#NEXUS [!This data set was downloaded from TreeBASE, a relational database of phylogenetic knowledge. TreeBASE has been supported by the NSF, Harvard University, Yale University, SDSC and UC Davis. Please do not remove this acknowledgment from the Nexus file. Generated on May 19, 2024; 5:40 GMT TreeBASE (cc) 1994-2008 Study reference: Grandi N., Cadeddu M., Blomberg J., Jens M., & Tramontano E. 2017. HERV-W group evolutionary history in non-human primates: characterization of ERV-W orthologs in Catarrhini and related ERV groups in Platyrrhini. BMC Evolutionary Biology, . TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S22051] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=55; TAXLABELS ERV1_1CJaLTR_ERV1_1CJaInt_ERV1_1_RepBase HERVW_subgroup1_consensus HERVW_subgroup2_consensus LTR10F_HERVIP10F_int_LTR10F LTR10F_HERVIP10FH_LTR10F LTR12_HERV9int_LTR12 LTR17_HERV17int_LTR17 LTR2_HARLEQUIN_LTR2 LTR2_HERVEint_LTR2 LTR21A_HERVFH21I_LTR21A LTR30_HERV30I_LTR30 LTR35A_HERV1_I_int_LTR35A LTR4_HERV3int_LTR4 LTR46_HERVFc1_LTR46 LTR6A_HERVTint_LTR6A LTR71A_HERVP71Aint_LTR71A LTR7C_HERVHint_LTR7C MER41C_PRIMA41_MER41C MER48_HERVH48I_MER48 MER50_MER50I_MER50 MER57_MER57A_I_MER57 MER57A_MER57A_I_MER57A MTL2A1_HERVLint_MTL2A1 PABL_AI callithrix_jacchus_ERV1_1_proviral_consensus homo_sapiens_hg19_chr1_47412274_47413748 homo_sapiens_hg19_chr10_99049848_99051021 homo_sapiens_hg19_chr11_114217924_114220414 homo_sapiens_hg19_chr11_18840552_18842462 homo_sapiens_hg19_chr12_14369478_14374042 homo_sapiens_hg19_chr12_18220942_18223574 homo_sapiens_hg19_chr14_38573435_38576501 homo_sapiens_hg19_chr147595486_47596960 homo_sapiens_hg19_chr15_51649330_51653005 homo_sapiens_hg19_chr16_18124951_18125497 homo_sapiens_hg19_chr16_20656274_20658178 homo_sapiens_hg19_chr18_1729227_1730327 homo_sapiens_hg19_chr19_24350451_24353078 homo_sapiens_hg19_chr2_180922439_180924977 homo_sapiens_hg19_chr3_109693465_109693986 homo_sapiens_hg19_chr3_88935018_88936153 homo_sapiens_hg19_chr5_18742581_18746140 homo_sapiens_hg19_chr5_34062285_34064918 homo_sapiens_hg19_chr5_74600280_74602253 homo_sapiens_hg19_chr6_115319550_115323003 homo_sapiens_hg19_chr6_166759559_166760142 homo_sapiens_hg19_chr6_86683575_86685615 homo_sapiens_hg19_chr7_9057073_9059465 homo_sapiens_hg19_chr8_124422873_124424005 homo_sapiens_hg19_chr8_129390098_129394380 homo_sapiens_hg19_chr9_29776755_29779436 homo_sapiens_hg19_chrX_105794494_105796487 homo_sapiens_hg19_chrY_16452922_16456884 homo_sapiens_hg19_chrY_19244538_19249067 homo_sapiens_hg19_chrY19246861_19247702 ; END; BEGIN TREES; TITLE 'Additional file 4_tree'; LINK TAXA = Taxa; TREE Imported_tree_1 = [&R] (((((((((((homo_sapiens_hg19_chr6_166759559_166760142:0.03807916,homo_sapiens_hg19_chr9_29776755_29779436:0.06063089):0.00294792,(homo_sapiens_hg19_chr12_18220942_18223574:0.04954379,homo_sapiens_hg19_chr19_24350451_24353078:0.07648525):0.00431375):0.00441014,(homo_sapiens_hg19_chr2_180922439_180924977:0.07599311,homo_sapiens_hg19_chr7_9057073_9059465:0.10311372):0.0046901):0.01104453,homo_sapiens_hg19_chr11_18840552_18842462:0.04864224):0.01812873,(HERVW_subgroup2_consensus:0.00610551,(LTR17_HERV17int_LTR17:0.00226204,HERVW_subgroup1_consensus:0.0047053):0.0130681):0.00766502):0.01302278,homo_sapiens_hg19_chr16_20656274_20658178:0.04381302):0.07451037,homo_sapiens_hg19_chrY_19244538_19249067:0.4244297):0.16422459,(((LTR30_HERV30I_LTR30:0.25832265,LTR12_HERV9int_LTR12:0.34487218):0.10546492,(callithrix_jacchus_ERV1_1_proviral_consensus:0.01625051,ERV1_1CJaLTR_ERV1_1CJaInt_ERV1_1_RepBase:0.01365255):0.30444267):0.05951427,(homo_sapiens_hg19_chr15_51649330_51653005:0.04975803,(((homo_sapiens_hg19_chrY_16452922_16456884:0.07433289,homo_sapiens_hg19_chr14_38573435_38576501:0.09005778):0.05352451,homo_sapiens_hg19_chr5_18742581_18746140:0.08953971):0.01275535,(homo_sapiens_hg19_chr8_129390098_129394380:0.05965855,(homo_sapiens_hg19_chr6_115319550_115323003:0.06269842,(homo_sapiens_hg19_chr11_114217924_114220414:0.04179097,homo_sapiens_hg19_chr12_14369478_14374042:0.04675602):0.00338285):0.0034169):0.00886812):0.01180705):0.21426999):0.06428646):0.25020863,((homo_sapiens_hg19_chr5_74600280_74602253:0.2572425,homo_sapiens_hg19_chrX_105794494_105796487:0.28920473):0.18334801,(((homo_sapiens_hg19_chr3_88935018_88936153:0.05105442,homo_sapiens_hg19_chr8_124422873_124424005:0.03555836):0.00855807,homo_sapiens_hg19_chr10_99049848_99051021:0.04797177):0.00201192,(homo_sapiens_hg19_chr3_109693465_109693986:0.05079625,(homo_sapiens_hg19_chr16_18124951_18125497:0.03365249,homo_sapiens_hg19_chr18_1729227_1730327:0.36480186):0.06065408):0.05159373):0.41993235):0.45573723):0.2704213,((homo_sapiens_hg19_chr6_86683575_86685615:1.08252459,homo_sapiens_hg19_chr5_34062285_34064918:1.02104542):0.17517293,((((MER48_HERVH48I_MER48:0.41559019,LTR21A_HERVFH21I_LTR21A:0.40444494):0.09186515,LTR7C_HERVHint_LTR7C:0.65581786):0.08005005,LTR46_HERVFc1_LTR46:0.97462882):0.24675691,(MTL2A1_HERVLint_MTL2A1:1.24590013,(MER41C_PRIMA41_MER41C:0.71636537,(((LTR10F_HERVIP10F_int_LTR10F:0.02149872,LTR10F_HERVIP10FH_LTR10F:0.22359601):0.31256564,LTR71A_HERVP71Aint_LTR71A:0.31191774):0.56393191,(LTR6A_HERVTint_LTR6A:0.71125304,((LTR35A_HERV1_I_int_LTR35A:0.24639223,LTR4_HERV3int_LTR4:0.21810525):0.19715093,(LTR2_HERVEint_LTR2:0.08153808,LTR2_HARLEQUIN_LTR2:0.49788597):0.27151733):0.3735164):0.10602879):0.08253244):0.04237549):0.05179416):0.06323237):0.03374321):0.00850321,(MER50_MER50I_MER50:1.01334631,(((homo_sapiens_hg19_chr1_47412274_47413748:0.0522822,homo_sapiens_hg19_chr147595486_47596960:0.01482356):0.78513545,homo_sapiens_hg19_chrY19246861_19247702:0.43673865):0.26205678,(PABL_AI:0.68936974,(MER57_MER57A_I_MER57:0.0,MER57A_MER57A_I_MER57A:0.0):0.79968156):0.64457352):0.08263203):0.10475664); [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr109220] END;