Boostrap values above 70% are indicated. This phylogenetic tree is based on the alignment indicated below. We obtained exactly the same topology when considering separately synonymous sites (Ks) and non-synonymous sites (Ka). CLUSTAL W(1.60) multiple sequence alignment Homo_sapiens ATGCATTGGGGAACCCTGTGCGGATTCTTGTGGCTTTGGCCCTATCTTTTCTATGTCCAA Pongo_pygmaeus ------------------------------------------------------------ Gorilla_gorill ------------------------------------------------------------ Pan_troglodyte ------------------------------------------------------------ Macaca_mulatta ATGTATTGGAGAACCCTGTGGGGATTCTTGTGGCTTTGGCCCTATCTGTTCTACATCCAA Canis_familiar ------------------------------------------------------------ Sus_scrofa ATGCGCTGTGGACCCCTGTGCCGATTCCTGTGGCTTTGGCCCTATCTGTCCTACGTTGAA Bos_taurus.1 ATGCGCTGTGGACCCCTGTATCGATTCCTGTGGCTTTGGCCCTATCTGTCTTACGTGGAG Bos_taurus.2 ------------------------------------------------------------ Ovis_aries.1 ------------------------------------------------------------ Ovis_aries.2 ------------------------------------------------------------ Rattus_norvegi ATGTGCTGGAGACCCCTGTGCCGGTTCCTGTGGCTTTGGTCCTATCTGTCCTATGTTCAA Rattus_sp ATGTGCTGGAGACCCCTGTGCCGGTTCCTGTGGCTTTGGTCCTATCTGTCCTATGTTCAA Mus_musculus1 ATGTGCTGGAGACCCCTGTGTCGGTTCCTGTGGCTTTGGTCCTATCTGTCTTATGTTCAA Mus_musculus2 ATGTGCTGGAGACCCCTGTGTCGGTTCCTGTGGCTTTGGTCCTATCTGTCTTATGTTCAA AF082500.chick ATGTGCTGGAGACCCCTGTGTCGA---------CTTTGGTCATACCTTGTTTATGTTCAA AF012727.chick ATGTGCTGGAGACCCCTGTGTCGA---------CTTTGGTCATACCTTGTTTATGTTCAA AF082501.turke ------------------------------------------------------------ Homo_sapiens GCTGTGCCCATCCAAAAAGTCCAAGATGACACCAAAACCCTCATCAAGACAATTGTCACC Pongo_pygmaeus ---GTGCCCATCCAAAAAGTCCAAGATGACACCAAAACCCTCATCAAGACAGTTATCACC Gorilla_gorill ---GTGCCCATCCAAAAAGTCCAAGATGACACCAAAACCCTCATCAAGACAATTGTCACC Pan_troglodyte ---GTGCCCATCCAAAAAGTCCAGGATGACACCAAAACCCTCATCAAGACAATTGTCACC Macaca_mulatta GCTGTGCCCATCCAAAAAGTCCAAAGTGACACCAAAACCCTCATCAAGACAATTGTCACC Canis_familiar ---GTGCCAATCCGAAAAGTCCAGGATGACACCAAAACCCTCATCAAGACGATTGTCGCC Sus_scrofa GCCGTGCCCATCTGGAGAGTCCAGGATGACACCAAAACCCTCATCAAGACGATTGTCACC Bos_taurus.1 GCTGTGCCCATCCGCAAGGTCCAGGATGACACCAAAACCCTCATCAAGACAATTGTCACC Bos_taurus.2 ---GTGCCTATCCAGAAAGTCCAGGATGACACCAAAACCCTCATCAAGACAATTGTCACC Ovis_aries.1 ---GTGCCCATCCGCAAGGTCCAGGATGACACCAAAACCCTCATCAAGACGATTGTCACC Ovis_aries.2 ---------------------------GACACCAAAACCCTCATCAAGACGATTGTCACC Rattus_norvegi GCTGTGCCTATCCACAAAGTCCAGGATGACACCAAAACCCTCATCAAGACCATTGTCACC Rattus_sp GCTGTGCCTATCCACAAAGTCCAGGATGACACCAAAACCCTCATCAAGACCATTGTCACC Mus_musculus1 GCAGTGCCTATCCAGAAAGTCCAGGATGACACCAAAACCCTCATCAAGACCATTGTCACC Mus_musculus2 GCAGTGCCTATCCAGAAAGTCCAGGATGACACCAAAACCCTCATCAAGACCATTGTCACC AF082500.chick GCAGTGCCGTGCCAGATCTTCCAGGATGACACCAAAACCCTCATCAAGACCATTGTCACC AF012727.chick GCAGTGCCGTGCCAGATCTTCCAGGATGACACCAAAACCCTCATCAAGACCATTGTCACC AF082501.turke ---GTGCCGTGTCAGATCTTCCAGGATGACACCAAAACCCTCATCAAGACCATTGTCACC *********************** ** ** ** Homo_sapiens AGGATCAATGACATTTCACACACGCAGTCAGTCTCCTCCAAACAGAAAGTCACCGGTTTG Pongo_pygmaeus AGGATCAATGACATTTCACACACGCAGTCAGTCTCCTCCAAACAGAAGGTCACCGGTTTG Gorilla_gorill AGGATCAGTGACATTTCACACACGCAGTCAGTCTCCTCCAAACAGAAGGTCACCGGTTTG Pan_troglodyte AGGATCAATGACATTTCACACACGCAGTCAGTCTCCTCCAAACAGAAGGTCACCGGTTTG Macaca_mulatta AGGATCAATGACATTTCACACACGCAGTCGGTCTCCTCCAAACAGAGGGTCACTGGTTTG Canis_familiar AGGATCAATGACATTTCACACACGCAGTCTGTCTCCTCCAAACAGAGGGTCGCTGGTCTG Sus_scrofa AGGATCAGTGACATTTCACACATGCAGTCTGTCTCCTCCAAACAGAGGGTCACCGGTTTG Bos_taurus.1 AGGATCAATGACATCTCACACACGCAGTCCGTCTCCTCCAAACAGAGGGTCACTGGTTTG Bos_taurus.2 AGGATCAATGACATCTCACACACGCAGTCCGTCTCCTCCAAACAGAGGGTCACTGGTTTG Ovis_aries.1 AGGATCAATGACATCTCACACACGCAGTCCGTCTCCTCCAAACAGAGGGTCACTGGTTTG Ovis_aries.2 AGGATCAATGACATCTCACACACGCAGTCCGTCTCCTCCAAACAGAGGGTCACTGGCTTG Rattus_norvegi AGGATCAATGACATTTCACACACGCAGTCGGTATCCGCCAGGCAGAGGGTCACCGGTTTG Rattus_sp AGGATCAATGACATTTCACACACGCAGTCGGTATCCGCCAGGCAGAGGGTCACCGGTTTG Mus_musculus1 AGGATCAATGACATTTCACACACGCAGTCGGTATCCGCCAAGCAGAGGGTCACTGGCTTG Mus_musculus2 AGGATCAATGACATTTCACACACGCAGTCGGTATCCGCCAAGCAGAGGGTCACTGGCTTG AF082500.chick AGGATCAATGACATTTCACACACG---TCGGTATCCGCCAAGCAGAGGGTCACTGGCTTG AF012727.chick AGGATCAATGACATTTCACACACG---TCGGTATCCGCCAAGCAGAGGGTCACTGGCTTG AF082501.turke AGGATCAATGACATTTCACACACG---TCGGTATCCGCCAAGCAGAGTGTCACTGGCTTG ******* ****** ******* * ** ** *** *** **** *** * ** ** Homo_sapiens GACTTCATTCCTGGGCTCCACCCCATCCTGACCTTATCCAAGATGGACCAGACACTGGCA Pongo_pygmaeus GACTTCATTCCTGGGCTCCACCCCATCCTGACCTTATCCAAGATGGACCAGACACTGGCA Gorilla_gorill GACTTCATTCCTGGGCTCCACCCCATCCTGACCTTATCCAAGATGGACCAGACACTGGCA Pan_troglodyte GACTTCATTCCTGGGCTCCACCCTATCCTGACCTTATCCAAGATGGACCAGACACTGGCA Macaca_mulatta GACTTCATTCCTGGGCTCCACCCCGTCCTGACCTTATCCCAGATGGACCAGACACTGGCA Canis_familiar GACTTCATTCCTGGGCTCCAACCAGTCCTGAGTTTGTCCAGGATGGACCAGACGTTGGCC Sus_scrofa GACTTCATCCCTGGGCTCCATCCTGTCCTGAGTTTGTCCAAGATGGACCAGACCCTGGCG Bos_taurus.1 GACTTCATCCCTGGGCTCCACCCTCTCCTGAGTTTGTCCAAGATGGACCAGACATTGGCG Bos_taurus.2 GACTTCATCCCTGGGCTCCACCCTCTCCTGAGTTTGTCCAAGATGGACCAGACATTGGCG Ovis_aries.1 GACTTCATCCCTGGGCTCCACCCTCTCCTGAGTTTGTCCAAGATGGACCAGACATTGGCA Ovis_aries.2 GACTTCATCCCTGGGCTCCACCCTCTCCTGAGTTTGTCCAAGATGGACCAGACATTGGCA Rattus_norvegi GACTTCATTCCCGGGCTTCACCCCATTCTGAGTTTGTCCAAGATGGACCAGACCCTGGCA Rattus_sp GACTTCATTCCCGGGCTTCACCCCATTCTGAGTTTGTCCAAGATGGACCAGACCCTGGCA Mus_musculus1 GACTTCATTCCTGGGCTTCACCCCATTCTGAGTTTGTCCAAGATGGACCAGACTCTGGCA Mus_musculus2 GACTTCATTCCTGGGCTTCACCCCATTCTGAGTTTGTCCAAGATGGACCAGACTCTGGCA AF082500.chick GACTTCATTCCTGGGCTTCACCCCATTCTGAGTTTGTCCAAGATGGACCAGACTCTGGCA AF012727.chick GACTTCATTCCTGGGCTTCACCCCATTCTGAGTTTGTCCAAGATGGACCAGACTCTGGCA AF082501.turke GACTTCATTCCTGGGCTTCACCCCATTCTGAGTTTGTCCAAGATGGACCAGACTCTGGCA ******** ** ***** ** ** * **** ** *** ************ **** Homo_sapiens GTCTACCAACAGATCCTCACCAGTATGCCTTCCAGAAACGTGATCCAAATATCCAACGAC Pongo_pygmaeus GTCTACCAACAGATCCTCACCAGTATGCCTTCCAGAAACGTGATCCAAATATCCAACGAC Gorilla_gorill GTCTACCAACAGATCCTCACCAGTATGCCTTCCAGAAACATGATCCAAATATCCAACGAC Pan_troglodyte GTCTACCAACAGATCCTCACCAGTATGCCTTCCAGAAACATGATCCAAATATCCAACGAC Macaca_mulatta ATCTACCAACAGATCCTCATCAATCTGCCTTCCAGAAACGTGATCCAAATATCCAACGAC Canis_familiar ATCTACCAACAGATCCTCAACAGTCTGCATTCCAGAAATGTGGTCCAAATATCTAATGAC Sus_scrofa ATCTACCAACAGATCCTCACCAGTCTGCCTTCCAGAAATGTGATCCAAATATCGAATGAC Bos_taurus.1 ATCTACCAACAGATCCTCACCAGTCTGCCTTCCAGAAATGTGGTCCAAATATCCAATGAC Bos_taurus.2 ATCTACCAACAGATCCTCACCAGTCTGCCTTCCAGAAATGTGGTCCAAATATCCAATGAC Ovis_aries.1 ATCTACCAACAGATCCTCGCCAGTCTGCCTTCCAGAAATGTGATCCAAATATCTAATGAC Ovis_aries.2 ATCTACCAACAGATCCACGCCAGTCTGCCTTCCAGAAATGTGATCCAAATATCTAATGAC Rattus_norvegi GTCTATCAACAGATCCTCACCAGCTTGCCTTCCCAAAACGTGCTGCAGATAGCTCATGAC Rattus_sp GTCTATCAACAGATCCTCACCAGCTTGCCTTCCCAAAACGTGCTGCAGATAGCTCATGAC Mus_musculus1 GTCTATCAACAGGTCCTCACCAGCCTGCCTTCCCAAAATGTGCTGCAGATAGCCAATGAC Mus_musculus2 GTCTATCAACAGGTCCTCACCAGCCTGCCTTCCCAAAATGTGCTGCAGATAGCCAATGAC AF082500.chick GTCTATCAACAGGTCCTCACCAGCCTGCCTTCCCAAAATGTGCTGCAGATAGCCAATGAC AF012727.chick GTCTATCAACAGGTCCTCACCAGCCTGCCTTCCCAAAATGTGCTGCAGATAGCCAATGAC AF082501.turke GTCTATCAACAGGTCCTCACCAGCCTGCCTTCCCAAAATGTGCTGCAGATAGCCAATGAC **** ****** *** * ** *** **** *** ** * ** *** * * *** Homo_sapiens CTGGAGAACCTCCGGGATCTTCTTCACGTGCTGGCCTTCTCTAAGAGCTGCCACTTGCCC Pongo_pygmaeus CTGGAGAACCTCCGGGACCTTCTTCACGTGCTGGCCTTCTCTAAGAGCTGCCACTTGCCC Gorilla_gorill CTGGAGAACCTCCGGGACCTTCTTCACGTGCTGGCCTTCTCTAAGAGCTGCCACTTGCCC Pan_troglodyte CTGGAGAACCTCCGGGACCTTCTTCACGTGCTGGCCTTCTCTAAGAGCTGCCACTTGCCC Macaca_mulatta TTGGAGAATCTCCGGGACCTTCTTCACCTGCTGGCCTTCTCTAAGAGCTGCCATTTGCCC Canis_familiar CTGGAGAACCTCCGGGACCTTCTCCACCTGCTGGCCTCCTCCAAGAGCTGCCCCTTGCCC Sus_scrofa CTGGAGAACCTCCGGGACCTTCTCCACCTGCTGGCCTCCTCCAAGAGCTGCCCCTTGCCC Bos_taurus.1 CTGGAGAACCTCCGGGACCTTCTCCACCTGCTGGCCGCCTCCAAGAGCTGCCCCTTGCCG Bos_taurus.2 CTGGAGAACCTCCGGGACCTTCTCCACCTGCTGGCCGCCTCCAAGAGCTGCCCCTTGCCG Ovis_aries.1 CTGGAGAACCTCCGGGACCTTCTCCACCTGCTGGCCGCCTCCAAGAGCTGCCCCTTGCCG Ovis_aries.2 CTGGAGAACCTCCGGGACCTTCTCCACCTGCTGGCGGGCTCCAAGAGCTGCCCCTTGCCG Rattus_norvegi CTGGAGAACCTGCGAGACCTCCTCCATCTGCTGGCCTTCTCCAAGAGCTGCTCCCTGCCG Rattus_sp CTGGAGAACCTCCGAGACCTCCTCCATCTGCTGGCCTTCTCCAAGAGCTGCTCCCTGCCG Mus_musculus1 CTGGAGAATCTCCGAGACCTCCTCCATCTGCTGGCCTTCTCCAAGAGCTGCTCCCTGCCT Mus_musculus2 CTGGAGAATCTCCGAGACCTCCTCCATCTGCTGGCCTTCTCCAAGAGCTGCTCCCTGCCT AF082500.chick CTGGAGAATCTCCGAGACCTCCTCCATCTGCTGGCCTTCTCCAAGAGCTGCTCCCTGCCT AF012727.chick CTGGAGAATCTCCGAGACCTCCTCCATCTGCTGGCCTTCTCCAAGAGCTGCTCTCTGCCT AF082501.turke CTGGAGAATCTCCGAGACCTCCTCCATCTGCTGGCCTTCTCCAAGAGCTGCTCCCTGCCT ******* ** ** ** ** ** ** ******* *** ********* **** Homo_sapiens TGGGCCAGTGGCCTGGAGACCTTGGACAGCCTGGGGGGTGTCCTGGAAGCTTCAGGCTAC Pongo_pygmaeus TGGGCCAGTGGCCTGGAGACCTTGGACAGGCTGGGGGGTGTCCTGGAAGCTTCAGGCTAC Gorilla_gorill TGGGCCAGTGGCCTGGAGACCTTGGACAGCCTGGGGGGTGTCCTGGAAGCTTCAGGCTAC Pan_troglodyte TGGGCCAGTGGCCTGGAGACCTTGGACAGCCTGGGGGGTGTCCTGGAAGCTTCAGGCTAC Macaca_mulatta TTGGCCAGTGGCCTGGAGACCTTGGAGAGCCTGGGGGATGTCCTGGAAGCTTCACTCTAC Canis_familiar CGGGCCAGGGGCCTGGAGACCTTTGAGAGCCTGGGCGGCGTCCTGGAAGCCTCACTCTAC Sus_scrofa CAGGCCAGGGCCCTGGAGACCTTGGAGAGCCTGGGCGGCGTCCTGGAAGCCTCCCTCTAC Bos_taurus.1 CAGGTCAGGGCCCTGGAGAGCTTGGAGAGCTTGGGCGTTGTCCTGGAAGCTTCCCTCTAC Bos_taurus.2 CAGGTCAGGGCCCTGGAGAGCTTGGAGAGCTTGGGTGTCGTCCTGGAAGCCTCCCTCTAC Ovis_aries.1 CAGGTCAGGGCCCTGGAGAGCTTGGAGAGCCTGGGCGTCGTCCTGGAAGCCTCCCTCTAC Ovis_aries.2 CAGGTCAGGGCCCTGGAGAGCTTGGAGAGCCTGGGCGTCGTCCTGGAAGCCTCCCTCTAC Rattus_norvegi CAGACCCGTGGCCTGCAGAAGCCAGAGAGCCTGGATGGCGTCCTGGAAGCCTCGCTCTAC Rattus_sp CAGACCCGTGGCCTGCAGAAGCCAGAGAGCCTGGATGGCGTCCTGGAAGCCTCCCTCTAC Mus_musculus1 CAGACCAGTGGCCTGCAGAAGCCAGAGAGCCTGGATGGCGTCCTGGAAGCCTCACTCTAC Mus_musculus2 CAGACCAGTGGCCTGCAGAAGCCAGAGAGCCTGGATGGCGTCCTGGAAGCCTCACTCTAC AF082500.chick CAGACCAGTGGCCTGCAGAAGCCAGAGAGCCTGGATGGCGTCCTGGAAGCCTCACTCTAC AF012727.chick CAGACCAGTGGCCTGCAGAAGCCAGAGAGCCTGGATGGCGTCCTGGAAGCCTCACTCTAC AF082501.turke CAGACCAGTGGCCTGCACAAGCCAGAGAGCCTGGATGGCGTCCTGGAAGCCTTACTCTAC * * * * **** * * ** ** *** * *********** * **** Homo_sapiens TCCACAGAGGTGGTGGCCCTGAGCAGGCTGCAGGGGTCTCTGCAGGACATGCTGTGGCAG Pongo_pygmaeus TCCACAGAGGTGGTGGCCCTTAGCAGGCTGCAGCGGTCTCTGCAGGACATGCTGTGGCAG Gorilla_gorill TCCACAGAGGTGGTGGCCCTGAGCAGGCTGCAGGGGTCTCTGCAGGACATGCTGTGGCAG Pan_troglodyte TCCACAGAGGTGGTGGCCCTGAGCAGGCTGCAGGGGTCTCTGCAGGACATGCTGTGGCAG Macaca_mulatta TCCACGGAGGTGGTGGCCCTGAGCAGGCTGCAGGGGTCTCTGCAGGACATGCTGTGGCAG Canis_familiar TCCACAGAGGTGGTGGCTCTGAGCAGACTGCAGGCGGCCCTCCAGGACATGCTTCGGCGG Sus_scrofa TCCACGGAGGTGGTGGCCCTGAGCAGGCTGCAGGGGGCTCTGCAGGACATGCTGCGGCAG Bos_taurus.1 TCCACCGAGGTGGTGGCCCTGAGCCGGCTGCAGGGGTCACTACAGGACATGTTGCGGCAG Bos_taurus.2 TCCACCGAGGTGGTGGCCCTGAGCCGGCTGCAGGGGTCACTACAGGACATGTTGCGGCAG Ovis_aries.1 TCCACCGAGGTGGTGGCCCTGAGCCGGCTACAGGGGTCTCTACAGGACATGTTGCGGCAG Ovis_aries.2 TCCACAGAGGTTTTA--------------------------------------------- Rattus_norvegi TCCACAGAGGTGGTGGCTCTGAGCAGGCTGCAGGGCTCTCTGCAGGACATTCTTCAACAG Rattus_sp TCCACAGAGGTGGTGGCTCTGAGCAGGCTGCAGGGCTCTCTGCAGGACATTCTTCAACAG Mus_musculus1 TCCACAGAGGTGGTGGCTTTGAGCAGGCTGCAGGGCTCTCTGCAGGACATTCTTCAACAG Mus_musculus2 TCCACAGAGGTGGTGGCTTTGAGCAGGCTGCAGGGCTCTCTGCAGGACATTCTTCAACAG AF082500.chick TCCACAGAGGTGGTGGCTTTGAGCAGGCTGCAGGGCTCTCTGCAGGACATTCTTCAACAG AF012727.chick TCCACAGAGGTGGTGGCTTTGAGCAGGCTGCAGGGCTCTCTGCAGGACATTCTTCAACAG AF082501.turke TCCACAGAGGTGGTGGCTTTGAGCAGGCTGCAAGGCTCTCTGCAGGACATTCTTCAACAG ***** ***** * Homo_sapiens CTGGACCTCAGCCCTGGGTGCTGA Pongo_pygmaeus CTGGACCTCAGCCCTGGGTGCTGA Gorilla_gorill CTGGACCTCAGCCCTGGGTGCTGA Pan_troglodyte CTGGACCTCAGCCCTGGGTGCTGA Macaca_mulatta CTGGACCTCAGCCCTGGGTGCTGA Canis_familiar CTGGACCTCAGCCCTGGGTGCTGA Sus_scrofa CTGGACCTCAGCCCTGGCTGCTGA Bos_taurus.1 CTGGACCTCAGTCCCGGGTGCTGA Bos_taurus.2 CTGGACCTCAGCCCTGAATGC--- Ovis_aries.1 CTGGACCTCAGTCCCGGGTGCTGA Ovis_aries.2 ------------------------ Rattus_norvegi TTGGACCTTAGCCCTGAATGCTGA Rattus_sp TTGGACCTTAGCCCTGAATGC--- Mus_musculus1 TTGGATGTTAGCCCTGAATGCTGA Mus_musculus2 TTGGATGTTAGCCCTGAATGCTGA AF082500.chick TTGGATATTAGCCCGGAATGCTGA AF012727.chick TTGGATATTAGCCCGGAATGCTGA AF082501.turke TTGGATATTAGCCCGGAATGCTGA
Laurent Duret
Laboratoire de Biométrie, Génétique et Biologie des Populations.
UMR CNRS 5558
Université Claude Bernard - Lyon 1
43, bd. du 11 Novembre 1918
69622 Villeurbanne Cedex
France
Tel: +33 (0) 4 72 44 62 97
Fax: +33 (0) 4 78 89 27 19
E-mail:duret@biomserv.univ-lyon1.fr
October 9, 1998
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