#NEXUS [written Thu Dec 05 23:58:26 CET 2013 by Mesquite version 2.75 (build 566) at em11-casa.local/192.168.1.2] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=15; TAXLABELS Apodemus_flavicollis Atherurus_macrourus Cynomys_ludovicianus Hydrochoerus_hydrochaeris Microtus_duodecimcostatus Microtus_lusitanicus Myocastor_coypus Octodontomys_gliroides Proechimys_guairae Sciurus_vulgaris Homo_sapiens Cavia_porcellus Mus_musculus Rattus_norvegicus Glis_glis ; END; BEGIN CHARACTERS; TITLE Abcb9; LINK TAXA = Taxa; DIMENSIONS NCHAR=280; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Apodemus_flavicollis gtagccacccaacggcaggagggtgcaggagcagcccagcaccgcagcaac--cccacactgactcggaa-------ccctttgcttgggccacagcctggagccatgccctcttgtctctgaaaatggctccagtccctggttggttgccagtgttgagtccttaccctcttactgggggagtgaggaggtcccctacagaggg--agaaggggctgctggtgggcggcgctgcctgccggaaggatgccg-gctataccgtctctcatctgcaatcag Atherurus_macrourus gtagccactccgcgggggccctgtccctcagcccgtcactgcagtgaccagctcccaagccagctaggagcccatgtctctgaggagggccgtaccctaggagacatacccgctgctctctgaaagtggcgttggtccctggctggttgacagctttgggtcccttgtccctggctggggaatgcgggggaccccctgaagagtggcggaggggcggccgggtggtggctgtcgcttgtcggaaggacgtcgtgctataacatcttttatctgcaattag Cynomys_ludovicianus gtagccactcggcg--ggacctgtccgacagcc---------cgtgaccagctcccaaactggcttagaaacctcgtccctgtgatcagaccacatcctagtgctgcaccctcttgtc-------------ttggtcccttgctgcttggcagagctgggccccttgcctcccacagggaaagagggacacccccctggacagtggcggaggggcggccgggtggtggttgtcgca-gtcggaaggacgcggtgctataacatctcttatctgcaattag Hydrochoerus_hydrochaeris gtagcggccctgcgggggccctgtccctcagcccgtcaccccagtgaccggtccccgagccagcctagtgcctcgtccctgcagcaggcaggccac-------------------gtcctagatcgagccttcagcccccagctggctgtcagctccgggtcccctgtccctggctgcagaccgagaggagcccccggcagc-----gggagggcggccgggtggtggctgccgctccccgga--ggccgc-cgctataacgtctcttatctgcaattag Microtus_duodecimcostatus gtagccacccaacggcagcagggtgcaggagcagctcagcaccatggctgcgtcccagagtagctttgaa-------ccctttggttgggccacacctaaaagccacactctcttgtctctgaagatggcaccagtccctggctggttgacagtgttgagtccctcaccccttactggggaat-gagagggtcccctacagagtggcgggagggtcagtgggtggtggctgctgcctgccggaaggacacc--gctataccgtctctcatctgcaatcag Microtus_lusitanicus gtagccacccaacggcagcagggtgcaggagcagctcagcaccatggctgcgtcccagagtagctttgaa-------ccctttggttgggccacacctaaaagccacactctcttgtctctgaagatggcaccagtccctggctggttgacagtgttgagtccctcaccccttactggggaat-gagggggtcccctacagagtggcgggagggtcagtgggtggtggctgctgcctgccggaaggacacc--gctataccgtctctcatctgcaatcag Myocastor_coypus gtagcg-ccacactggggccctgtccctctgcccatcaccatggtgaccagagcctgagccggcataggacccctacccctgaggtggaggcatct----------------------cctcaaattggcttcagccc-------------------gggtctcttgcccc-ggctgcagaatgaagggaccaccctggagtgtgccggagggggagccgggtggtggttgccgctggtcggatggacgtcgtgctataacatctcttatctgcaattag Octodontomys_gliroides gtagcacccgcg-cggggccccttccctctgccc-ctgccacggtgactagagcctgagccggtgtaggacccctgtccgtgaggtggaggcatct-----------------------cctaaatgggctttggccc-------------------gggtctcctgtccc-gactgcagaatgaagggacccccatgcagagtgccggaggagaggccgggtggtggctgccgctggtcggaaggacacggtgctataacatctcttatctgcaattag Proechimys_guairae gtagcgcccacaccggggccctgtccctctgcccatcaccatggtgaccagagcccgagccagcatgggacccctacccctgaggtggaggcgtct----------------------cctcaaattggcttcagccc-------------------gggtctcctgtcccgggctacagaatgaaaggaccgccctggagggtgtcagaggggaggccgggtggtggctgccgcttgtcggaaggacgtcgtgctataacatctcttatctgcaattag Sciurus_vulgaris gtagccacctgacg--gggcctgtccatcagcc-gccgccatggtgaccagctcccaaactggcttagaacccacgtccctttgat-aggccaccctctagagctgcgccctctggtc-------------tcagtccccggctgtgtggcagatctgggtcccttgccccccacaggaaatgagggagacccccctggagagtggcggtgggggcggcgggtggtggctgtcgct-gccggaaggacgcggtgctataacatctcttatctgcaattag Homo_sapiens gtagctggctcaaggtgggcctgtccctcagctggtcaccctgggaaccggcttccacactgtcttaga-----------------------gcaccctagaaccacaccctctggtccctgaaaagggcttcagtccctggctgtttggcacatttgggtctcttgtcccccactgggaatgagggggacccccctggagtggggcggagggggcagccgggtgtggtcactggt--ctggaaggacatcgtgctataatatctcttatctgcaattag Cavia_porcellus gtagccgccc-gcgggggccctgtccctcggcccgtcacctcagtgaccggt-cctgagccagcctagcacctcatccctgcagcaggcaggccac-------------------gtcctaaatcgaggcttcagcccctggctggttggcagctctgggtcccctgtcc--------------ggaggggcccctggcagtgggaggggagggcgggcgggtggtggctgccgctcctcgga--ggccgcgcgctataacatctgttatctgcaattag Mus_musculus gtagccacccaacggcagaagggagcagggccagcccagcactgcagcaaccgcccagactgacgtggaa-------ccctttggttgggccacatcccagagctgtaccctcttgcctctgaagatggctccagtccctggctggttgccagtgttaagtcctttaccccttactggggag--tgaggggtcccctacagagtggcaggaggggctgctggtgggtgatgctgcctgccggaaggacaccg-gctataccgtctctcatcttcaatcag Rattus_norvegicus gtagccacccaacggcaggagggtgcaggaccggcccagcaccgcggcaacctcccaaactgacttggaa-------ccctttggttgggccacatcctagagccataccctcttgactctgaaaatggctc------ctggctgtttgacagtgttgagtcccttaccc--------------tggggagtcccctacagagtggcgaagggggctgttggtgggtggcgctgcctgccggaaggacaccg-gctataccgtctctcatctgcaatcag Glis_glis ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ; END; BEGIN CHARACTERS; TITLE Agxt; LINK TAXA = Taxa; DIMENSIONS NCHAR=273; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Apodemus_flavicollis gggctttgtagccagaggcactagctcttatcaagtcccactgcacagctcatctgtgttgggtcactgcagggaacagcctgatcacttcaagtagaatatcctcagccctctccaccacaggggaggtcacaca---------------tttaccaggtccattctgctgtgtgaccgtccctggccatgcccctgaa--ctccatgttttgggtacagtgaggagggctggctctggccccctgacgtctgcctgctccattcctaccag Atherurus_macrourus ggccc---------aggacagcagctcttg-agagcgtgagggc------------cggagggaccctg-----aaggcttttccca-tccgcttacagtgtccatccttctgtccctgtgggaggaaaccgcagacctggtccagcgcattctccccagccagccatgctaagtgaccctcactgaccaccacgccggccccttctccagctctgtggcacagtgggagctgacctgggtccctcgtcatctgcctg-cctgcacccaccag Cynomys_ludovicianus --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Hydrochoerus_hydrochaeris ggcccaggacagcagggacagcagctcccc-agagcagaagtgc------------tggggggacgcagtagtgagggcctttcctg-cccactcggaatgggcttccttccgtccccacggggggaaacctcaggcctggtccagcagactctgtcaggccaaccatgctgagtgaccttctctgcccacagggccagccccttctccagctctgtgccacagtgggggctggcttgggctccccgacatctgcctg-cctgtgcccaccag Microtus_duodecimcostatus -----------ccagaggcactagcctgtattgagccctgctgcacacgccccacctgtggggtcactgcaggggaa-----cagcacctcaggtagaatatcctcaaccctctcca-cacagggaaagtcacacatcag----------ctttaccaggtccactctg----------------gcccccaaccctggactctctatgttttggggacagaagggaaggctggctctggccccctgacatctgcctgttccacgcctgccag Microtus_lusitanicus -----------ccagaggcactagcctgtattgagccctgctgcacacgccccacctgtggggtcactgcaggggaa-----cagcacctcaggtagaatatcctcaaccctctcca-cacagggaaagtcacacatcag----------ctttaccaggtccactctg-----------------gccccaaccctggactctctatgttttggggacagaagggaaggctggctctggccccctgacatctgcctgttccatgcctgccag Myocastor_coypus --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Octodontomys_gliroides gccctgtgctg-cggggccctgagccactctggggcacacgtgtcccatccacaagtgggaggg-ccaggacagagagcctctccca-cacccttgggacatccttcctcccaagcccatggggggaaacctcaggcctggtccagcagactctgccaggccagccacactgagggaccttcagtgaccaccgtgccggccccttttccagccctgcaccacaggggtggctggtccgggctccccaacacctgcccg-cctgcacccaccag Proechimys_guairae ggcctgtgctgccagggccctgagctctcccgaggcccatgtgccccatccacagatgggagggcccaggacagagagcctttccca-cacacttgagccgttcttcctccagtctccatggggggaagcctcaggcctggtcccgcagactctgccaggccagccatactgagggaccttcagtgaccactgtgccagccccttctccagccttgtgccat-ggggtggctggcctgggctccccaacacctg-cca-cctgcacccaccag Sciurus_vulgaris --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Homo_sapiens ggccggggtcatccgaaagcccagctctccaagg--------------------------ggtatccagtaaaggcagcctttatgattccactcggaacatccttccttccctctgaccagacggaagccccacgcctggcctggctgtgtctctgag--tggcagtggggagggaccttcactg--caccaccctgtcctcccgtgtggctgcgggtgcagagggaggctggcctgggtgctctgacgtcagcccgccctgtgccccccag Cavia_porcellus gactc---------gggacagcagctctctgagagcaggagcac------------tgggaggacacagcagtgagggcctttcctg-cccacttggaatgggcttcctcccatcccctcggggggaaacctcaggcctggtccaacagactctatcaggccagccatgctgagagaccttctctgcccactgggctggc--cttctccagctctgtgccatagtgagggttagcttaggctcaccagcatctgcctg-cttgtgcccaccag Mus_musculus gggctttataaccagaggcactagcccttatcaagtcctgctgcacagcccatctgtgttgggtcactgcagggaagggcatgagcacctcaaatagaatatcctcagccctctccaccacaggggaggtcacacatcag----------ctttaccaggtccactctgctgagtgaccctccctggtcgtacccctgaa--ctctatgttttaggtatagtggggagggctggctctgaccccctgacatctgcatgttccatgcctaccag Rattus_norvegicus gggctttgtaaccagaggcactag---tgagtcagtcctgttgcacaagcccactgtgtggggtcactgcaggggacagcatgatcgcttcaagtagaatagcctcagccttctccaccacggggggggtcgcacatcag----------ctttaccaggtccactctgctgagtgaccctccctggctgtacccctgaa--ctctatgctttgggtacagtggggagggctggctctggttccctgacctctgcctgttccatccctaccag Glis_glis --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ; END; BEGIN CHARACTERS; TITLE Catsper3; LINK TAXA = Taxa; DIMENSIONS NCHAR=303; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Apodemus_flavicollis --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Atherurus_macrourus gtta?gctatgcgatcagattaggtgtggcaggtggtggtaaggaccaagtatctgggagaaccagatgtgtctccctcctgaagtggagtggaggtgatgatatgggcccacccctcttctccctgagtgtatgcatttgtcttgcttcatgat--ggctgataagacgggtctggccccgtgtgggggta-gctcctaatgagggcctaagcagcagggcaaggtgaggtggggaagaagaccagggaggggagagaatgcatcaagagcctgtccccgactccactctttgac----tag Cynomys_ludovicianus gtgaggctgtgcgggaatgccaggtgcgacaggcagaggtgtgggccgggcctctggggagaacaacagtgtctctct-ctgaaacagagtgatggtggcctggtgggcccttccctcttggccatgagcttgtgcgtttgccta-------------gccaacaggagggggctggctctgt-tggggggatctttgtgctgaaggcctgagccaca-ggcaagaagaggcaaggggcgagaccaggtcgtgggcagtg-------------tgctccttactctaccctttgactcactag Hydrochoerus_hydrochaeris gtaaggctgtgcggatccatcaggtgtggcaggtggtggtgaggaccaggtatcaaggagaatcagatgtatctctctcccgaagtggagtggaggtcacaagctaggcccttccctcttctccctgagattgtgcctttttctttccttatgatggagctgatgagacggggctggctctgtatgggggtgccctcctgctgagaacctaagcagcagggcaaggtaaggcagggaggaagactgcagaggggagag--tatattgagagccttcccttgcctccacctct-gac----tag Microtus_duodecimcostatus gtgagtctgtgcgctcaggttaggtatggcaggtagaggtatgggccaggtgtcttggacacgcactcgtgtcttttttatgaagtgatgtgggggtagccaggtgacccctctcctcttctccctgagttca----------ccacttcacgatgggaccggcaggcc----------------------------------------tggggttcagggcaagctaggca--gagaaaggctgggaacggagagctgcagaagagacaccgtggtcttgactatctgttctgct-tgctag Microtus_lusitanicus gtgagtctgtgcgctcaggttaggtatggcaggtggaggtatgggccaggtgtcttggacacgcactcgtgtcttttttatgaagtgatgtgggggtagccaggtgacccctctcctcttctccctgagttca----------ccacttcacgatgggaccggcaggcc----------------------------------------tggggttcagggcaagctaggca------------gagaacggagagctgcagaagagacaccgtggtcttgactatcttttctgct-tgctag Myocastor_coypus --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Octodontomys_gliroides t---------gcagtcaggtcagatatggcaggtggtggtgaggaccagatgtcatgaagaaccagaggtgtctccctctggaagtggagtggatgcggtgaggtgagccc----------ttcctgagtgcatgcgtttgtcttgctttatgatggggctgatgagacggggctggtcctgtacggggacgccctcctgctgagggcctaagtggtagggcaaggtgaggcaggagagggga------------gagtacatatcaagagccttccccttca-----ctgatgac----tag Proechimys_guairae --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Sciurus_vulgaris gtgagcctgtgcgggaataccaggtatggaaggtggaggtgtgggctgggcctctggggggaacagctgtatctccct-ctgaagtcaagtgaaggtggcctggtgggcccttctctcttggccctgagctcatgcatttgcctagcctcatgatggggccaataggacggggctggctctgt-gggggggatccttctgctg-aggtctgagctgca-ggcaaggaaagacaa-gggcaagaccaggtagaggacagtattcagtgagagcctgctccttactccaccctctgactcactag Homo_sapiens gtgaggccacacggtcagggcaggtgtggcagatggagctgtagggcaagtctccagggaggacagctgtgtcttcccaatgaagtggagtagaggtggccagatggacctgtccctctcctccctgagccagtgcatttgccttgcctgctgatggggtcaacaggacgcggctggccctgtgtggggaagtgctcctgctgagggcctgagcagcggtgcaagactggggaagaggaaagactgggtctggg----catgtagcgagagcctgtagttgactccatcgtctgactctctag Cavia_porcellus gtgaggctgtgcggatccatcgggtgtggcaggcggtggtgagggtcaggtatcaaggagaaccaggtgtgtctctatcctgaagtggagtggaggtctcgagctgggccc-tccctcttctccctgagattgtgcatttttctttccttatgatggggc---------ggggctggctc-gaatggggatgccctcctgctgagaacctaggcagcagggccagggaaggcagggaggaagactgcagggcagagag--tgtactgagagccttcccctgcctccacctct-gac----tag Mus_musculus gtgaggatgtgtgcttaggttaggtgtggca------ggtatgggtcatgtttcttggacaagcaattgtgtctt----atgaagaggtgtagagctaaccaaatggtccccctccccaaccctgcaagttca----------tcaccttatgatgggggcagcagaccggggctgggcctgtgtgagggggcctttctgctg-aggcctgagcagcagggcaagctaggcaaggagaagggcttgaaatgaaaagggtgta----gggaacacaatcctgactgtatattctgccgtgttag Rattus_norvegicus gtgagggggtgcgctcgggttaggtgtggcaggtacaggtatgggccagatttcttggacaagcaattgggtctt----gtgaagtggtgtagaggtaaccaaacggcccc-ctccccaactctacaagttca-----------cacctcgtgatgggggcaccaggtcggggctggccctgtgggtgggggcctttctgctg-aggcctgagcatcagggcaagctaggaaaggagaagggcttgaagtggaaggggtgtg----ggggacaccatcttgacggtatattctgctgtattag Glis_glis gtgagactgtgcgggcaggtcaggtgtggcaggtagaggcatgggccagctctctggggaaaacagctgtgtttccctcctgaagtggagtgaaggcag-agcatgggctctgccctcttcctc-------tgggccttagccttgcctcgtgatggggcccacagggcggggtcggccctgtgcggg-ggatccttctgctgagggtctgagccacagggcaaggctaggtgaggaaaatgaccagggagcgg-gagtatggggcgagggcctgcccctcactctaccccctgactcactag ; END; BEGIN CHARACTERS; TITLE Dhcr24; LINK TAXA = Taxa; DIMENSIONS NCHAR=254; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Apodemus_flavicollis gtaagcgggcatggtcccagggaacccaggccttctccctagagctgtgtcacccacccatctttgtgtatctgccctctgggcctcggtttctccaagttcacaattaggggtcttggccactcggaccgagtgtcctgataagc--------tgggagtgtctgagtggggtgcagagttgcgggatgtgggtgaactagctctgctacctgctgggaaaagacaggccg-acctgtttctctgacctctca Atherurus_macrourus gtgagcaggcgcggtccRgggac-ttcacagtctctcccctgagcc------cacgcccacccagtcgcaccggccctctcagccg----------------------------------cttggcagtggagcatttctctgaactgctcccgtggtggagtcagaggaggcggcagagtgcgggaggctgggag------------tgtctgctggcgaagaggcaccaacgcctgcctcgccggcttcccc Cynomys_ludovicianus gtgagcgggcggggtcccaccgaatccccaa-gtcttgtctaagccacatgccccactt----tgacaggcctgccctctgggcctcaccttccccaactacaaaatggggggctcgtccctcagcgatggagcacctctgtggaccactcgggtgggggagtcagagtcttaggcagga----ggagggggcgggctacagccctgtcacctgctggagaaaaagcaccaataccctcctccctggcctcctt Hydrochoerus_hydrochaeris gtgagcaggcatggccccagcac-ttcgcagccttt--cctgagcc--acagcccacct-gctgg--------gccctgtcagcctccgtttttccaactgtaaaatcaggctttgtccccttggcagtggagtacctctatgaatgggtgctgtggtggcatcagagcaga--gcagggtgtgggagggggggag---------tgtcacctgccccagaagaggctccattgcccacctcgccggcctcccc Microtus_duodecimcostatus gtaagcgggcatgctcccatgggacccagacctcctctccagagccatgt----cacccagctttgtgtatctgccctccgggcctcagttcctccaaccataaaatgaggatcttagccctcagccagggaagggtctgatgggctgct--ggtaggagtatctgcgagagctgcaaactggtggaatgtgggcaggccagtcctSctacctg------------agacca-acccacttccctggcctctca Microtus_lusitanicus gtaagcRggcatgctcccatgggacccagacctcctctccagagccatgt----cacccagctttgtgtatctgccctccgggcctcagttcctccaaccataaaatgaggatcttagccctcagccagggaagggtctgatgggctgct--ggtaggagtatctgcgagagctgcaaactggtggaatgtgggcaggccagtcctgctacctg------------agacca-acccacttccctggcctctca Myocastor_coypus gtgagcagacctggccctgggacatccgtggcctct-ccctgatcc-catagctcacctgggcagatatgcctgccctctcagcctcagtttggcccagtgtaaaatcaggccttgtccccttggcagcagagcatgtatctgaagggctcctgtggcggcctcagagcag---gcagggtgtgggagggtgagaa---------tgacgcctgctggagaagaggtgccagtgcccacctcgctgccctcccc Octodontomys_gliroides gtgagcaggcctggctccgggacattgacagcctctcccctgagcc-catagcccacctggccaggcatgcctgtcctctcagcttcagtttggccaactgtaaaatcaggccttgtccccttggcagtggagcatgtgtctgaatgtctcctgtggcagtctcagagcag---gca-ggtgtgggagggtgggaa---------tggcacctgctggagaagaggcaccagtgcccacctcgccggcctcccc Proechimys_guairae gtgagcaggcctggccccgggacattcatggcctct-gcctgatcc-cgtagctcactagggcaggcatgcctgccccctcagcctcagtttggcccagtgtaaaatcaggccttgtccccttggcagcagagcgtgtgtctaggtgtgctgagtg----------agcaggcggcagggtgggggagggtgagga---------tgacacctgttggagaagaggtgccagtgcccaccttgctggcctcccc Sciurus_vulgaris gtgagcaggcggggtcccaccaaattcccag--tcttctctgagtcacatgccccactt----cagcaggcctgtcctgtgggcctcactttccccacctataaaatggggcctcagcccctcagtgatgg-gttcctctgtggactgcttcggtgggggaggcggggtgtcaaccaggg----ggagtgggtgggctgcagccctgtca-ctgcgggaggaaaagcaccaatgccctcctccctggcctcccc Homo_sapiens gtgagcaggtgcattcccttggaatccatggctcctcccctgaaccgtgtgaccgacct----tgggcacactgccctctgggt----gttttcccaactttaagatgaggtccttgtccctcagtgatggagcactcccatgacctgctccgatggtggagtcagagaatgctgcaaagtgggtgggtatgagcgggccagccctgtcacctgttggagaaaaagcaccaatacccacctccctggtctaccc Cavia_porcellus gtgagcaggcgtggccccaggac-ttcacagcctctcccctgagcc-cacagcccacct-gctgggcctgtctgccctctcggcctcagtttttccaactgtaaagtcaggctttgtccccttggcagtggagcacctctgtgaacagctcctgtgggggcatcagagcaga--gcagggtgtgggagggtggaag---------tgtcacctgcccaagaagaggcaccattgcccacctggccggcctcccc Mus_musculus gtaagcgggcgtggtcccatggaacccaggtcttctccctagctctgtgtcgcccacccatc--tgtgtatctgccctctgggccttggtttctccaactatacaattaggatcttagcccccaggaactgagtaccctgataagctgctttagtggaagtatttgagtgggttacaaagtgcaaggatgtgggtgagctagtcctgctacctgctgggaaaagacagacca-agctgtttctctgacctctca Rattus_norvegicus gtaagtgggcatggtcccatggaacccaggccttctcccttgagctgtgtcacccacccatctttgtgtatccgccctctgggcctcagtttctccagctgtatgattagggtcttgcctctctgggaccaagtgccctgataagctgcttctgtgggggtatctaagtgagttacaaagttgtgggatgtggatgatttagtcctgctgcctgctgagaaaaaatagacca-acctgtttctctgacctccca Glis_glis gtgag---------tccc-------------cgtcccctctgaact--gtgccccacct----ccacaggcctgcc--gcagggcctcatcttcccaaccgtaaaccaagggcctgtccc-----------ggcacttccatggactgttccagtggtggagttggaggatactgcagagttggggatgggggacagccatgccctgccacctactggagaagtagctccaatgcctgcctccttgtcccccc- ; END; BEGIN CHARACTERS; TITLE Ivd; LINK TAXA = Taxa; DIMENSIONS NCHAR=411; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Apodemus_flavicollis gtaagtgtgcctcctggaggcctgagatctccagccY--ttgtcaggt-----------------tagcagctccgccaggcgcaggaaagggacttcatga-------tctgtcctagagaa---------tctcctacgtttaattcttcaccgggaagggagatggtattaggtgagagagaggcgc--ctctgtttagttaatgtgcttgtgaaaccagaggcccagctctggcagctgggcaggc-tgggcaggcggtgttgtggctc-agcagggaggctccctctcaggtttagctccttaccctcccacctcagctctcaggcctgatcccctgaaatacccattccccacttgaca-------------acacaactccacaggcctcctcctttctggcag Atherurus_macrourus gtaaatgtgccctctggggagctgaggttcttcagcctcttggcaggtgtggctgtcagaaggagcagcaaccttcccggtccagaaagatccgcctcttggccgtgct-----ctcttggaagaaaccccttctctcacgttgaattcttcacccagaagggaaacagcatcagatgacagagagc-aacggtttgcttgag----gtggataagaaaggagaggccaggcccca-----gggaccctgcagggtgg--ggtgccgtgaccccagggcagcaggagtttctcaggtccagttccttatctttagagctttcttcccaggcctttc--tctggcatgctgccaccccacctggcagcagtgggatgatacacctccacagcg---ttctcctttctggcag Cynomys_ludovicianus gtaagtatggctcctggggatc-----tcttttagcctcgtggcagatggaactatcctaagcagcagcagccttcccgggccaaagggagctgattcctggcccctgcaatctctcttagagaaacttactcctcctgcattcagcttttcacacggaaggaaaatgtcattaggtggataggaggcgcaactctgcttaggtggtgtggatatgaaatgagaggccctgctctggtgcctgtctactgctgtacagttggtgctgtaactgctggatgacaagagcttctcaagtccagatccttatcttccaatcttt-cctcagggcctttccctctgtcattctgccactcctcttggca-gggtgggatgagacacctccacagtgtgtttctcctttctggcag Hydrochoerus_hydrochaeris gtaagtgtgccctctggggagctgaggtccttcagcctcttggcaggggcaggcatcagaagcagcagcaaacttcctgggacaaaaggagccacctcctggtcatggc----actcatggagaaaaccccttttcttacgcggcattcttcactcagaagggagatgtcaccatatgacagagagccaaagttctgcttgag----gtggatgt-aaaggagagaccagg-------cggagggccctgctgtgccgctgtcactgtgagcacagggccgcaggcgtttctctggtccagttccttatctgcagagcgtttgtcccaggcctctg--tctagcatgctgccaccccgcctggca-cagtggggtgtcac-----------------ttcctttctggcag Microtus_duodecimcostatus gtaagtgtacctcctggcaacctgagcttgccagtc---ttgttagat-----------------tagcagcctccccggaacaaaggaagctactttgtggtttatcctctgtccttgtcaa------tctcctcctgtatttaattcttcatacag-agggaaatgtcactatgtgacagagaggcgcaactctgcttagtcagtgtggttgtgaaacaagaaacgcagctctgacacctgcctgctgctgggcaggcaatgctgtcactgcagcagggagt------------ttcagttcctcctcctcccacctcaaccctcaggcctaatcctttgacaccctttaaccccgcttgaca-------------tcacacccccatg---ctgtcctcctccggcag Microtus_lusitanicus gtaagtgtacctcctggcaacctgagcttgccagtc---ttgttagat-----------------tagcagcctccccggaacaaaggaagctactttgtggtttatcctctgtccttgtcaa------tctcctcctgtatttaattcttcacacag-agggaaatgtcactatgtgacagagaggcgcaactctgcttagtcagtgtggttgtgaaacaagaaacgcagctctgacacctgcctgctgctgggcaggcaatgctgtcactgcagcagggagt------------ttcagttcctcctcctcYcacctcaaccctcaggcctaatcctttgacaccctttaaccccgcttgaca-------------tcacacccccatg------ctgtcctccggcag Myocastor_coypus --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Octodontomys_gliroides gtaagtgtgccct--ggggaactgaggtccttcggcctcttggcaaaggcaggggttgatagcagcagcaaccttcccgggcccaagggcgccaccttctggttttg------actctttgagaaaattccYgttcctaccttgaattcttcacacacaagggaaatgccatcatgtgacccagagccgcagttctgcttgag----gtggatgtgaaaggcgaggtgaggtcccagccatggggacttgttgggtagcc-ctgctatgccagcaggacagcaggagtttctcaggtccatttccttatcatcacagcttttgtcccaggcctttg--cctggcatgctgccaccccacctggcaccggtgggatgacacacctccacagtg---ttcttctttctggcag Proechimys_guairae gtaagtgtgccct---gggaactgaggtccttcggcctcttgacaaaggcaggcctcagaagcagcagcaaccttcccgggcccaagggcaccacctcctagctgtg------actcttggagaaaacccctgtccctacattaaattcttcacacaaaagggaaatgccattgtgtgacagcgagcctcagctctgcttgag----gWaggtgtgaaaggagaggtgaggccctgaccctggggacctgctgag---------ctgtgaYtccagggcagcaggagttccccaggtccagttctttatcRtcagagcttttgtcccaggcctttg--cctggcatgctgccaccctgcttggcaccagtgggatgacacacctccatactg------ttctttctggcag Sciurus_vulgaris gtaagt--ggctcctggggacctgtgttcttttagcctcgtggcagatggatctatcct-agcagtagcagccttcccggaccaaagggagctgcttcctggcccctgtgatttctcttagagaaacttactcctcctgcatttgttttttcatacaaaaggaaaatgtcattaggtggataggaggcgcaactctgcgtaggtagtgtggatatgaaacaggaggccctgctcggatgcct-cctactgctctctagttggtgctgtaactgcagggtaacaagagtttctcaagtccagatccatatcttccaagctttcccttcgggcctttccctctgtcattctgccaccc-acttagcaggagtgggatgggacacctccacagtgtctttctctttcctggcag Homo_sapiens gtaagtgtggcttgagggaagctgggctctgtcggcctctcggcaggt-gacccaccatgagcagcagcagccttcccgggccaaagggagctgcctcttggccctgct--ctctcctgggagaaacctcctcttcccatgttgaattcttcccacagtggggaaatatcattaagtaacagaaaggcgcagggtggcttact-----cggctgtgaaacgaca-------ctgggctgtcacgcccctgctggccagtcagtgccgtaactg-----tggcaagactttctgaag----------------cctccctgggattctggccttcccacgctagcattttgccaccacacccggtggtgggatga---gaggtgcccacggggcctttctcctttctgacag Cavia_porcellus gtaagtgtgccctctggggagccaaggtcgttaagcctcttggcaggg--atgtgtctaaagcagcagcaacctttctgggccaaaaggagccacttcctggtcatgac----actcatggagagaaaccctcttcctacgctgcattcttcacacagaagggagatgtcattatctgacagagagccaaagttctgcttgag----gtggatgt-aaaagagaggccaggc----------agaccctgctgggctgccggcactgtgcccgcagcgcagcaggtgtt-ctcaagtccacttccttatctttagagctttcgttccaggcctttg--tctggcatgctgccaccctgcttggcatctgtgggatggcat-----------------ctcctttctggcag Mus_musculus gtaagtgtgcctcctgggtacctgagatctccagccc--tcgttaggt-----------------tagcagcttcaccagacacaggaaagttact-------------tctgtcctcgagaa------tctcctcctacatttaattctttacccagaagggaaatggtatgaggtgacaga----------gctgtttagtcactgtggttgtgaaaccagaggcccagctctgcccgctgcccactgctgggcaggcggtgctgtggctg-agcaagggg----tctctcaggttcagtt---------cccatctcaaccctcgggcccgatgccctgacatacccactccccacttgaca-------------acacaactccacaggcttcctcctttctggcag Rattus_norvegicus gtaagtgtgcctcctgggtacctgagatctgcagctc--ttgttaagt-----------------tagcagctttgccaggtgcaggaaaggtactgcgtggtctatcctctgtcctagagaa------tcgcctcctacatttaattcttcacccagaagggaaatggcattaggcgacagagaggcgccgctctgtttaatcactgtggttgtgaaaccagaggcgcagctctgacagctgcctgctgctgggcaggcagtgctgcggctg-agcagggag----tttctcaggttcagttcctcaccc-tccacctcagccctcagacttgatcctctgacatactgtctccccacttaaca-------------acacaactccata-gcttcctcctttctggcag Glis_glis gtaagtgtggcccctggggacctcagctct---------ttggcaggtggagccaccctgagcggccacagccttcccgggctaaagagagccacctcctggcccctgtgctctcttctagagaaagaaccgactcctatgtttaattcttcacgcagaaggaaaatgtcctaaggtgacaga-------------------------------------------------------------------------------------------------------------------------------------------------------------cggcaatctgccaccccgcttggcagtggtgggatgacacaccacca-----gcatctttctctctggcag ; END; BEGIN CHARACTERS; TITLE Nadsyn1; LINK TAXA = Taxa; DIMENSIONS NCHAR=294; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Apodemus_flavicollis gtggggtgtctggcctgtcggggataccttgtggcacagcacacggaggagaatcaaggttgggtttgtttgggttttttatccttgccacctggacaatagacaaggtaagggaagtctggccacagcctccagcaaatttgcatgatggtggatggagccatgaccaaaacagcttaaccctagagaaagatttcccagggctgcagacttgaaacagccccagaaagtctgctccttttcatagagaactaagtttggagtttggtgtgaacagttttttcaccgccatag Atherurus_macrourus gtaagccgctgggcttgctggaggccttctcggggacaccacacgagagagacccagaggatRgggcctgggg---atgcgtccttgtggccttg----tgctctaggtgagggagcactctttatagctgcctgcaaagccacccaccagtgggtggagctgtgagatgaaaagctgaagctcagaggagatttgctcagggctctgttcttgagcctgcctggcatgggttatctg---gctttggtgatgatgattggagcttggtgtgagcagccctgttcccgctgcag Cynomys_ludovicianus gtggggctctgggcttgctggagactcccctggggccaatgcac--------cccagagggagggccctgggg-----ccctgtgtgctacctggacactgggctaggagggtg---tctcctcaccatgtccagcaggggcacctgccagtgggtggggctgtcagggac-------------------Rgatttgtctgggctgcagtctcgggctggctctgcgtggcggtgctcagtcctctg-tggcggtggctagagcgctgagtgagccccttcctgtct----tag Hydrochoerus_hydrochaeris ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Microtus_duodecimcostatus gtaaggcgcctggctggtggggaatatcttgaggcaccgtacacgaaggagacccaaggttgagtttgtttgggctttttatccttgtcacctggacaata---aaggtgagggaagtcttctggcagcttccagcaaagtcacttgttggccagtgaagtcatgaagcagaaagcttaagcctagacaaggctttctcagggccctgggcttgaaccagcttcggtgacctcaccctatcctatgggg---taagtttggaggttggtatgatcagtccttttaccactgtag Microtus_lusitanicus gtaaggcgcctggctggtggggaatatcttgaggcaccgtacacgaaggagacccaaggttgagtttgtttgggctttttatccttgtcacctggacaata---aaggtgagggaagtcttctggcagcttccagcaaagtcatttgttggccagtgaaRtcatgaagcagaaagcttaagcctagacaaggctttctcagggccctgggcttgaaccagcttcggtgacctcaccctatYctatgggg---taagtttggaggttggtatgatcagtccttttaccactgtag Myocastor_coypus gtagggccctgggcttaccagaggtcttctcagggacaccacacgagaaagacccagtgagtggggctcgggg---ccacgtccttgtggcccgaatgctgctctaggtgagggagaaagccttatagctgcctgcagggtcacctgttggtgggtggagctgtgagacaaaaagccgaagctcagaggagattttctcagggctcagttcttgagccagctgtgcatgtgtgatctg---gcttgggtggtggtgactggggcttgatatgagcatccctgttcccgctgcag Octodontomys_gliroides gtagggctgtgggcttgccagaggtattcttggggacaccacacgagaaaggcccaa-gggtggggcttaggg---tcacatccttgtgacctgaatgctattctagctaagggagaaatccttacagctgcctataaggtaaactgccggtacatggagctgtgagacagaaagctaaagctcagaggagatttgctcatggcgcagttcttgagccaactctgcatg-----------------ggtggtggtgactggagcttgttgtgagcatccctgttcccgctgcag Proechimys_guairae gtagggcgctgggcttaccagaggtctcctcagggataccacatgagaaagacccaggaggtagggcttgggg---caacgtccttgtggcctgaatgctgctctaggtgagggagaaatcctgacagctgcctgcagggtcactcgttggcgggtggagctgtgagacaaaaagctgaagctcagaggattcttgctcagggcccggttctttagccagctgtgggcgcgttgtctg---tcttgggtggtggtgactggggcttgatgtgagcgtccctgttcccgttacag Sciurus_vulgaris gtggggctctgggcttgctggaggtgc------ggccgatacac--------cccagagggtggggcctgggg-------ccctgcgttgcctagacagtggcctaggtgggag--gtctccccgctgctgccagcaggg-cgccagctggtggatggggctgtcagggatgg-----------------gatttgtttggggctgcattcccaggctggccccKcatggtgctgcctagccctctggtggcagtgactggagccctgtgtgagcagccctgttccttccacag Homo_sapiens gtagggctctcagcttgctgggaggctgcttctggccgatgcacgagagagacgcagagggtgggggtgtggggacacaggtccttgtggcctggaagccagtccaggtgagcaagttcccttggaagctgctggggaggccaccttctgatggatgcagccatg--atagaaagcggaagcccagagaagatttgctcggggccccattctcaagctgactctgcatggcatcacctcgtcacttggtggcactgaccggagcccggtgtgcacagccctgttccctctgcag Cavia_porcellus gtagggccctgggcttgccacagcccttttcagggacaccaaacgagacacccagagggggtggggcttggag---gcgcgatctttcagcctgaatgttaatctaggtgagggagaacccctttcagctgcctgtgaggtcacttttagatggatggagctgtgagac--aaagctgaagctcagaggagatttattcagggcttggttcttgaaccgactc--catgtataacctg---gcttggttggtgatgactgcagcttgtcctgacctgccctgtttccgctgtag Mus_musculus gtagggtgcctggcttgttggggataccttgaggcacagcatacggaggagactcaaggttgggtttgtttgggctttttatccttgccacctggacaatagataaggtgggggaagtctccttgcaggctacagcaaagtcacatgttggtggatagagccatgaaacagaaacctttagcctagagaaggtttgctcagggccctggtcttgagccagc-tcagtagccttatcttatcctatgga----cagatttgaagtgtggtgtgaacagttttttcaccgctgtag Rattus_norvegicus gtagggtgcctggcctgtcggggagaccttgtg-----gcacacggaggagactcaaggttgggtttctttgggtttcttatccttgctacctggacaatagacaaggtgagggaagcttccttgcagcctacagcaaagtcatgtgctggtggatggaaccatgaaacagaaaacttaagcctagagaaggtttggtcagagccctagtcttgaaccagc-tcagtagccttaccatatcctat-gga---cagattgggagtttggtgtgaacagttttttcactgccatag Glis_glis gtggggccctgggctctctggaggtggctttagattcacatgacggagtggcacccgggagcggggcttggggMcatgcccctcttg----------------ctagatgagggcggtctcctggcagctgacagccgagccacctgcgg-----tgtcgtcgtg-ggagggcaactgaagcccagagatgattttctcagggctccgtgcttaggccggctccgcgtggtgttacca---------------------cgacctctgtgtgagcggccctgtttcctctgcag ; END; BEGIN CHARACTERS; TITLE Rras; LINK TAXA = Taxa; DIMENSIONS NCHAR=421; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Apodemus_flavicollis gtttgggtgccacctcccctgataacatttggccctaccaagcgctctcgggaccatctcctactggatccctggtctctctactgtcacatcttccacttagatg---accccccaagtggaataacccatcgcttagccacactccatcattgagggattctaggcaggacctctagaa------------------------cctggtccctacttatagcatatgctccctgtc--------------------cctgccccagttaacatcttcataatctcctgacatctcact--gaggtagcttcgaccctccaggaccctcctcttgggtctttctagaactttctctcctgagcctgctgagctt----gcggctttcagtgtcccctctccctgacctttccctctgtct Atherurus_macrourus ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Cynomys_ludovicianus gtttgggtgccgccttccctggggacaaatgggtttgggaggctccgtccagagcatcctcctctgcatctctgctccctcccatgccacgcttctcatttggctgtgttattcccaagtgggaccatccattattcaccagagggcccccaggacagatggatggatggggcaaagggcactgccccttgccccctcttttcccacctagctctccccacagtctctccttcctctaccactgaaacacccccaacccacaccctagttaacgtccatgaaacctcccgaYtcctcacttgaatggcacctactccctc---aacatccacccgggatctttctgcaactttcccctt-gagccaccaaag-------gcttccccagctggggtcaccccctgattcgtgtccataacc Hydrochoerus_hydrochaeris gtatgggtgccccccttccgaggtacatcagcaccccgcctgcctgcccaggagcccctactcctttgtgttctcttctgcacttgtcacttcctggacacaaaggtgtgatttccacatagaact---catcttttagctgaat--ctcctttgggcatttccagcc-------------ctatacttggcctgtgccaagaccgacaatcctcacttgtagcctgcagactctgtcttaaacaaaaaccttgggttccatcccaacctagtctcctgagctggtcctgattccttattcata---tgtcaaaactccc--------------tgcatcccacaggaactttccctctggagctcccagtgcctgttggcttccctagctggggtcactccctgattcctctcccctgcc Microtus_duodecimcostatus gtttgggtgcccccttccttgatggcatttggacctaggaggctctctcgggaacctctccttcctggtccctggtcccttcactgtcagaactttcacttcgacg---aacccacaaatggaaccatctatcactgagccacaccccctcactaggggattctaggcaggggttccatcactgaccatcacataatcctttgctcctgcaccctagctgcagtgtgtgttccctctcgtagctaagcaccct-----------------aacttcttccctgcctcctgaagtctcacttagatatagtttcaactctccagtatcctcctgttgggtct----------ttctttcttgagcctgctcagcctt------gcttctgtcagccccccaccccaactccttgctttgtcc Microtus_lusitanicus gtttgggtgcccccttccttgatggcatttggacctaggaggctctctcgggaacctctccttcctggtccctggtcccttcactgtcagaactttcacttcgacg---aacccacaaatggaaccatctatcactgagccacaccccctcactaggggattctaggcaggggttccatcactgaccatcacataatcctttgctcctgcaccctagctgcagtgtgtgttccctctcStagctaagcaccct-----------------aacttcttccctgcctcctgaagtctcacttagatatagtttcaactctccagtatcctcctgttgggtct----------ttctttcttgagcctgctcagcctt------gcttctgtcagccccccaccccaactccttgctttgtcc Myocastor_coypus ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Octodontomys_gliroides ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Proechimys_guairae ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Sciurus_vulgaris gtttgggtgctgccttccctgg------------------ggctccgtctggagcatcctcctttgcatccctgccccctccaatgccacactcctcacttggatgtgttatccccaagttggaccatccctcattcaccagagggcccccac------------gatggggcaaggggcactgccctgtcttcctgctttcccacctagcctctcctcacagtcttcccgtcctctaccactgaaacacccccaacccacaccctagttaacg--------aacccctgattcctcacttgaatggtatcaactccctc---agcatccacccaggatctttctggaactttcccctt-gagccaccacagcctgtctgcctccccagctggggc--ccccctgattcctgtgtcttcac Homo_sapiens gttcgggcacccctctttctggggacatctcagtctgggaggctccttccagagcatcctcctctgcagtgctgcgactgccactgtcacacagctcacctagatgggttacccccaaactggaccttccatcaccgagcagagggccctcaggagaggctgctggacggaacaaaggacacagctctctttgccccttcctcgcattcctcccttccagccaacctcccaccctgcctctgccgaacaccctgacttccctgcctggttagtgcccacgaagcccccccatcccttacttagaagacaccaagcccctgcggcatctccctccataatctctcaggagctcttcctcttgagttctcacagcctgtctgtctctctggctgcggtcaccccctgactcccccgtgtcccc Cavia_porcellus gtatgggtgcctccttctgatgtaccatcagcacccc----gcctgcccaggagcccccacttctgtgccctttcttctgtgcttgtcacttcctggacataaagatgtgatttccacacagaact---catcttttagccgaat--cttctttggggatttccagct-------------ctacacttggcctctgccaagaccaaca-tccttacttgtagcctgcagactctgtcttaaataaaaaccctggcttccatcccaaactagcctcctgagctggtcctgattccttatttctatgatgttaacactccc--------------agcatcccataggaactttccctctggagctcccagggccttttggcttccctagctggggtcactccctgactcctctcccctgca Mus_musculus gtttgagtgccccctcccctggtcacatttggacctaggaagctctctcaggaccatctcctactggatccctggtccctctattgtcacaactttcacttagatg---accccccaagaggaatcgcccatcactgagccacaccccatcactgagggattctaaccaggacccctagcatggcccttatactaatccgttgatactg-------------------gttccctgtcctgaacaaacacccttacttcttgccccagttaacaccttcataatctcctgacatctcact--gatatcacttcaaccctccagtagcctcctctggggtctttctagaactttctatcttgagcctgctgcaccttgcggcggctttcagcatctcctctctccgacgcctccctttgtcc Rattus_norvegicus gtttgggtgccccctcccctgatcacattaggacccaggaagctctctcaggactgtctcctactggatcactggtctctctactgtcacaactttgacttatatg---accccccaagtag-atcacccattgctgagccacaccccatcactgagggattctaggcaggacccc-agcacagcccttctagtaatccttggatactggtccctacttgtagtatatgttccctctcctgaacagacacccttacttcttgccctagttaacatcttcataatctcccgacatctcgcg-----------tgtatcctccaggatcctcctcttgggtccttctagaactttctatcttgaggctgatgagcctt---acggcttttggcatctcctctctctgacccctccctctgacc Glis_glis ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ; END; BEGIN CHARACTERS; TITLE Smo; LINK TAXA = Taxa; DIMENSIONS NCHAR=310; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Apodemus_flavicollis gtggggtcagcagccgtctgatcttgtccttcttctctaccctcagcttcatgagggccttgacagactgggac---ttcttagcagctcaccactgccctctagggaaccagtgcttttcaaggaggggccacaggagccRtgcattctaggcaggttttgttgctgtgaaggcctcagctcct--gagtcctt--aggactccaggtcct-----------aaacctagaaagatcccaggtctttcgataaatttgaaaggaa---gctactcctgcactcaccagccccaccccttctgttctcag Atherurus_macrourus gtgggatcagcagccagctcatcctgtccctcctgtctaattgcagcctcatttaggcttagacagcctcaggcagcttctctgtggctcatcactgcctcctggtgagggagtgatctgagggc--------------------------------------------------------------------------------aggccctcctccttccctggagggaatggaatcattggtctttcaggagaattgatgggaagcagctgctcttccacttcccgtctccaccctttctgccctcag Cynomys_ludovicianus gtgggatcagcagccagctcatcctgtccctcctgtctaattgcagcctcatttaggctttgacggtcttgggcagcttctcagtggctatccaccgccccctggtgagttgatgacttgacagcagggtacacaggagccttgtgttctaggttcacttctttgcagggaaggcctctactccttagagtctttgaggcatttaagactctcttcctaacctagagggaatgggac--actatctttcacaagatttggtggtaaggggctgctcctccactcccc-tctccacactttct-----cag Hydrochoerus_hydrochaeris gtagagtcagtagccagcccatcctactgctccagtctattgtcagccttatttaggtttagactatcccttgcagcttctccgtggctcaccactgccccctggtgaatgagtgatttgaggcccaggcacacaggagcctcacatgccaggctcactttgtcacagggctagtttgtcctcctcagaggcctcgaggggcctgaggccttcctccttctctgaagggaatggcatcactggtttttcacaaaatttgacaggaagtggctgttctcccactttccagcatcactctttctgctcttag Microtus_duodecimcostatus gtggggtcagccgccctctggtcttgtccttcctgtctaccctcagccccatga-ggccttgacagctggggca---ttcttagcagctcaccagtgccctctagtgagccagttttctgcaaggaggtcccacgggagccttgcattctaggtgtgcttggttacagcgaaggcctcaggctgtcagggtcctc--acaactgcaggtcct-----------aggcca---agaatcccaggcctttccgtagatttgaaagaaagcagctgctcctccatgttccagccccgccctttctgttctcag Microtus_lusitanicus gtggggtcagccgccctctggtcttgtccttcctgtctaccctcagccccatga-ggccttgacagctggggca---ttcttagcagctcaccagtgccctctagtgagccagttttctgcaaggagggcccacaggagccttgcattctaggtctgcttggttacagcgaaggcctcaggctgtcagggtcctc--acaactgcaggtcct-----------aggcca---agaatcccaggcctttacgtagatttgaaagaaagcagctgctcctccatgttccagccccgccctttctgttctcag Myocastor_coypus ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Octodontomys_gliroides gtaggctcagtagccagctcatcctactgatccagtctactctcagcctcattcagattttgatggtctgcggctgcttctccctggctcaccactgccccctggtgagtgagcgatttgagggcagggtgcccaggagccccacaccYcaggctcacttcttcacaggacagtcatgtacccctcagaggccctgagggacctgaggccttcctctttccctggaaggaatggaatcactggtctttcataagacttgacaggaaacagctgctcttccccttggtgtcatcactctttctgctcttag Proechimys_guairae ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Sciurus_vulgaris gtgggatcagcagctagctcatcctgttcctcctgtctacttgcagcctcatttagactttg-ctgtcctgggctgcttctctgtggctaaccaccgccccctggtgagttggtgacttgacagcagagtacacaggagccctttgttctagattcacttctttgcagggaaggtctctattccttagagtcctggaggcacttaagaccctcttcctaacctagagggaattggac--actgtctttcacaagatttgatgacaagtaactgctcctc--gcttccctctccatgctttctgctctcag Homo_sapiens gtgggcatggcagccagcccctcctgccctgcccgcctaccctcagccttgtttaggttttgacagccttgg--------tcagtggttcaccgctgccccctggtgagcgggtgattggagggctgggcacacaggagctctgcattctggccccacttctttgcagagaaggcctctactcct--gagtccttgaaggacttgaggccctcctccttctctggaaagaatggcatcgctggcccttcccaagatttgatgggaagtggcagcttcttcacgctccttccctatcccttctgctctcag Cavia_porcellus gtagagtcagtagccagcccatcctactgctccagtctactgtcagcctcatttaggtttag-taatctgtggcagcttctctgtggctcgccactgccccctggtgaatgagtgatttgagggccaggcacacaggagcctcacatgccaggctcacttcatcacagggcaggtttgtcctcctcagaagccacgaggggcctgaggcctttctccttctctgaaaggaatggcatcactggtctttgacaagatttgaggggaagcggctactcttccacttcctggtgtcactctttctgctcttag Mus_musculus gtggggtcagcagctgtctgatcttgtccttcctctctaccctcagcctcatgagggctttgacagactggggc---tgcttagctgctcaccactgccctctagggaaccagcgcttttcaagtaggagccacaggagccctgcattctgggcatgttttgttgctgtgaaggcctcagctcct--caggactt--aaacct-----------------------------agaatcccaggtctttcgatagatttggaaggcagcggctgctcttgcacttgccagccccaccccttctgttctcag Rattus_norvegicus gtggggtcagcagccatctaatcttgtccttcccctctactctcagccttatgagggccttgacagactggg-c---ttcttagcagctcaccgctgccctctaggggaaccagagttttggaggaggagccgcaggagccctgcattctaggcatgttttgttgctgtgaaggcctctgctcctcagagtcctc--aggactccgggtcct--------------------agaatcccaggcctttccacagacttgaaaggaagt-gctgctcctgcacttgcaagccccaccccttctgttctcag Glis_glis gtgggattggcagccggctagt---------cctgtctactctcagcctcatttaggctttgacagctttgggcagcttctcagtggctcactgacgccccctggtgagtggatgattggagatcggggcacacaggagccctgcagtctaggctcacttatttgcgggaaaggcctctactc---agagtccttgagggacttgaggtcctcctcctaacccgaagggaatgggatcgctggtcttgtgcagga-tcgatgggaagcagctgctcctccacttcccatccccgccctttccgctctcag ; END; BEGIN CHARACTERS; TITLE Trpv; LINK TAXA = Taxa; DIMENSIONS NCHAR=184; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Apodemus_flavicollis gtgagtgcatggccccagtgccacctgcctgcccagttcaccccttgctctccctcctcccctgcctccagtctggcttctattccctccttcactctgcttccttcccttctg----ctccccg----tcctcccccaactgctccaggctccatattcctcccactgtctcttctcttccag Atherurus_macrourus gtgagtccttggcgccgatgccacctgccctgcctggcctcctcctattttccttctctgctctttcccaacaaagagcccattgtccctgctattctgcctccctctcttctagtccttcctctctcccctcctctctctccctcctggccccagccctgtcacgcctgc---ccccttccag Cynomys_ludovicianus gtgagtgcttggtccccgcgccaccagcccgcccggcctccctcctcctccaattccaggttctcttccaaccaagagcccatgtcctcacatgctccgcctccctctcttctgtgcctccctctctcctgtcctctaccttcttccctgatccacctgccacgggccccctcccctctttcag Hydrochoerus_hydrochaeris gtgagtgcgtggccccgatgccagcc-----cctgcccaccctcctgttttccttctctgctctttcccaataaagaatccattgcctctcctattctgcctccttctctgtt-----ctttcctctcctctcctctgttctcctcctggttccacccccatcacgcctgctgttctcttccag Microtus_duodecimcostatus ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Microtus_lusitanicus ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Myocastor_coypus ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Octodontomys_gliroides gtgagtgcatggccccgatgccacccaccctcctgtcccgcctcctcttttccttctctgtgctgtcc-------------attgt--------ctctgtctccctctcttctattcttccctctctcctcgcctctgtcctactcctggttacgcccctgtcacgcctgctgtcgtcttccag Proechimys_guairae ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Sciurus_vulgaris gtgagtgcttggcccccgagccaccag-ctgcccggcctccctcctgctccaatcctgtgttctcttccagccaagagcccaggtcctcccgtgctctgcctccctctcctctgtcccttcctctctcctgccctcgaccttcttcctggctccacctgtcacgggctccctcccctccttcag Homo_sapiens gtaagtgcctggcccccgtgccccccaccctgcctgccctccccacgttctccatctctgcttttttccaggaaagagtcctttgtctaccagcctctgcctccctctcttctatccctttctctctctcctcctctcctctcctgctggccccacccctttcacgccccctcctgtcttccag Cavia_porcellus gtgagtgcctggccctcctgcagccg--ctgcccagccctcctcctcatctcctccgagtcatcctgccagcaaagaatccattgcctctcctactctgcct------------------------tcctctcctctcttctcctcggggttccgccgctgtcacgcccgctctcctcttccag Mus_musculus gtgagtgcttggccccagtgccacctgcctacccagttctcctcttgctctccctcttcccctccctccagtctgacttctattctctccttcactctgcttccttcccttttgtcccttctcca----tcctcccccaactcctcctgacttgatattcctcccaccgtctcttctgttccag Rattus_norvegicus gtgagtgcttggccccagagccagctgcctgccaagttcccttcctcctctccctcccctcccctccccagtctggcttctattct-tccctcactctgttcccttcccttctgtcccttccccg----tcctcccccaactcctcctggctccatattcctctcaccgtctcttctcttccag Glis_glis ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ; END; BEGIN CHARACTERS; TITLE Wls; LINK TAXA = Taxa; DIMENSIONS NCHAR=351; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Apodemus_flavicollis gtgagcagataccagagttactccaggatgaaatgtgcctttctatatctatttctatctttctaggaagaat-tttgaaat-aagcatgatggttggggatccatggga------tactggagaggtcaaaatcctcaaatgaagtctgg-----tttcgaaggcttagacctttatatatgaaaagtgcttggcctcttatattcta-aagctctgcatccccttaactctctgaag---tttattttctcagtatagtacaccccctaccagttgcaagagaagctctgttctgtctttgtgttat-----------ctcttcatcttgtttggttttgtttttatag Atherurus_macrourus gtgagcaggtgcccgtaggactcMgaaccgagaggtg-accaccgtgtccacacctgcctcttccgcggggggatttgagRaggacaacagt-gttgggggcctttgagatgaaagcactgggtgtgatcctgccctcaaRccaggcctgggacttggccaagtgtccagcccttcagagtcacaaaaYcctcYggcgactttgctctctgag---tgtctctcgctagttccctgtgatgcctcatggtctgaacacagctcct-ctctcccagccgggagcgaagtccctctttgccttagcagtgatcctaccccatctctccttctcatttctttttgtttttgcag Cynomys_ludovicianus gtgagtaggtacctgtgggactc--agctgaa-tgtgcatccctgtgaacacttcca--tctttaggaggagtgtttgaaagggagaagggtggtgaggagcctctggggtgaaagcattgtacatattcatatccccagagaaagactgggactagagccagggactaagtctttagagttacaaaatgtttgcgctgatatattctgctagat-tgtttcactttagctctctatgaggtttctaagtctgaattcagctccttcccttccagctgcaaaaagagttccgccttgcctttgtattaat--tgtcttgcctttccacctcgttttttttttgttttgtag Hydrochoerus_hydrochaeris gtgagccagtgccccggggcctc-aacacagagggtg----acgccgccgccccccatctcttatgcggggcgatttgagaa-------ggtggttgggagcctttgagatgcagtcactcggtgtgatcacgtcctcaggtccggactgggcttcagtccaatgcacagccctttagaggtgcaaagcttctgggccagcgcactctccgagccttgttccactgcggttctctg----------tggcctggtcacagttcttcttccccaagctggaagcaaagtcctgctctgcctcagcagcaggcgcaccccagctccccccggttctttccccctgtctcctag Microtus_duodecimcostatus gtaagcagatattgaagtcactccaagatgaaatgtgacattccttgtctacttccatctttctagaaggagt-ttttaaatgaagaatggtggttggttgtccatgggattaaa-tattggagaggtc-atatgctcagatgaagtctgtgacaaaaccaaaggcttatccctatatacattcaaagtgctttgga---tatattctc-aagctctatatccccttaactctctgagg---tttattttctaaatatggtacaccccctaccagcttcaagaaaagctctgctctgcacgtgtatttca----------ttttccatcttgtttgtttttgtttttatag Microtus_lusitanicus gtaagcagatattgaagtcactccaagatgaaatgtgRcattccttgtctacttccatctttctagaaggagt-ttttaaatgaagaatggtggttggttgtccatgggattaaa-tattggagaggtc-atatgctcagatgaagtctgtgacaaaaccaaaggcttatccctatatacattcaaagtgctttgga---tatattctc-aagctctatatccccttaactctctgagg---tttattttctaaatatggtacaccccctaccagcttcaagaaaagctctgctctgcacctgtatttca----------ttttccatcttgtttgtttttgtttttatag Myocastor_coypus --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Octodontomys_gliroides gtgagcaggtgccat-gggactc-agcccagaaggtg-actactgcctccct-ttcaggcaatctg-aggggactttgtgaaggagagtggcaattgggagctttgaag-tgaaaatgctaggtgtgatcacgtcctcagatccagactgggcctacagcaaatgcataaccctttcaagtggcagaacttgtgggcagttgtgctccccaagctctgcttcactgtagttctctgtgaggctttgtggtctggacacagctcctcctcccccagctgggagtgcagtcctgctttgccttagcggtgattacagcccaccgttccctc----tacgctttgtctttgcag Proechimys_guairae gtgagcaggtgccgt-gggactc-agcccggaaggtg-gctaccacctccct-tgcagtccatctgtagggggctttgtgaaggagggcggcagtcgggagccttggggctaaaaaggctgagtgcgatcccatcctcagatccagactgggcttcagtcaa---catagccctttcgagttgcaaaggttgtgggcaatggtgcttcctgagctctgcctcaccgtggttc-ccgtgatgctttgcggtgcggacacagctcctcctcgccctgctggaagtgaagccctgctttgccgaggcagtaactacagcccacctttccctc----tgtcttttgtcttcgtag Sciurus_vulgaris gtgagcaggtgcccgtgggactctgagctaaa-ggtgcatccctgtgcccacccccatctctttaggaggagtgtttgaaagggagaagggtggttgggagcgcctgggWtgaaagcatggaacatgttcatatccccagataaagactgggactagagccaaggactagccctttagagttacaaaatgtttgggctgatatattctgccatctctgttttactttagctctctatgaggtttctgagtctgaattcagctcctatccttccagctgcaaagaaagttccaccttgcctttgcattaat--tgtctttcctttccacctcgatttttttttgttttgtag Homo_sapiens gtgagcaagtgtttgtgggacactgagccaaactgtgcatcaccacgcccactcctgtcattttaggaggagtgtttgaaaaggagaatggtggtcgggaacctttggtttggaagcactggacgtggtcacatcctcagacaaggtctgggatcaaatcaaaggcacagctctttacagttgaaaaatatttgggccgatgtattctacaagcttcatttctctttagatttctgtaatgttttttagcctaaatacagccctcacccctgcagctgaaaaggaaagttcccgttgcctttgtattaattgtgtcttgcctttccatctcattttct-------ttgtag Cavia_porcellus gtgagcaggtgcccc-aggcctc-agcacaaaaggtg-----catgacctcccccaatctcttccaagggtcagtttgagaa-------ggtggttgggagcctttagga---agtcactgggtgtggtcatgtcttcaggtccagactgggcttcagtccaatgcatagccccttagagttgcaaaacttctgggccatcaagctctctccagcttgtttcactgtggttctctgtgatgctgc-tggtcagggcacagctcctcctcccccagctagagacaaagtcctgcttcgccttagcagcagttacaccccggctttccctcttggttctttttttctctgtag Mus_musculus gtgagcagatatcagcatcactccaggatgaaatgtacctttctatgtctacttctatctttctaggaagaat-tttgaaatgaagcatggtggttggggattcatgggatggaa-tattggagaggtcaatatccacagatgacatatgggactaagtcaaaggtttagtcctttatatatgcaaagtgcttg------catattcta-aagctctgcatctccttaactctctgaag---tttattttctaaatatagtacacctcctcccagttgcaagagaggctctgttctgcctttgtgttat-----------ctcttcatcttgtttggttttgtttttatag Rattus_norvegicus gtgagcaggtaccggagtcattccaggatgaaatgtgcctttctatgtctacttctatctttctaggaagaat-tttaaaatgaagcatggtggttggggatccatgggatggaa-tattggagaggtcaacatcttcagatgaag-ctggtactaagtcaaaggtttagtcctttatacatgcaaagcacttggcctcttatatttta-aagttctgcatc-ccttaactctgtaaag---tttattttctaaataaagtataccccctaccagttgcaagagaagctctgttccgcctttgtgttat-----------ctcttcatcttgtttgtttttgtttttatag Glis_glis gtgagcaggtgcctatggaactctgagctggaatgtgcatctctgtgccctcccccatctctttaggaggagcatttgaacaggagaatggtggtcgggaacctctgggatgaaagcactggacatggtcatgtccttagataaagactgagactgagtc--agacttggctctttatagttgcaaaacgtttgggctgatatattctacaagttctgtttccctttagttctctgtgaggtttcttagtctagacatagctcctacccctccggctgcaa---aagttcgacttcgcctttgcattaatcttgtcttgcttttccatctcattttttttttgttttgtag ; END; BEGIN TREES; TRANSLATE 15 Apodemus_flavicollis, 10 Atherurus_macrourus, 11 Cynomys_ludovicianus, 6 Hydrochoerus_hydrochaeris, 3 Microtus_duodecimcostatus, 4 Microtus_lusitanicus, 8 Myocastor_coypus, 7 Octodontomys_gliroides, 9 Proechimys_guairae, 12 Sciurus_vulgaris, 14 Homo_sapiens, 5 Cavia_porcellus, 1 Mus_musculus, 2 Rattus_norvegicus, 13 Glis_glis; TREE ML_tree = (1:0.06230476374327054,(2:0.07466583437967374,((3:0.004141489374198092,4:0.0019748036257308437):0.1300202639475855,((((5:0.0812077786697827,6:0.07965165492900428):0.10195454718325286,(7:0.08580081086725444,(8:0.040975717559125935,9:0.07188384398502515):0.03512155076185746):0.07981752179186453):0.05219241177440686,10:0.12926161935724226):0.14273269197209945,(((11:0.09987885170898404,12:0.06824762294632958):0.11279938797108675,13:0.1677470689528188):0.025414876797533865,14:0.24981171573954428):0.023714295781830083):0.3111543130133171):0.07718891403451811):0.008556341054506663,15:0.09478974894403921); END; BEGIN TREES; TRANSLATE 1 Cynomys_ludovicianus, 2 Sciurus_vulgaris, 3 Glis_glis, 4 Atherurus_macrourus, 5 Hydrochoerus_hydrochaeris, 6 Cavia_porcellus, 7 Myocastor_coypus, 8 Proechimys_guairae, 9 Octodontomys_gliroides, 10 Apodemus_flavicollis, 11 Mus_musculus, 12 Rattus_norvegicus, 13 Microtus_lusitanicus, 14 Microtus_duodecimcostatus, 15 Homo_sapiens; TREE Bayesian_tree = (((((1:0.07228179051035899,2:0.07228179051035899):0.1664775418835177,3:0.2387593323938767):0.04443488461941819,(4:0.1632104022196664,((5:0.0670917059741975,6:0.0670917059741975):0.06573849963691078,((7:0.045991371191924535,8:0.045991371191924535):0.030610004856238382,9:0.07660137604816292):0.056228829562945365):0.03038019660855812):0.11998381479362849):0.018984700811114974,(((10:0.06058907962788146,11:0.06058907962788146):0.007169415627679088,12:0.06775849525556055):0.061520501335640077,(13:0.002777332796328802,14:0.002777332796328802):0.12650166379487182):0.17289992123320924):0.004293545727284465,15:0.30647246355169433); END;