus_chloris_collaris_KP291384 | | | | +--| (98.6/100) | | | | | | +**Todiramphus_chloris_laubmannianus_KP291343 | | | | | +**| (0/61) | | | | | +--Todiramphus_chloris_teraokai_KP291366 | | | +--| (87.5/99) | | | | +**Todiramphus_chloris_humii_KP291392 | | | +--| (99.2/100) | | | +**Todiramphus_enigma_MG008168 | | +--| (83.7/68) | | | | +**Todiramphus_albicilla_KP291351 | | | | +**| (0/75) | | | | | +**Todiramphus_albicilla_KP291320 | | | | +**| (0/79) | | | | | +**Todiramphus_albicilla_KP291348 | | | | +--| (88.3/99) | | | | | +--Todiramphus_chloris_orii_KP291370 | | | | +--| (92.6/98) | | | | | | +**Todiramphus_saurophagus_MG008181 | | | | | +--| (92.1/100) | | | | | +**Todiramphus_saurophagus_KP291374 | | | | +--| (83.1/99) | | | | | | +--Todiramphus_chloris_alberti_KP291375 | | | | | +--| (97.2/100) | | | | | +**Todiramphus_chloris_nusae_KP291391 | | | +--| (75.3/98) | | | | +--Todiramphus_chloris_colcloughi_KP291390 | | | | +--| (99.3/100) | | | | | +**Todiramphus_sordidus_KP291361 | | | +--| (84.4/98) | | | | +--Todiramphus_colonus_KP291383 | | | +--| (75.3/99) | | | | +**Todiramphus_sanctus_MG845661 | | | | +--| (88.9/100) | | | | | +--Todiramphus_sanctus_KP291377 | | | +--| (91.9/100) | | | | +**Todiramphus_sanctus_canacorum_KP291326 | | | +**| (0/84) | | | +**Todiramphus_sanctus_vagans_KP291369 | | +--| (64.4/49) | | | | +--Todiramphus_chloris_amoenus_KP291387 | | | | +**| (0/25) | | | | | | +**Todiramphus_sacer_manuae_KP291342 | | | | | +--| (92.4/100) | | | | | +**Todiramphus_sacer_pealei_KP291354 | | | | +**| (0/31) | | | | | | +--Todiramphus_chloris_marinus_KP291380 | | | | | | +--| (80/100) | | | | | | | +--Todiramphus_sanctus_eximius_KP291298 | | | | | | +--| (87.8/99) | | | | | | | +**Todiramphus_sanctus_vitiensis_KP291386 | | | | | +--| (74.6/95) | | | | | +--Todiramphus_chloris_ornatus_KP291315 | | | | +--| (77.3/97) | | | | | +--Todiramphus_sacer_KP291327 | | | | +--| (93.3/94) | | | | | | +**Todiramphus_chloris_santoensis_KP291239 | | | | | +--| (87.8/99) | | | | | +--Todiramphus_chloris_solomonis_KP291365 | | | +**| (0/44) | | | | +**Todiramphus_pelewensis_KP291334 | | | | +--| (75.7/100) | | | | | +**Todiramphus_pelewensis_KP291319 | | | | +--| (100/100) | | | | | +**Todiramphus_pelewensis_KP291328 | | | +--| (76.7/77) | | | +--Todiramphus_reichenbachii_MG008179 | | +--| (92.5/95) | | | | +**Todiramphus_cinnamominus_MG008165 | | | | +**| (78.4/100) | | | | | +--Todiramphus_cinnamominus_MG008164 | | | | +--| (100/100) | | | | | +**Todiramphus_cinnamominus_KP291296 | | | +**| (0/66) | | | +--Todiramphus_recurvirostris_KP291389 | | +--| (82.9/99) | | | +--Todiramphus_farquhari_MG008171 | | +--| (94/99) | | | +--Todiramphus_australasia_MG008163 | | +--| (84.6/98) | | | | +--Todiramphus_albonotatus_MG008161 | | | +--| (96.9/100) | | | | +--Todiramphus_diops_MG008167 | | | | +--| (75.4/95) | | | | | +--Todiramphus_macleayii_MG008176 | | | +--| (92.1/94) | | | | +--Todiramphus_lazuli_MG008175 | | | +**| (64.1/82) | | | +--Todiramphus_leucopygius_DQ111852 | | +--| (91.9/100) | | | +---Todiramphus_pyrrhopygius_MG008177 | | +--| (98.9/100) | | | +--Todiramphus_funebris_MG008173 | | +--| (95.1/100) | | | +-------Todiramphus_winchelli_KP291381 | | +--| (74.3/98) | | | +-------Todiramphus_nigrocyaneus_KP291256 | +--| (98.8/100) | | +--Syma_megarhyncha_KP291344 | +----| (100/100) | +--Syma_torotoro_MG008149 +--| (47.7/50) | | +--Clytoceyx_rex_DQ111867 | | +--| (91.4/100) | | | +--Dacelo_tyro_MK116653 | | +--| (97.8/100) | | | | +--Dacelo_gaudichaud_MK116649 | | | +--| (100/100) | | | | +--Dacelo_leachii_DQ111865 | | | | +**| (0/28) | | | | | +--Dacelo_leachii_occidentalis_MK116668 | | | | +**| (0/13) | | | | | +**Dacelo_leachii_cervina_MK116671 | | | | +--| (74.3/92) | | | | | +--Dacelo_leachii_MK116669 | | | | +--| (97.3/100) | | | | | +**Dacelo_leachii_intermedia_MK116666 | | | +--| (86/99) | | | +--Dacelo_novaeguineae_MK116667 | +--| (95.4/100) | +---------Melidora_macrorrhina_MG008143 +--| (79.5/65) | | +--Cittura_cyanotis_MG008101 | | +-------| (100/100) | | | +--Cittura_cyanotis_sanghirensis_MG008102 | +--| (97.8/100) | | +--Tanysiptera_galatea_MG008152 | | +--| (98.2/100) | | | +--Tanysiptera_hydrocharis_MG008154 | +--| (99/100) | | +--Tanysiptera_nigriceps_MG008155 | +-----| (100/100) | +--Tanysiptera_sylvia_MG008159 +--| (72.7/90) | | +--Halcyon_albiventris_MG008116 | | +--| (99.6/100) | | | +--Halcyon_albiventris_orientalis_MK579323 | | +--| (98.6/100) | | | | +--Halcyon_cyanoventris_MG008122 | | | | +--| (84.5/92) | | | | | | +--Halcyon_gularis_MG008124 | | | | | +--| (76.1/92) | | | | | +--Halcyon_smyrnensis_MG008133 | | | | +--| (99.2/100) | | | | | +--Halcyon_pileata_MG008129 | | | +--| (86.4/100) | | | +--Halcyon_leucocephala_MG008127 | | +--| (79.5/91) | | | | +**Halcyon_chelicuti_MG008119 | | | +-------| (100/100) | | | +--Halcyon_chelicuti_MK579322 | | +--| (98.5/99) | | | | +----Halcyon_badia_MG008117 | | | +--| (34.9/63) | | | | +**Halcyon_coromanda_MG008121 | | | | +---------| (100/100) | | | | | | +--Halcyon_coromanda_linae_KF818923 | | | | | +--| (39.6/96) | | | | | +--Halcyon_coromanda_major_KF818925 | | | +--| (75.4/68) | | | | +--Halcyon_cyanoleuca_MK579324 | | | | +--| (87.4/100) | | | | | +--Halcyon_senegalensis_MG008130 | | | | +--| (99.3/100) | | | | | +--Halcyon_senegaloides_MG008131 | | | +--| (98.3/100) | | | +--Halcyon_malimbica_EF585389 | +--| (97.6/100) | +-------------Pelargopsis_capensis_MG008147 +--| (92.6/99) | | +**Lacedo_pulchella_MN991453 | +--------------------------| (100/100) | +--Lacedo_pulchella_melanops_MG008137 +----| (95/99) | | +---Alcedo_atthis_EF585373 | | +--| (73.4/98) | | | +---Alcedo_coerulescens_DQ640782 | | +---| (99.6/100) | | | | +---Alcedo_hercules_DQ640783 | | | | +--| (99.6/100) | | | | | +--Alcedo_meninting_MG008074 | | | +--| (45.7/94) | | | | +--Alcedo_quadribrachys_EF585382 | | | +--| (99.2/100) | | | +--Alcedo_semitorquata_DQ640781 | | +--| (72.3/96) | | | +------Alcedo_euryzona_MG008072 | | +--| (79.8/89) | | | | +**Ceyx_argentatus_MH384618 | | | | +--| (99.7/100) | | | | | +**Ceyx_flumenicola_MG008084 | | | | +--| (97.6/100) | | | | | +--Ceyx_cyanopectus_KC112606 | | | | +--| (97.7/100) | | | | | | +--Ceyx_collectoris_MG008082 | | | | | | +--| (94/97) | | | | | | | +--Ceyx_nigromaxilla_MG008090 | | | | | | +**| (0/11) | | | | | | | +--Ceyx_sacerdotis_MG008093 | | | | | | +--| (64.2/12) | | | | | | | | +--Ceyx_mulcatus_MG008089 | | | | | | | +--| (100/100) | | | | | | | +--Ceyx_solitarius_MG008094 | | | | | +--| (71.5/67) | | | | | | +--Ceyx_lepidus_DQ111836 | | | | | +--| (87.1/86) | | | | | +--Ceyx_malaitae_MG008085 | | | | +--| (78.8/100) | | | | | | +--Ceyx_melanurus_DQ640785 | | | | | | +--| (85.2/100) | | | | | | | +**Ceyx_melanurus_MG008086 | | | | | +--| (99.7/100) | | | | | +--Ceyx_melanurus_samarensis_MG008087 | | | | +--| (96.4/100) | | | | | | +--Ceyx_erithaca_EF585385 | | | | | +--| (99.7/100) | | | | | +--Ceyx_rufidorsa_MN991393 | | | | +--| (91.1/100) | | | | | | +--Ceyx_azureus_MG008081 | | | | | | +--| (99.8/100) | | | | | | | +--Ceyx_websteri_MG008095 | | | | | +--| (98.2/100) | | | | | +--Ceyx_pusillus_MG008092 | | | +--| (87.3/96) | | | +-------Ceyx_fallax_DQ640784 | | +--| (60.6/94) | | | | +**Corythornis_cristatus_EF585375 | | | | +--| (60.6/96) | | | | | +--Corythornis_nais_EF585381 | | | | +--| (99.3/100) | | | | | +--Corythornis_cristatus_thomensis_EF585384 | | | | +---| (100/100) | | | | | +--Corythornis_vintsioides_MG008108 | | | | +--| (91.2/100) | | | | | +----Corythornis_leucogaster_EF585379 | | | +--| (40.4/88) | | | +-----Corythornis_madagascariensis_MG008107 | | +---------------| (100/100) | | | | +--Ispidina_lecontei_EF585386 | | | +---| (99.5/100) | | | | +--Ispidina_picta_EU166940 | | | +--| (98.4/100) | | | +--Ispidina_picta_natalensis_MK579325 | +--| (87.1/98) | | +--------------Ceryle_rudis_MG008080 | | +--| (60.6/93) | | | | +----Chloroceryle_aenea_MG008096 | | | | +--| (58.3/99) | | | | | +---Chloroceryle_inda_MG008099 | | | | +-----| (98.8/100) | | | | | +--Chloroceryle_americana_MG008098 | | | +-------| (99.9/100) | | | +-------Chloroceryle_amazona_MG008097 | +-----| (99.8/100) | | +--Megaceryle_alcyon_EU166945 | | +--| (93.6/100) | | | +--Megaceryle_torquata_MG008142 | +--------| (99.9/100) | | +--Megaceryle_lugubris_MG008140 | +---| (98.9/100) | +--Megaceryle_maxima_MG008141 | (48.2/89) +-----------------------------------Momotus_momota_EU166942 | | +-----------------------------Todus_angustirostris_DQ111829 +---| (100/100) | +-------Meropogon_forsteni_EU021535 +-----------------------------------------| +-----------Merops_albicollis_EU021518 Tree in newick format: ((((((((((Actenoides_bougainvillei_excelsus_MG008066:0.1850629524,(Actenoides_concretus_MG008065:0.0959928731,Actenoides_hombroni_KP291331:0.0642444880)87/98:0.0167524231)79/81:0.0064608639,(Actenoides_lindsayi_MG008067:0.0880120905,Caridonax_fulgidus_MG008078:0.0696909761)40.6/70:0.0137317908)82.6/69:0.0129481154,(Actenoides_monachus_MG008068:0.0496349318,Actenoides_princeps_MG008070:0.0630826041)99.6/100:0.0511948252)100/100:0.0608767960,(((((((((((((((Halcyon_ruficollaris_DQ111853:0.0019755086,Todiramphus_ruficollaris_MG008180:0.0000010020)97.5/100:0.0049397431,((Todiramphus_gertrudae_KP291321:0.0029581629,(Todiramphus_tutus_DQ111854:0.0009423444,(Todiramphus_tutus_atiu_KP291302:0.0000010020,Todiramphus_tutus_mauke_KP291373:0.0000010020)0/77:0.0000010020)86.6/99:0.0018645355)89.1/99:0.0019764740,(Todiramphus_veneratus_KP291261:0.0019313622,Todiramphus_veneratus_youngi_KP291371:0.0000010020)81/100:0.0009674411)0/96:0.0000021760)98.2/99:0.0092205651,Todiramphus_godeffroyi_KP291247:0.0059669976)98/100:0.0075247477,((Todiramphus_chloris_MG845643:0.0000010020,Todiramphus_chloris_KP291238:0.0009294982)100/100:0.0132848554,((Todiramphus_chloris_collaris_KP291384:0.0009399656,(Todiramphus_chloris_laubmannianus_KP291343:0.0000010020,Todiramphus_chloris_teraokai_KP291366:0.0018963152)0/61:0.0000026046)98.6/100:0.0091092689,(Todiramphus_chloris_humii_KP291392:0.0000010020,Todiramphus_enigma_MG008168:0.0000010020)99.2/100:0.0100759249)87.5/99:0.0031245274)82.6/97:0.0021713094)75.3/66:0.0010814788,((((((Todiramphus_albicilla_KP291351:0.0000010020,Todiramphus_albicilla_KP291320:0.0000010020)0/75:0.0000010020,Todiramphus_albicilla_KP291348:0.0000010020)0/79:0.0000027654,Todiramphus_chloris_orii_KP291370:0.0010243699)88.3/99:0.0035823161,(Todiramphus_saurophagus_MG008181:0.0000010020,Todiramphus_saurophagus_KP291374:0.0000010020)92.1/100:0.0037523202)92.6/98:0.0044199190,(Todiramphus_chloris_alberti_KP291375:0.0019530977,Todiramphus_chloris_nusae_KP291391:0.0000010020)97.2/100:0.0067652275)83.1/99:0.0024120926,((Todiramphus_chloris_colcloughi_KP291390:0.0010731702,Todiramphus_sordidus_KP291361:0.0009533935)99.3/100:0.0072866217,(Todiramphus_colonus_KP291383:0.0041313410,((Todiramphus_sanctus_MG845661:0.0000010020,Todiramphus_sanctus_KP291377:0.0009917712)88.9/100:0.0019972641,(Todiramphus_sanctus_canacorum_KP291326:0.0000010020,Todiramphus_sanctus_vagans_KP291369:0.0000010020)0/84:0.0000010020)91.9/100:0.0031007659)75.3/99:0.0009930535)84.4/98:0.0019936828)75.3/98:0.0011041548)83.7/68:0.0019549403,(((((Todiramphus_chloris_amoenus_KP291387:0.0030126148,(Todiramphus_sacer_manuae_KP291342:0.0000010020,Todiramphus_sacer_pealei_KP291354:0.0000010020)92.4/100:0.0030110074)0/25:0.0000024912,(((Todiramphus_chloris_marinus_KP291380:0.0009915102,Todiramphus_sanctus_eximius_KP291298:0.0009889550)80/100:0.0009892049,Todiramphus_sanctus_vitiensis_KP291386:0.0000010020)87.8/99:0.0019879730,Todiramphus_chloris_ornatus_KP291315:0.0040493584)74.6/95:0.0010021928)0/31:0.0000028671,Todiramphus_sacer_KP291327:0.0019936516)77.3/97:0.0010034994,(Todiramphus_chloris_santoensis_KP291239:0.0000010020,Todiramphus_chloris_solomonis_KP291365:0.0019967827)87.8/99:0.0020080986)93.3/94:0.0029980572,(((Todiramphus_pelewensis_KP291334:0.0000010020,Todiramphus_pelewensis_KP291319:0.0000010020)75.7/100:0.0009796269,Todiramphus_pelewensis_KP291328:0.0000010020)100/100:0.0145381290,Todiramphus_reichenbachii_MG008179:0.0019906271)76.7/77:0.0010155199)0/44:0.0000028172)64.4/49:0.0010232163,(((Todiramphus_cinnamominus_MG008165:0.0000010020,Todiramphus_cinnamominus_MG008164:0.0018722272)78.4/100:0.0009308154,Todiramphus_cinnamominus_KP291296:0.0000024219)100/100:0.0194049936,Todiramphus_recurvirostris_KP291389:0.0114143062)0/66:0.0000027899)92.5/95:0.0052123789,Todiramphus_farquhari_MG008171:0.0083543408)82.9/99:0.0056657912,Todiramphus_australasia_MG008163:0.0407484784)94/99:0.0155803901,(Todiramphus_albonotatus_MG008161:0.0248488193,((Todiramphus_diops_MG008167:0.0140430847,Todiramphus_macleayii_MG008176:0.0145026938)75.4/95:0.0019599102,(Todiramphus_lazuli_MG008175:0.0211460293,Todiramphus_leucopygius_DQ111852:0.0164347049)64.1/82:0.0007668519)92.1/94:0.0079848342)96.9/100:0.0172623241)84.6/98:0.0132545358,Todiramphus_pyrrhopygius_MG008177:0.0607338758)91.9/100:0.0200126305,Todiramphus_funebris_MG008173:0.0517977321)98.9/100:0.0456573210,Todiramphus_winchelli_KP291381:0.1106313382)95.1/100:0.0268979055,Todiramphus_nigrocyaneus_KP291256:0.1102738005)74.3/98:0.0109898400,(Syma_megarhyncha_KP291344:0.0297946123,Syma_torotoro_MG008149:0.0332100985)100/100:0.0710328605)98.8/100:0.0320387175)84.8/93:0.0150773211,(((Clytoceyx_rex_DQ111867:0.0292569781,Dacelo_tyro_MK116653:0.0424689286)91.4/100:0.0173852121,(Dacelo_gaudichaud_MK116649:0.0268176296,(((((Dacelo_leachii_DQ111865:0.0043827375,Dacelo_leachii_occidentalis_MK116668:0.0010764662)0/28:0.0000010020,Dacelo_leachii_cervina_MK116671:0.0000010020)0/13:0.0000010020,Dacelo_leachii_MK116669:0.0010775622)74.3/92:0.0010891227,Dacelo_leachii_intermedia_MK116666:0.0000029492)97.3/100:0.0199225688,Dacelo_novaeguineae_MK116667:0.0326433437)86/99:0.0135557911)100/100:0.0511761489)97.8/100:0.0332349136,Melidora_macrorrhina_MG008143:0.1418798311)95.4/100:0.0283592591)47.7/50:0.0070130143,((Cittura_cyanotis_MG008101:0.0124160171,Cittura_cyanotis_sanghirensis_MG008102:0.0304469126)100/100:0.1194370631,((Tanysiptera_galatea_MG008152:0.0228927933,Tanysiptera_hydrocharis_MG008154:0.0455132676)98.2/100:0.0366278927,(Tanysiptera_nigriceps_MG008155:0.0138948961,Tanysiptera_sylvia_MG008159:0.0321402697)100/100:0.0878314101)99/100:0.0463516691)97.8/100:0.0335507623)79.5/65:0.0148649524,(((((Halcyon_albiventris_MG008116:0.0120408437,Halcyon_albiventris_orientalis_MK579323:0.0068829888)99.6/100:0.0499817515,(((Halcyon_cyanoventris_MG008122:0.0138378202,(Halcyon_gularis_MG008124:0.0258130339,Halcyon_smyrnensis_MG008133:0.0201715909)76.1/92:0.0039917904)84.5/92:0.0082509787,Halcyon_pileata_MG008129:0.0297902383)99.2/100:0.0363254611,Halcyon_leucocephala_MG008127:0.0447256783)86.4/100:0.0129969231)98.6/100:0.0434607136,(Halcyon_chelicuti_MG008119:0.0000010020,Halcyon_chelicuti_MK579322:0.0009689598)100/100:0.1235836827)79.5/91:0.0149025200,(Halcyon_badia_MG008117:0.0712484232,((Halcyon_coromanda_MG008121:0.0000028869,(Halcyon_coromanda_linae_KF818923:0.0030657524,Halcyon_coromanda_major_KF818925:0.0207558359)39.6/96:0.0011518296)100/100:0.1389067763,(((Halcyon_cyanoleuca_MK579324:0.0056651364,Halcyon_senegalensis_MG008130:0.0109465292)87.4/100:0.0077171350,Halcyon_senegaloides_MG008131:0.0238450560)99.3/100:0.0307861968,Halcyon_malimbica_EF585389:0.0361142309)98.3/100:0.0292575290)75.4/68:0.0074879935)34.9/63:0.0036214028)98.5/99:0.0529860468,Pelargopsis_capensis_MG008147:0.2025071883)97.6/100:0.0425537065)72.7/90:0.0237914011,(Lacedo_pulchella_MN991453:0.0000027765,Lacedo_pulchella_melanops_MG008137:0.0110859807)100/100:0.3817546833)92.6/99:0.0533582302,(((((((Alcedo_atthis_EF585373:0.0647005188,Alcedo_coerulescens_DQ640782:0.0632846309)73.4/98:0.0098703806,((Alcedo_hercules_DQ640783:0.0553261661,Alcedo_meninting_MG008074:0.0326989802)99.6/100:0.0545742428,(Alcedo_quadribrachys_EF585382:0.0281457915,Alcedo_semitorquata_DQ640781:0.0339075417)99.2/100:0.0439530329)45.7/94:0.0136573140)99.6/100:0.0569258743,Alcedo_euryzona_MG008072:0.0991519145)72.3/96:0.0065124691,(((((((Ceyx_argentatus_MH384618:0.0000027853,Ceyx_flumenicola_MG008084:0.0000028666)99.7/100:0.0198914435,Ceyx_cyanopectus_KC112606:0.0268110816)97.6/100:0.0133454649,((((Ceyx_collectoris_MG008082:0.0329681978,Ceyx_nigromaxilla_MG008090:0.0298419480)94/97:0.0093441795,Ceyx_sacerdotis_MG008093:0.0530534683)0/11:0.0000023259,(Ceyx_mulcatus_MG008089:0.0186526039,Ceyx_solitarius_MG008094:0.0205232192)100/100:0.0255728547)64.2/12:0.0018827145,(Ceyx_lepidus_DQ111836:0.0359191955,Ceyx_malaitae_MG008085:0.0271281276)87.1/86:0.0056924862)71.5/67:0.0024754602)97.7/100:0.0190466565,((Ceyx_melanurus_DQ640785:0.0040658210,Ceyx_melanurus_MG008086:0.0007882089)85.2/100:0.0062357929,Ceyx_melanurus_samarensis_MG008087:0.0136069835)99.7/100:0.0420637241)78.8/100:0.0079589922,(Ceyx_erithaca_EF585385:0.0349631307,Ceyx_rufidorsa_MN991393:0.0219924924)99.7/100:0.0418799455)96.4/100:0.0286153455,((Ceyx_azureus_MG008081:0.0123048392,Ceyx_websteri_MG008095:0.0189301551)99.8/100:0.0414345263,Ceyx_pusillus_MG008092:0.0544348170)98.2/100:0.0333757759)91.1/100:0.0220183174,Ceyx_fallax_DQ640784:0.1202594934)87.3/96:0.0149880807)79.8/89:0.0180907561,(((((Corythornis_cristatus_EF585375:0.0005504972,Corythornis_nais_EF585381:0.0079197401)60.6/96:0.0017134031,Corythornis_cristatus_thomensis_EF585384:0.0023476448)99.3/100:0.0464006871,Corythornis_vintsioides_MG008108:0.0485649112)100/100:0.0677110008,Corythornis_leucogaster_EF585379:0.0801055420)91.2/100:0.0303130812,Corythornis_madagascariensis_MG008107:0.0867246971)40.4/88:0.0226949464)60.6/94:0.0048023822,(Ispidina_lecontei_EF585386:0.0521071432,(Ispidina_picta_EU166940:0.0197685529,Ispidina_picta_natalensis_MK579325:0.0368035014)98.4/100:0.0455495517)99.5/100:0.0605334451)100/100:0.2205508741,((Ceryle_rudis_MG008080:0.2081028746,(((Chloroceryle_aenea_MG008096:0.0713345205,Chloroceryle_inda_MG008099:0.0686763286)58.3/99:0.0144076513,Chloroceryle_americana_MG008098:0.0325547509)98.8/100:0.0942411009,Chloroceryle_amazona_MG008097:0.1183527482)99.9/100:0.1163118507)60.6/93:0.0386504519,((Megaceryle_alcyon_EU166945:0.0295379574,Megaceryle_torquata_MG008142:0.0264590135)93.6/100:0.0436244887,(Megaceryle_lugubris_MG008140:0.0189268592,Megaceryle_maxima_MG008141:0.0316923427)98.9/100:0.0648430727)99.9/100:0.1367814703)99.8/100:0.0867791425)87.1/98:0.0305719478)95/99:0.0823148504,((Meropogon_forsteni_EU021535:0.1211996502,Merops_albicollis_EU021518:0.1755795202):0.5834176720,Todus_angustirostris_DQ111829:0.4235502987)100/100:0.0654610480,Momotus_momota_EU166942:0.4953890470)48.2/89; CONSENSUS TREE -------------- Consensus tree is constructed from 1000 bootstrap trees Log-likelihood of consensus tree: -24561.276717 Robinson-Foulds distance between ML tree and consensus tree: 12 Branches with support >0.000000% are kept (extended consensus) Branch lengths are optimized by maximum likelihood on original alignment Numbers in parentheses are bootstrap supports (%) +--------Actenoides_bougainvillei_excelsus_MG008066 +--| (81) | | +---Actenoides_concretus_MG008065 | +--| (98) | +--Actenoides_hombroni_KP291331 +--| (69) | | +---Actenoides_lindsayi_MG008067 | +--| (70) | +--Caridonax_fulgidus_MG008078 +--| (100) | | +--Actenoides_monachus_MG008068 | +--| (100) | +--Actenoides_princeps_MG008070 +--| (93) | | +--Halcyon_ruficollaris_DQ111853 | | +--| (100) | | | +--Todiramphus_ruficollaris_MG008180 | | +--| (99) | | | | +--Todiramphus_gertrudae_KP291321 | | | | +--| (99) | | | | | | +--Todiramphus_tutus_DQ111854 | | | | | +--| (99) | | | | | | +**Todiramphus_tutus_atiu_KP291302 | | | | | | +--| | | | | | | | +**Todiramphus_tutus_KP291382 | | | | | +--| (77) | | | | | +--Todiramphus_tutus_mauke_KP291373 | | | +--| (96) | | | | +--Todiramphus_veneratus_KP291261 | | | +--| (100) | | | +--Todiramphus_veneratus_youngi_KP291371 | | +--| (100) | | | +--Todiramphus_godeffroyi_KP291247 | | +--| (66) | | | | +--Todiramphus_chloris_MG845643 | | | | +--| (100) | | | | | +--Todiramphus_chloris_KP291238 | | | +--| (97) | | | | +--Todiramphus_chloris_collaris_KP291384 | | | | +--| (100) | | | | | | +--Todiramphus_chloris_laubmannianus_KP291343 | | | | | +--| (61) | | | | | +--Todiramphus_chloris_teraokai_KP291366 | | | +--| (99) | | | | +--Todiramphus_chloris_humii_KP291392 | | | +--| (100) | | | +--Todiramphus_enigma_MG008168 | | +--| (68) | | | | +**Todiramphus_albicilla_KP291351 | | | | +**| | | | | | +**Todiramphus_albicilla_KP291295 | | | | +--| | | | | | +**Todiramphus_albicilla_KP291309 | | | | +--| (75) | | | | | +--Todiramphus_albicilla_KP291320 | | | | +--| (79) | | | | | +--Todiramphus_albicilla_KP291348 | | | | +--| (99) | | | | | +--Todiramphus_chloris_orii_KP291370 | | | | +--| (98) | | | | | | +--Todiramphus_saurophagus_MG008181 | | | | | +--| (100) | | | | | +--Todiramphus_saurophagus_KP291374 | | | | +--| (99) | | | | | | +--Todiramphus_chloris_alberti_KP291375 | | | | | +--| (100) | | | | | +--Todiramphus_chloris_nusae_KP291391 | | | +--| (98) | | | | +--Todiramphus_chloris_colcloughi_KP291390 | | | | +--| (100) | | | | | +--Todiramphus_sordidus_KP291361 | | | +--| (98) | | | | +--Todiramphus_colonus_KP291383 | | | +--| (99) | | | | +--Todiramphus_sanctus_MG845661 | | | | +--| (100) | | | | | +--Todiramphus_sanctus_KP291377 | | | +--| (100) | | | | +--Todiramphus_sanctus_canacorum_KP291326 | | | +--| (84) | | | +--Todiramphus_sanctus_vagans_KP291369 | | +--| (49) | | | | +--Todiramphus_chloris_amoenus_KP291387 | | | | +--| (25) | | | | | +--Todiramphus_sacer_KP291327 | | | | +--| (34) | | | | | | +--Todiramphus_chloris_marinus_KP291380 | | | | | | +--| (100) | | | | | | | +--Todiramphus_sanctus_eximius_KP291298 | | | | | | +--| (99) | | | | | | | +--Todiramphus_sanctus_vitiensis_KP291386 | | | | | +--| (95) | | | | | +--Todiramphus_chloris_ornatus_KP291315 | | | | +--| (97) | | | | | | +--Todiramphus_sacer_manuae_KP291342 | | | | | +--| (100) | | | | | +--Todiramphus_sacer_pealei_KP291354 | | | | +--| (94) | | | | | | +--Todiramphus_chloris_santoensis_KP291239 | | | | | +--| (99) | | | | | +--Todiramphus_chloris_solomonis_KP291365 | | | +--| (44) | | | | +--Todiramphus_pelewensis_KP291334 | | | | +--| (100) | | | | | +--Todiramphus_pelewensis_KP291319 | | | | +--| (100) | | | | | +--Todiramphus_pelewensis_KP291328 | | | +--| (77) | | | +--Todiramphus_reichenbachii_MG008179 | | +--| (95) | | | | +--Todiramphus_cinnamominus_MG008165 | | | | +--| (100) | | | | | +--Todiramphus_cinnamominus_MG008164 | | | | +--| (100) | | | | | +--Todiramphus_cinnamominus_KP291296 | | | +--| (66) | | | +--Todiramphus_recurvirostris_KP291389 | | +--| (99) | | | +--Todiramphus_farquhari_MG008171 | | +--| (99) | | | +--Todiramphus_australasia_MG008163 | | +--| (98) | | | | +--Todiramphus_albonotatus_MG008161 | | | +--| (100) | | | | +--Todiramphus_diops_MG008167 | | | | +--| (95) | | | | | +--Todiramphus_macleayii_MG008176 | | | +--| (94) | | | | +--Todiramphus_lazuli_MG008175 | | | +--| (82) | | | +--Todiramphus_leucopygius_DQ111852 | | +--| (100) | | | +--Todiramphus_pyrrhopygius_MG008177 | | +--| (100) | | | +--Todiramphus_funebris_MG008173 | | +--| (100) | | | +----Todiramphus_winchelli_KP291381 | | +--| (98) | | | +----Todiramphus_nigrocyaneus_KP291256 | +--| (100) | | +--Syma_megarhyncha_KP291344 | +--| (100) | +--Syma_torotoro_MG008149 +--| | | +--Clytoceyx_rex_DQ111867 | | +--| (100) | | | +--Dacelo_tyro_MK116653 | | +--| (100) | | | | +--Dacelo_gaudichaud_MK116649 | | | +--| (100) | | | | +--Dacelo_leachii_DQ111865 | | | | +--| (92) | | | | | | +--Dacelo_leachii_cervina_MK116671 | | | | | +--| (59) | | | | | | +--Dacelo_leachii_MK116669 | | | | | +--| (44) | | | | | +--Dacelo_leachii_occidentalis_MK116668 | | | | +--| (100) | | | | | +--Dacelo_leachii_intermedia_MK116666 | | | +--| (99) | | | +--Dacelo_novaeguineae_MK116667 | +--| (100) | +------Melidora_macrorrhina_MG008143 +--| (50) | | +--Cittura_cyanotis_MG008101 | | +-----| (100) | | | +--Cittura_cyanotis_sanghirensis_MG008102 | +--| (100) | | +--Tanysiptera_galatea_MG008152 | | +--| (100) | | | +--Tanysiptera_hydrocharis_MG008154 | +--| (100) | | +--Tanysiptera_nigriceps_MG008155 | +---| (100) | +--Tanysiptera_sylvia_MG008159 +--| (65) | | +--Halcyon_albiventris_MG008116 | | +--| (100) | | | +--Halcyon_albiventris_orientalis_MK579323 | | +--| (100) | | | | +--Halcyon_cyanoventris_MG008122 | | | | +--| (92) | | | | | | +--Halcyon_gularis_MG008124 | | | | | +--| (92) | | | | | +--Halcyon_smyrnensis_MG008133 | | | | +--| (100) | | | | | +--Halcyon_pileata_MG008129 | | | +--| (100) | | | +--Halcyon_leucocephala_MG008127 | | +--| (91) | | | | +--Halcyon_chelicuti_MG008119 | | | +-----| (100) | | | +--Halcyon_chelicuti_MK579322 | | +--| (99) | | | | +--Halcyon_badia_MG008117 | | | +--| (63) | | | | +--Halcyon_coromanda_MG008121 | | | | +-----| (100) | | | | | | +--Halcyon_coromanda_linae_KF818923 | | | | | +--| (96) | | | | | +--Halcyon_coromanda_major_KF818925 | | | +--| (68) | | | | +--Halcyon_cyanoleuca_MK579324 | | | | +--| (100) | | | | | +--Halcyon_senegalensis_MG008130 | | | | +--| (100) | | | | | +--Halcyon_senegaloides_MG008131 | | | +--| (100) | | | +--Halcyon_malimbica_EF585389 | +--| (100) | +---------Pelargopsis_capensis_MG008147 +--| (90) | | +--Lacedo_pulchella_MN991453 | +------------------| (100) | +--Lacedo_pulchella_melanops_MG008137 +---| (99) | | +--Alcedo_atthis_EF585373 | | +--| (98) | | | +--Alcedo_coerulescens_DQ640782 | | +--| (100) | | | | +--Alcedo_hercules_DQ640783 | | | | +--| (100) | | | | | +--Alcedo_meninting_MG008074 | | | +--| (94) | | | | +--Alcedo_quadribrachys_EF585382 | | | +--| (100) | | | +--Alcedo_semitorquata_DQ640781 | | +--| (96) | | | +---Alcedo_euryzona_MG008072 | | +--| (89) | | | | +--Ceyx_argentatus_MH384618 | | | | +--| (100) | | | | | +--Ceyx_flumenicola_MG008084 | | | | +--| (100) | | | | | +--Ceyx_cyanopectus_KC112606 | | | | +--| (100) | | | | | | +--Ceyx_collectoris_MG008082 | | | | | | +--| (97) | | | | | | | +--Ceyx_nigromaxilla_MG008090 | | | | | | +--| (44) | | | | | | | | +--Ceyx_lepidus_DQ111836 | | | | | | | | +--| (86) | | | | | | | | | +--Ceyx_malaitae_MG008085 | | | | | | | +--| (58) | | | | | | | | +--Ceyx_mulcatus_MG008089 | | | | | | | +--| (100) | | | | | | | +--Ceyx_solitarius_MG008094 | | | | | +--| (67) | | | | | +--Ceyx_sacerdotis_MG008093 | | | | +--| (100) | | | | | | +--Ceyx_melanurus_DQ640785 | | | | | | +--| (100) | | | | | | | +--Ceyx_melanurus_MG008086 | | | | | +--| (100) | | | | | +--Ceyx_melanurus_samarensis_MG008087 | | | | +--| (100) | | | | | | +--Ceyx_erithaca_EF585385 | | | | | +--| (100) | | | | | +--Ceyx_rufidorsa_MN991393 | | | | +--| (100) | | | | | | +--Ceyx_azureus_MG008081 | | | | | | +--| (100) | | | | | | | +--Ceyx_websteri_MG008095 | | | | | +--| (100) | | | | | +--Ceyx_pusillus_MG008092 | | | +--| (96) | | | +-----Ceyx_fallax_DQ640784 | | +--| (94) | | | | +--Corythornis_cristatus_EF585375 | | | | +--| (96) | | | | | +--Corythornis_nais_EF585381 | | | | +--| (100) | | | | | +--Corythornis_cristatus_thomensis_EF585384 | | | | +--| (100) | | | | | +--Corythornis_vintsioides_MG008108 | | | | +--| (100) | | | | | +---Corythornis_leucogaster_EF585379 | | | +--| (88) | | | +---Corythornis_madagascariensis_MG008107 | | +----------| (100) | | | | +--Ispidina_lecontei_EF585386 | | | +--| (100) | | | | +--Ispidina_picta_EU166940 | | | +--| (100) | | | +--Ispidina_picta_natalensis_MK579325 | +--| (98) | | +---------Ceryle_rudis_MG008080 | | +--| (93) | | | | +--Chloroceryle_aenea_MG008096 | | | | +--| (99) | | | | | +--Chloroceryle_inda_MG008099 | | | | +---| (100) | | | | | +--Chloroceryle_americana_MG008098 | | | +----| (100) | | | +----Chloroceryle_amazona_MG008097 | +---| (100) | | +--Megaceryle_alcyon_EU166945 | | +--| (100) | | | +--Megaceryle_torquata_MG008142 | +-----| (100) | | +--Megaceryle_lugubris_MG008140 | +--| (100) | +--Megaceryle_maxima_MG008141 +--| (99) | +-----------------------Momotus_momota_EU166942 +----------------------------| (89) | +--------------------Todus_angustirostris_DQ111829 | (100) +-----Meropogon_forsteni_EU021535 | +-------Merops_albicollis_EU021518 Consensus tree in newick format: ((((((((((((Actenoides_bougainvillei_excelsus_MG008066:0.1848214844,(Actenoides_concretus_MG008065:0.0959735166,Actenoides_hombroni_KP291331:0.0642371090)98:0.0167495042)81:0.0064624228,(Actenoides_lindsayi_MG008067:0.0880045061,Caridonax_fulgidus_MG008078:0.0696811209)70:0.0137211547)69:0.0129472260,(Actenoides_monachus_MG008068:0.0496134674,Actenoides_princeps_MG008070:0.0630617934)100:0.0511821019)100:0.0608724123,(((((((((((((((Halcyon_ruficollaris_DQ111853:0.0019751254,Todiramphus_ruficollaris_MG008180:0.0000024126)100:0.0049394819,((Todiramphus_gertrudae_KP291321:0.0029581297,(Todiramphus_tutus_DQ111854:0.0009436079,((Todiramphus_tutus_atiu_KP291302:0.0000000000,Todiramphus_tutus_KP291382:0.0000000000):0.0000024126,Todiramphus_tutus_mauke_KP291373:0.0000024126)77:0.0000024126)99:0.0018641854)99:0.0019760951,(Todiramphus_veneratus_KP291261:0.0019310497,Todiramphus_veneratus_youngi_KP291371:0.0000024126)100:0.0009679162)96:0.0000024126)99:0.0092182546,Todiramphus_godeffroyi_KP291247:0.0059666670)100:0.0075232504,((Todiramphus_chloris_MG845643:0.0000024126,Todiramphus_chloris_KP291238:0.0009295197)100:0.0132826847,((Todiramphus_chloris_collaris_KP291384:0.0009407936,(Todiramphus_chloris_laubmannianus_KP291343:0.0000024126,Todiramphus_chloris_teraokai_KP291366:0.0018960055)61:0.0000024126)100:0.0091073839,(Todiramphus_chloris_humii_KP291392:0.0000024126,Todiramphus_enigma_MG008168:0.0000024126)100:0.0100735411)99:0.0031237292)97:0.0021705783)66:0.0010823954,((((((((Todiramphus_albicilla_KP291351:0.0000000000,Todiramphus_albicilla_KP291295:0.0000000000):0.0000000000,Todiramphus_albicilla_KP291309:0.0000000000):0.0000024126,Todiramphus_albicilla_KP291320:0.0000024126)75:0.0000024126,Todiramphus_albicilla_KP291348:0.0000024126)79:0.0000024126,Todiramphus_chloris_orii_KP291370:0.0010256837)99:0.0035820098,(Todiramphus_saurophagus_MG008181:0.0000024126,Todiramphus_saurophagus_KP291374:0.0000024126)100:0.0037516165)98:0.0044193775,(Todiramphus_chloris_alberti_KP291375:0.0019526748,Todiramphus_chloris_nusae_KP291391:0.0000024126)100:0.0067649737)99:0.0024106126,((Todiramphus_chloris_colcloughi_KP291390:0.0010736387,Todiramphus_sordidus_KP291361:0.0009542908)100:0.0072848724,(Todiramphus_colonus_KP291383:0.0041308511,((Todiramphus_sanctus_MG845661:0.0000024126,Todiramphus_sanctus_KP291377:0.0009921561)100:0.0019967972,(Todiramphus_sanctus_canacorum_KP291326:0.0000024126,Todiramphus_sanctus_vagans_KP291369:0.0000024126)84:0.0000024126)100:0.0031003397)99:0.0009936520)98:0.0019931383)98:0.0011045592)68:0.0019543891,(((((Todiramphus_chloris_amoenus_KP291387:0.0030123622,Todiramphus_sacer_KP291327:0.0019931600)25:0.0000024126,(((Todiramphus_chloris_marinus_KP291380:0.0009919329,Todiramphus_sanctus_eximius_KP291298:0.0009893660)100:0.0009896241,Todiramphus_sanctus_vitiensis_KP291386:0.0000024126)99:0.0019874784,Todiramphus_chloris_ornatus_KP291315:0.0040489360)95:0.0010025293)34:0.0000024126,(Todiramphus_sacer_manuae_KP291342:0.0000024126,Todiramphus_sacer_pealei_KP291354:0.0000024126)100:0.0030107590)97:0.0010039625,(Todiramphus_chloris_santoensis_KP291239:0.0000024126,Todiramphus_chloris_solomonis_KP291365:0.0019962939)99:0.0020076161)94:0.0029977940,(((Todiramphus_pelewensis_KP291334:0.0000024126,Todiramphus_pelewensis_KP291319:0.0000024126)100:0.0009799502,Todiramphus_pelewensis_KP291328:0.0000024126)100:0.0145349890,Todiramphus_reichenbachii_MG008179:0.0019901318)77:0.0010159027)44:0.0000024126)49:0.0010245321,(((Todiramphus_cinnamominus_MG008165:0.0000024126,Todiramphus_cinnamominus_MG008164:0.0018718128)100:0.0009311766,Todiramphus_cinnamominus_KP291296:0.0000024126)100:0.0194006549,Todiramphus_recurvirostris_KP291389:0.0114118421)66:0.0000024258)95:0.0052115227,Todiramphus_farquhari_MG008171:0.0083521307)99:0.0056654134,Todiramphus_australasia_MG008163:0.0407380310)99:0.0155740018,(Todiramphus_albonotatus_MG008161:0.0248445942,((Todiramphus_diops_MG008167:0.0140387983,Todiramphus_macleayii_MG008176:0.0144993095)95:0.0019577268,(Todiramphus_lazuli_MG008175:0.0211403726,Todiramphus_leucopygius_DQ111852:0.0164294945)82:0.0007661713)94:0.0079802414)100:0.0172562902)98:0.0132526334,Todiramphus_pyrrhopygius_MG008177:0.0607151626)100:0.0200058256,Todiramphus_funebris_MG008173:0.0517736509)100:0.0456446965,Todiramphus_winchelli_KP291381:0.1106277247)100:0.0268944171,Todiramphus_nigrocyaneus_KP291256:0.1102697141)98:0.0109618779,(Syma_megarhyncha_KP291344:0.0297700587,Syma_torotoro_MG008149:0.0331989237)100:0.0710217957)100:0.0320447855)93:0.0150990898,(((Clytoceyx_rex_DQ111867:0.0292515689,Dacelo_tyro_MK116653:0.0424624047)100:0.0173781524,(Dacelo_gaudichaud_MK116649:0.0268131505,(((Dacelo_leachii_DQ111865:0.0043827309,(Dacelo_leachii_cervina_MK116671:0.0000024126,(Dacelo_leachii_MK116669:0.0010783975,Dacelo_leachii_occidentalis_MK116668:0.0010772922)44:0.0000024126)59:0.0000024126)92:0.0010907661,Dacelo_leachii_intermedia_MK116666:0.0000024126)100:0.0199183503,Dacelo_novaeguineae_MK116667:0.0326319388)99:0.0135491074)100:0.0511694840)100:0.0332346592,Melidora_macrorrhina_MG008143:0.1418698641)100:0.0283591196):0.0070957722,((Cittura_cyanotis_MG008101:0.0123955049,Cittura_cyanotis_sanghirensis_MG008102:0.0304220975)100:0.1194180525,((Tanysiptera_galatea_MG008152:0.0228717906,Tanysiptera_hydrocharis_MG008154:0.0454518394)100:0.0365822593,(Tanysiptera_nigriceps_MG008155:0.0138744352,Tanysiptera_sylvia_MG008159:0.0321107487)100:0.0877113193)100:0.0464287375)100:0.0332139418)50:0.0148690192,(((((Halcyon_albiventris_MG008116:0.0120353666,Halcyon_albiventris_orientalis_MK579323:0.0068841477)100:0.0499701328,(((Halcyon_cyanoventris_MG008122:0.0138107037,(Halcyon_gularis_MG008124:0.0257825144,Halcyon_smyrnensis_MG008133:0.0201528265)92:0.0039864954)92:0.0082519060,Halcyon_pileata_MG008129:0.0297507971)100:0.0362165394,Halcyon_leucocephala_MG008127:0.0447560944)100:0.0130226978)100:0.0434779893,(Halcyon_chelicuti_MG008119:0.0000024126,Halcyon_chelicuti_MK579322:0.0009689934)100:0.1235803937)91:0.0148861751,(Halcyon_badia_MG008117:0.0712410414,((Halcyon_coromanda_MG008121:0.0000023209,(Halcyon_coromanda_linae_KF818923:0.0030655102,Halcyon_coromanda_major_KF818925:0.0207515125)96:0.0011531233)100:0.1389031158,(((Halcyon_cyanoleuca_MK579324:0.0056648219,Halcyon_senegalensis_MG008130:0.0109449092)100:0.0077158736,Halcyon_senegaloides_MG008131:0.0238408986)100:0.0307977505,Halcyon_malimbica_EF585389:0.0361021910)100:0.0292443336)68:0.0074785413)63:0.0036205517)99:0.0529953637,Pelargopsis_capensis_MG008147:0.2025382387)100:0.0425585585)65:0.0233753160,(Lacedo_pulchella_MN991453:0.0000020107,Lacedo_pulchella_melanops_MG008137:0.0110697127)100:0.3818455342)90:0.0537013521,(((((((Alcedo_atthis_EF585373:0.0647064897,Alcedo_coerulescens_DQ640782:0.0632769831)98:0.0098643554,((Alcedo_hercules_DQ640783:0.0553202587,Alcedo_meninting_MG008074:0.0327010031)100:0.0545251149,(Alcedo_quadribrachys_EF585382:0.0281511187,Alcedo_semitorquata_DQ640781:0.0338966322)100:0.0439843556)94:0.0136614523)100:0.0569374097,Alcedo_euryzona_MG008072:0.0991728944)96:0.0064958509,(((((((Ceyx_argentatus_MH384618:0.0000024126,Ceyx_flumenicola_MG008084:0.0000024126)100:0.0203481894,Ceyx_cyanopectus_KC112606:0.0266063823)100:0.0144885060,(((Ceyx_collectoris_MG008082:0.0328920612,Ceyx_nigromaxilla_MG008090:0.0298089208)97:0.0093882924,((Ceyx_lepidus_DQ111836:0.0365459711,Ceyx_malaitae_MG008085:0.0274707215)86:0.0063346155,(Ceyx_mulcatus_MG008089:0.0182817859,Ceyx_solitarius_MG008094:0.0208233255)100:0.0251105435)58:0.0006846037)44:0.0010545229,Ceyx_sacerdotis_MG008093:0.0519323727)67:0.0022871061)100:0.0180134654,((Ceyx_melanurus_DQ640785:0.0048361406,Ceyx_melanurus_MG008086:0.0000024922)100:0.0060338691,Ceyx_melanurus_samarensis_MG008087:0.0146080825)100:0.0407913079)100:0.0094249334,(Ceyx_erithaca_EF585385:0.0348110647,Ceyx_rufidorsa_MN991393:0.0222330111)100:0.0425958431)100:0.0287360091,((Ceyx_azureus_MG008081:0.0122984444,Ceyx_websteri_MG008095:0.0189352787)100:0.0416535073,Ceyx_pusillus_MG008092:0.0542183456)100:0.0333523444)100:0.0223258334,Ceyx_fallax_DQ640784:0.1204566163)96:0.0149136903)89:0.0181033326,(((((Corythornis_cristatus_EF585375:0.0005516341,Corythornis_nais_EF585381:0.0079175550)96:0.0017699358,Corythornis_cristatus_thomensis_EF585384:0.0022694221)100:0.0464185270,Corythornis_vintsioides_MG008108:0.0485148902)100:0.0677867206,Corythornis_leucogaster_EF585379:0.0800523720)100:0.0304144404,Corythornis_madagascariensis_MG008107:0.0866939861)88:0.0227392730)94:0.0047950085,(Ispidina_lecontei_EF585386:0.0521291376,(Ispidina_picta_EU166940:0.0197688165,Ispidina_picta_natalensis_MK579325:0.0368022480)100:0.0455352030)100:0.0605262083)100:0.2205830804,((Ceryle_rudis_MG008080:0.2081570789,(((Chloroceryle_aenea_MG008096:0.0713383899,Chloroceryle_inda_MG008099:0.0686848636)99:0.0144090060,Chloroceryle_americana_MG008098:0.0325190564)100:0.0942724881,Chloroceryle_amazona_MG008097:0.1183165271)100:0.1163435771)93:0.0386458309,((Megaceryle_alcyon_EU166945:0.0295442690,Megaceryle_torquata_MG008142:0.0264468977)100:0.0435995854,(Megaceryle_lugubris_MG008140:0.0189241693,Megaceryle_maxima_MG008141:0.0316881057)100:0.0648745342)100:0.1367546397)100:0.0867468186)98:0.0305323014)99:0.0823143931,Momotus_momota_EU166942:0.4953862227)99:0.0654697241,Todus_angustirostris_DQ111829:0.4232578177)89:0.5833241653,Meropogon_forsteni_EU021535:0.1213152043,Merops_albicollis_EU021518:0.1755369646)100; ALISIM COMMAND -------------- To simulate an alignment of the same length as the original alignment, using the tree and model parameters estimated from this analysis, you can use the following command: --alisim simulated_MSA -t nd2_ml.treefile -p nd2_ml.best_model.nex To mimic the alignment used to produce this analysis, i.e. simulate an alignment of the same length as the original alignment, using the tree and model parameters estimated from this analysis *and* copying the same gap positions as the original alignment, you can use the following command: iqtree -s nd2_alignment.fasta --alisim mimicked_MSA To simulate any number of alignments in either of the two commandlines above, use the --num-alignments options, for example mimic 100 alignments you would use the command line: iqtree -s nd2_alignment.fasta --alisim mimicked_MSA --num-alignments 100 For more information on using AliSim, please visit: www.iqtree.org/doc/AliSim TIME STAMP ---------- Date and time: Wed Aug 5 18:35:04 2026 Total CPU time used: 139.979781 seconds (0h:2m:19s) Total wall-clock time used: 112.5652201 seconds (0h:1m:52s)