#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 September 18, 2025; 21:25 GMT

TreeBASE (cc) 1994-2008

Study reference:
Igea J., Aymerich P., Bannikova A.A., Gosálbez J., & Castresana J. 2015. Multilocus
species trees and species delimitation in a temporal context: application to
the water shrews of the genus Neomys. BMC Evolutionary Biology, .

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S16177]

BEGIN TAXA;
        TITLE  Taxa;
        DIMENSIONS NTAX=14;
        TAXLABELS
            Ailuropoda_melanoleuca
            Bos_taurus
            Canis_familiaris
            Crocidura_russula
            Equus_caballus
            Erinaceus_europaeus
            Felis_catus
            Homo_sapiens
            Macaca_mulatta
            Myotis_lucifugus
            Neomys_fodiens
            Pteropus_vampyrus
            Sorex_coronatus
            Tursiops_truncatus
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M23455]

	TITLE Neomys_TRAIP_intron_8;
	LINK TAXA = Taxa;
	DIMENSIONS NCHAR=617;
	FORMAT DATATYPE=DNA SYMBOLS= "A C G T" MISSING=? GAP= -;

MATRIX
[                                  10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       ]
[                                   .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .       ]
Ailuropoda_melanoleuca     G-----TAACG-GGAGCAAAAGGTGAGGGGAGAGGTGGCTATCCTTTTGTCATGCTCATTGCTGTCTCCTGAGCAAAGCCATGGGGCCTCATGGTGCGACAGACTCCACGGGGCCG-TGGGTGATTCACAGAGACTGGTTCCA----------GGGCCTTGGCTCTGGCTCTGTGGCTTGTCCACTTAGGGTGGCAGGTCACGCGGCTACCCGCCAATACGTGCATACTTACA---ACTTCTATTCTCCCTGGCTCCTGGGCACCTCTCAGTGGGCTGGATAGCACAGAGCCCAAGTGTGACTGTGTCAGGGGTCTGCTTTAGTCCCAGGCCCAGAGCAGGAGGTCCTCGGAACCCCGTTCAGTCAGCATAGCTG-CTTTATCTCTG---CCCATGCACCCGTGGGCTGTCAGGTGTAGAGTGCAACCCTAGTTCCTGGGCAGCTCCGGATGGGTGTGGACAG-----------GCCCCACAAAGCCAGGGTCTCCCCATGTGTCCTCAGATTCCTCTGGACCCTGGGCTCCCGTGAGCACGCGCTGGGTAGCAGCAGGTGGGGGCAGAGCACACGGCTGCCTGCTGGCCTGTCCTTTCCTCCCTATACTTTCTTGT
Bos_taurus                 GTAACTTAATGGGGAGCCGAGCGCCAGGGGAGAGGTGGCTGTCCTTCTGTCATGCGTGTGAGTCTCTCCTAGGCCAGGCCCTG---------------------------GGGCTGTGGGATGACTC-------CTGGCTTCTGGTCCTCACTAGGCACTGACTCTGGCTGTGTGGCTTGTCTGCTTAGGGTGGCAGGTCATGCAACTGCGCCCCAACAGCTGCACACTTCTGTTCCCC---------------------ATACCTCTCAGCTGGCTGGGGCACACAGGTCCCAAATGTGATGGCTTCAGAGGCCTGTTTTTGTTCCAGGCCTAGAGTAGGAGGCTCTTGAAACCTGAATCAGTCAACACAGCTGCTTTTATTTCTGGGCATGGTGCATGTCAGGGTAG--GGATGTAGGGAGGAGC-------CCTGGACTGCTCCAGATGAACACTGCCAGACTAAGGTCCAGCCCCGTGGAGCTCGGGTCTTC-CCTGTGTCCCCCGCTCCTCCTGGGTC-TGGGCTCCCATGAGC-----TAGGGTAGCAGCAGGCAGGGACAGGGCATACAGCCACCCCTGTGTTCGTCCTTCGCTCCTTACACTTTCTTGC
Canis_familiaris           GTAA--CAGTG-GGGGCAGAAGG-GGAGGGAGAGGTGGCT-TCCTTTTGTCCTGCTCGTTCCTGTCTCCCGAGCAAAGCCATGGGGCCTGAT-GTGCAACAGACTCCATAGGGCTGTGGGGTGATTCAGAGAGACTG----------CTTACTGGGCCTTGGCTCTGGCTTTGTGGCTTGTCCACTTAGGGTGGCAGGTCATGCAAGTACCCCCCAATGTGTGCATGCTTATGCTCCCTTCTATTCTTCCTGGCTCCTGGGTAACTCTCAACTGGCTGAAGAGCACAAGTCCCAAATGTGACAATGTCCAAGGCCTGTTTTTGTACCTGGCCCAGAGTAGGAGGTACTTGGGATCCAGTTCAGTCAGCACAGCTG-TTTTATTTCTGGGCCTGGTGCATCCATGGGCTGTCAGACATAGAACTCAGCCCTAGTTCCTAGGCAGCTCCAGATGGGCATTGACAG-----------GCCCCACAAAGCCAGGGCCTCCCCATGTGTCCTCAGACTCTTCTGGACACTGGGTTCCCATGAACATGCACTGAGT----------------AGAGCACGTGGCCACCTGCTGGCTTGTCCTTTACTGCCCATACTTTCTTAT
Crocidura_russula          -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Equus_caballus             GTAACTTAGCG-GGAGCAGAAGGTCAGGGGACAGGTGGCTGTCCTTTTGTCATGCTCATTCATGTCTCCTGAGCAAGGCTGTGGGGCCTGATGGTGCAGCTGACTCAATGGGGCTGTTGGATGACACACAGGGACTGGTTATTGGTCCTTACTGGGCTTTGGCTCTGGCTATGTTGCTTGTCCACTTAGAGTGACAGATCAGGCTGGTACCCCTCAACATGTGCACAC-TATGTTCCCCTCTGCTCTTCCTGGCTTCTGGGTACCTCTCAGCTGACCAGAGAGCACAGGTCCCAAAT-TGACAGCTTCAGAGGCCTGTTTTTGTGCCAGGCCCAGAGTAGAGGGCTCTTGAAACCTGGTTCAATTAGCACAGCTGCTTTTATTTCTGGGCATGGTGTACCCATGGTATGCAGAGTATAGGAAGCAGCTCCCACTCCTGGGCAGCTCCAG-TGAACGTTG-----------------CTCACAGAGTTAGGGTTTCCTCCCATATCCCCAGACTCTTCTGGACCCTGGGCTACCATGAGCATGCACTGGGTAGTTGTAGGCGGGGGCAGGGCACATGGCCACCCATTGGCTGGTCCCTTACTCCCTATACTTTCTTGT
Erinaceus_europaeus        GTAATGTGGGGGCGAGTGGAAGGCAAAGGCAGAAGGGACTGTCTTGAGGTCGTGCTAAGTCATGGCGCGCCAGCCTTGCTTCGAGTGCTGCTGCCTTCTCTCATGAAGTGGTGCTGCTGAAGGGACAAGAGAAACTAGTTGTCAGTCCTCACTGGGCATTTATTCTGACTCAGTGGCTTGTCCTCTTAGAGTGGTATATCGTGGTGACACACCCCCACAAATGCAAGCTTATTCTCCCCTCTGCTTTTCCTGGCTTCTAGGCACCTCATTTCT--CTAGAGAGTACGGGTCGCTAATGTGACAGCTTCAGAGGCTGCCACCTCC-----------------GGGCTCTTGGTACCTGACTCATTCAGTACAACTT-TTTTATTTCTCGGCAT-GTACATATA--------------------------------CTTCTAGAGCTCCAGAAAGACATTACTAGACTAATG-CCAGTTACAGAGAACTAGGATTTCTCCTCATGTGCCCAGGCTTTTCTGGATCCTGTGCTGTCCTGGCCATGCAGTGAGCAGTAGTGGGTGGGACCAGGGCACATGGCAGCTCCATGGTTCGTCCATGACTCCCTACTCTTTCCTAA
Felis_catus                GTAA--CAGTGGGGAGCAGAAGATGAGGGGAGAGGTGGCTGTCCTTTTGTCATGCTCGTTCCTGTCTCCTGAGCAAAGCCATGGGGCTGGATGGCACAACGGACTCCATGGGGCTATTGGGTGACTCACAGAGACTGGTTACTGGGCCTTACTGGGCTCTGGCTCTGGCTCTGTGGCTGGCCCACCAAGGCCGGCAGTTCACACAGGGCTCCCCCAGTATGCGCACGGTTACACTCCCCTCTATTCTTCCTGGTTCCTAGGCACCTCTTAGCTGGCTGGAGAGCACAGATCTCTAAGGTGCCAGTGTCCGAGGCCTATTTTTGTACCAGGCCCAAAGTAGGAGGTACTTGGAACCTGGTTCAGTCAGCACAGCTG-TTTTATTTCTGGGCCCAGTGCATCGGTGGACTATTGGGCATAGAACGAAGCCCTTGTTCCTGGGCAGCTCCAGATGGACATTGACGGATTAAAGCCCTGCCCCACAAGGCCAGAGTCTCTCCTTGTGTCCTCAGACTCTTCTGGACCCTGGGCTCCTATGAGCATGCACTAGGTAGCAGCAGGTGGAGGCAGAGCACAGGGCCACCTGTTGGCTTGTCCTTTACTCCCTACACTTTCTTAC
Homo_sapiens               GTAACTTAGCAGTGAACAGA-GGTTGAAGGAGAAGTGGCTCTCCTTTTGTCATGTTCACTCTGGTCTCCTGAGCAAGGCCATGGGACCTGATGGCACAGCTGACTCCCTGGGGCAGCTGGAGGACTTACAGAAATTTGTTACCAGTCCTTACTGGGCATTGG-CCTGAATATGTGGCTTGTCCACTAGGGGTGACAGATCACAGAGGTATCCCCCAACATGTGGACACTGATGCTCCCCTCTGCTCTTCCTGGCTCCTGGGTACCTCTCAGCTGGCTGGAGAGCACAGGCCTCAAATGTGACAGCATCAGAGGCCTATTTTTGTACCACATCTGGAGTAGAAGGCTCCTGGAACCTGATTCGGTCAGCACAGCTGCTTTTACTTCT-GGCATGGTGCATCCACAGGCTGCAGGATGTAGGAAGCAGCCTTTGCTTCTAGGCAGCTCCGGATGTGCATTGCCAGACTGAGGCCTAGCCTCAGAGAGCTGGGATCTCTGCCCATATCTCTAGTCTCTTC-------TGGGCTACCTTGATCACTCCCTGGGGAGCAGCAGGAGGGGGCAGGGCACAAGGCTACCACTTGGCTTGTCTTTCATTCCCTACACTTTCTTAT
Macaca_mulatta             GTAACTTAGCAGTGAACACG-GGTTGAAGGAGAGGCGGCTCTCCTTTTGTCATGCTCACTCTGGTCTCCTGAGCAAGGCCATGGGACCTGATGGCACAGCTGACTCCCTGGGGCAGCTGGATGACTTATAGAGATTTGTTACCAGTCCTTACTGGGCATTGG-TCTGAATATGTGACTTGTCCAGTAGGGATGACAGATCACAGAGGTGTCTGCCAACATGTGGACACTCATGCTCCCCTCTGCTCTTCCCAGCTCCTGGGTACCTCTCAGCTGGCTGGAGAGCACAGGCCCCAAATGTGACAGCGTCAGGGGCCTATTTTTGCACCATGTCTGGAGTAGGAGGCTCCTGGAACCTCATTCGGTCAGCATAGCTGCTTTTACTTCT-GGCATGGTGTAGCCACAGGCTGCAGGATATAGGAAGCAGCCTTTGCTTCTGGGCAGCTCCGGATGTGCATTGCCAGACTGAGGCCTAGCCTCAGAGAGCTGGGATCTCTTCCCATACCCCTAGTCTCTTCTAGACTCTAGGCTACCTTGATCACTCACTGGGGAGCAGCAGGAGGGGGCAGGGAACAAGGCTAACACTTGGCTTGTCCTTCACTCCCTACACTTTCTTAT
Myotis_lucifugus           GTAC--CTGTGGGGAGCAGAGGGTGAGGGAGATG--GGCCGTCCTGCTTTCACGTGCGGTCACGGCTCCTGAGCAAGGCCCAG--GCCTGAGGGTGCAGCTGACCC--AGGGGCTGTCGCCTGGCTCACAGAGACCAGTCACTGGTCCTCAC-GGGCGTTGGCTCAGGCTGTGTGGCTTGTCCAGTTAGGGTGGCGAGTCACGCAGGTGTCTCCTGGC--GTGCAGCCTGATG----CCCCTGCTCCTCCCGGATCCTG-----CCCTCAGCTGGCGGGAGGGCACAGGTCCCAAATGTGCCACCTTCGAGG-------TCTGTACCAGGCCCCAAGCATACGGCTCTTGGAACCCGATTCGGTCAGCACAGCTG-CTTTACTCCTGGGCCTGGTGCATCCACGGGCCGCAGGGCATAGG------------------GGCAGCCC----------------------------AGCCCATAGAGCTAGGGTCTCC-CTGGGGGCCCCCCACACTCCTGGGCCCCGGTCTACCCTGAGCAGGC---TGGCCGCAGCAGGT-GGGGCAGAGCACGCGGCCACCCTTGG------CTCATTCCCCCTCCACTTGCCTGC
Neomys_fodiens             GTAACTTAGAG-------------GGGGGCAGAGATGCCTAT-TTTTTGTCATGTACACT-ATGTCTCCTAAGCAAGGCCTTAGAAA-TGGTGGTACAGCTGGTTCCATGGGGCTGCCGGGTGATTC----AGTCTGGTTACTGGTGCTTACAGGGCATTCACCCTAACCAGATGGCTTATATGTCC-------CAACACATGCAGATTTCCTCTGCTCTCTGC----------TCCCCTGTGCTGCTCCTGGCTCCTAGACATCTGGCTG-----GGGAGAGCACAGGTTCCAAATGTGATGATGTTAGAGGCCGGGTTTCGT-------CCAGCAGAGGAGGCCATTGGAACCTGATTCAGCCTGCACAGCTGCTTTCATTTCTGGCCAT-GTATATCCATGGGCTGCAGAGTGCAGGAAGTAGCCCTTGCTCCTGGGAAGCTCCATAGGGACACTGCCAGCTGAAAGCCCCATTGTGGAGAGTTCAGCC--------------------------------TGGGCCGTCCTGACT--------------GGATGGCAGGAGTAGAGCCCAGGGGGACCTGGAGGCGCATCCTTTCATTCCTACCCATTTTTAT
Pteropus_vampyrus          GTAACTTAGTGAAGAGCAGAGGGGGAAGGGAGGTGTGGCTGTCCTTTTTTCATGCTCATTCATGTCTCCTGAGCAAGGCCCTGGCGCCTGATGTTGCCACTGACTCCATGGGGCTGTTGGGTAATGCACAGAAACTGGTTACAGGTCCTCACTGGGCACTGGCTCTGGCTAAGTGGCTTGTCCACTTAGGGTGGCAGGTCACGCCGGTATCTCCCAACTCGTGCACGCTTACGTTCCCCTCTGCTCTTCTTGGCTCCTGGCCACCTCTCAGCTGGCTGGAGAGCA-AGCTCCCAAATGGGACAGCTTCAGAGGTCTGTGTTCGTACCGGGCCCAGAGCAGGAAGCTCCTGGAACCTGATACGGTCAGCTTGGCTGCTTTTATTTCCGGGCTTGGTGCACCCATGGGCTACAGGTTGTAGGAAGCAGCCCTTGTTCCTGCGCAGCTCCAGACGGACATTTCCAAACTAAAGCCCAGCCCCACAGAGCTAGTGTCTTCCCCCGTACTCCCACACTCTTCTGGACCCTGGTCTACCGTGAGCACGCACTGGGTAGCAGAGGGCAGGGGCAGGGCACATGGCCGCCCCTT-GCTCATCCTCTACTCCCTACACCTTCTTAT
Sorex_coronatus            GTAACAGAGAG-GAGGAGGGGAAAAGGGCGGGAGATGACTATTCTTTTGTCGTGTACAGTTACGTCTCCTAAGCAAGGCCTTAGAAACGGATGGTGCAGCTGGTTCCAC-GGGCTGTCGGGTGATTTGGAGAGACTGGCTACTGGTGCTTCCAGGGCATTCACCCTGGCTAGACGCATGTT-------------CAACACATACATAGGTCCTCTGCTCTGTGC-----------TCCCTTTACGCCTCCTGACCCCTAGACCCCTGGCTG-----GGGAGAGCACAGGATCCAAATGTGATGACTTTAGAGGCCTGTTCTTCTACTAGGTCCAGCAGAGGAGGCCCTTGGGACCTGAGTCAGTCTGCACAGCTGCTTTTATTTCTGGGCAT-GTGTATCCGTGGG----------------------CTTGCTCCTGGGAAGCTCCAGAGGAGTACTGCCAGATGAGAGCCCTGTCACATAGAGCTAGGC-----CCCTGAGCTGCCGGACTCTTGTGGGAGCTGTTTTGTTTTGTTT--------------GGGGGGGGGGG?GCGTGCGCGCGCGCGCGCGCGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGT
Tursiops_truncatus         GTAATTCAGTGGGGAGCTGACAGTGAGGGGAGAGGTGGCTGTCCTTTTGTCATGCTCATGTGTGTCTCCTAAGCAAGGCCATG---------------------------GGGCTGTTGGATGACTCACAGAGGCTGGTTTCTGATCCTTACTGGGCATTGACTCTGGCTACATGGCTTGTCCAGTTAGGGTGGTAGATCAGGCAGGTACCCCCCAGCCTCTGCACACTTCTGTTCCTCTCTGCTCTT--------CTGGGTACCTCTCAGCTGGCTGGAGCACACAGGTCCCAAATGTGACAGCTGCAGGTGCCTGTTTTTGTTCCAGGCCCAGAGTATGAGGATCTTGGAACCTGATGCAGTCAGCACAGCAGTTTTTATTTCTGGGCATGGTGCATCCATGGGCAA--GGGTGTAGGAAGTAGCCCTTGCTCCTGGGCAGCTCCAGATGGACATTGCCGGACTAAGGTCCAGCCCCATGGAGCTAGGGTCTCCCTCCCGTGCTCCCAGCTCTTCTGGACCCCGGGCTACCACGAGC-----TGGTGTAGCAGCAGGTGCGGGCAGGGCACATGGGCACCCCTGGGTTCATCCTTTTCTCCTTACACTTTCTTGT
;
END;