Multiple Alignment with all H3 nucleic sequences
This aligment has been done with muscle3.8.1 (linux 64 Bits)MUSCLE (3.8) multiple sequence alignment H3.Cen|ClusterV|27|362 -----------------------------------------------CGATTGTCT---- H3.t3|ClusterXVII|1|411 -------------------------------------------------ATGGCACGAAC H3.3|ClusterXVIII|24|434 --------------------------CAGACTGAATAAATTTTGAGGAAATGGCACGAAC H3.t1|ClusterXIII|1|411 -------------------------------------------------ATGGCCCGAAC H3.t2|ClusterIX|1|411 -------------------------------------------------ATGGCCCGAAC H3.3|ClusterXIV|50|460 CAAGAACTCATTTTTTGAATTTCCAGTTACTGTATTCAAGTAAGACAATATGGCCCGAAC H3.2|ClusterII|1|411 -------------------------------------------------ATGGCCCGAAC H3.sh|ClusterVIII|1|297 -------------------------------------------------ATGGCTCGAAC H3.2|ClusterIII|1|411 -------------------------------------------------ATGGCCCGAAC H3.2|ClusterVII|1|411 -------------------------------------------------ATGGCTCGAAC ** * H3.Cen|ClusterV|27|362 ------AACAGATTGAAATCCAAATGGTGCGCAGAAAAACACCGCCAAAA---------- H3.t3|ClusterXVII|1|411 GAAGCAAACAGCACGAAAGTCAACCGGAG----GAAAAGCTCCTCGCAAGCAGTTGGCGA H3.3|ClusterXVIII|24|434 AAAGCAAACCGCCCGTAAGTCAACTGGAG----GAAAAGCTCCTCGAAAACAGCTAGCCA H3.t1|ClusterXIII|1|411 TAAGCAGACCGCCCGCAAGTCCACCGGAG----GAAAGGCTCCCCGCAAGCAGCTCGCTA H3.t2|ClusterIX|1|411 CAAACAGACCGCCCGCAAGTCCACTGGAG----GAAAAGCTCCCCGAAAGCAGCTCGCCA H3.3|ClusterXIV|50|460 AAAACAAACGGCGCGTAAATCAACGGGAG----GAAAAGCTCCTCGAAAGCAGCTTGCGA H3.2|ClusterII|1|411 CAAGCAAACCGCTCGCAAGTCAACAGGAG----GTAAAGCTCCACGAAAGCAGCTGGCCA H3.sh|ClusterVIII|1|297 CAAGCAAACCGCGCGCAAGTCCACCGGAG----GTAAAGCTCCACGAAAGCAGCTCGCCA H3.2|ClusterIII|1|411 TAAGCAAACCGCTCGTAAGTCGACTGGAG----GAAAAGCTCCACGAAAGCAGCTTGCCA H3.2|ClusterVII|1|411 AAAACAAACCGCTCGAAAGTCGACCGGAG----GCAAGGCCCCACGAAAGCAGCTTGCGA ** * * ** * * ** * * ** * ** * ** H3.Cen|ClusterV|27|362 -----------------------------------------AAAAAGAAAGAACGATG-- H3.t3|ClusterXVII|1|411 CGAAGGCCGCTCGCAAGTCGGCTCCCACCATCGGCGGAATTAAGAAGCCTCATCGCTACC H3.3|ClusterXVIII|24|434 CGAAGGCTGCCCGAAAATCTGCTCCCTCCACTGGAGGTGTCAAGAAGCCCCACCGATACC H3.t1|ClusterXIII|1|411 CCAAGGCCGCTCGCAAGTCCGCCCCTGCCACCGGAGGAATCAAGAAGCCCCACCGATACC H3.t2|ClusterIX|1|411 CCAAGGCCGCTCGCAAATCGGCGCCAGCCACTGGAGGTGTCAAGAAGCCCCACCGATTCC H3.3|ClusterXIV|50|460 CCAAGGCTGCTCGCAAGTCGGCTCCGTCCACCGGAGGTGTCAAGAAGCCTCACCGATACC H3.2|ClusterII|1|411 CCAAAGCTGCTCGAAAGTCTGCCCCAGCAACTGGAGGAGTCAAGAAGCCCCACCGATACC H3.sh|ClusterVIII|1|297 CCAAGGCAGCTCGAAAGTCTGCCCCAGCAACTGGAGGAGTAAAGAAGCCCCACCGGTACC H3.2|ClusterIII|1|411 CCAAGGCCGCCCGAAAATCGGCTCCAGCCACCGGAGGCGTCAAGAAGCCACACCGATACC H3.2|ClusterVII|1|411 CCAAGGCCGCCCGAAAATCGGCACCAGCCACCGGAGGCGTCAAGAAGCCACACCGATACC ** *** * ** * H3.Cen|ClusterV|27|362 ----------------TATTGAGGAAATAAGAAGGTACCAAAAAAGTACCGAATTGCTCA H3.t3|ClusterXVII|1|411 GACCTGGCACCGTCGCTCTTCGTGAGATTCGACGTTACCAGAAATCCACTGAGCTTCTTC H3.3|ClusterXVIII|24|434 GACCAGGTACCGTTGCTCTTCGAGAGATTCGTCGCTACCAGAAATCGACTGAACTTCTCA H3.t1|ClusterXIII|1|411 GACCCGGCACCGTCGCTCTCCGTGAGATCCGACGCTACCAGAAGTCTACTGAGCTTCTCA H3.t2|ClusterIX|1|411 GACCCGGCACCGTCGCTCTCCGAGAGATCCGACGATACCAGAAGTCAACCGAGCTTCTTA H3.3|ClusterXIV|50|460 GACCAGGAACCGTCGCTCTGCGAGAAATCCGACGATACCAGAAATCAACTGAGCTGCTCA H3.2|ClusterII|1|411 GACCTGGTACCGTCGCTCTCCGAGAGATCCGACGATACCAAAAATCCACCGAGCTTCTCA H3.sh|ClusterVIII|1|297 GACCTGGAACCGTCGCTCTTCGAGAGATCCGACGATACCAAAAATCCACTGAGCTTCTCA H3.2|ClusterIII|1|411 GACCTGGAACCGTCGCCCTCCGAGAGATCCGACGATACCAAAAATCTACCGAGCTTCTCA H3.2|ClusterVII|1|411 GACCAGGAACCGTCGCTCTCCGAGAGATCCGACGATACCAGAAATCCACCGAGCTTCTCA * ** ** * * ***** ** ** ** * ** H3.Cen|ClusterV|27|362 TGCGCAAGATGCCATTCCAGCGCGTGGTCAGAGAAGTTGTGAGTGAGCTTCGACCAGGGA H3.t3|ClusterXVII|1|411 TTCGCAAGCTCCCGTTCCAACGACTTGTCCGCGAAATCGCCCAGCAGTGGCGAAA----- H3.3|ClusterXVIII|24|434 TCCGCAAGTTGCCTTTCCAGCGTCTGGTTCGTGAAATCGCACAGGATTTCAAAAC----- H3.t1|ClusterXIII|1|411 TCCGAAAGCTCCCCTTCCAGCGACTCGTTCGCGAGCTCGCACAGCAGTGGAAGTC----- H3.t2|ClusterIX|1|411 TCCGAAAGCTCCCCTTCCAGCGACTGGTCCGCGAAATCGCCCAGCAGTGGAAATC----- H3.3|ClusterXIV|50|460 TCCGCAAGCTCCCCTTCCAGCGTCTCGTCCGAGAAATTGCGCAGGATTTCAAGAC----- H3.2|ClusterII|1|411 TCCGAAAGTTGCCCTTCCAGCGACTCGTCCGAGAAATCGCACAGGACTTCAAAAC----- H3.sh|ClusterVIII|1|297 TCCGAAAGCTTCCCTTCCAGCGACTCGTCCGAGAAATCGCCCAGGACTTCAAAAC----- H3.2|ClusterIII|1|411 TCCGAAAGTTGCCCTTCCAGCGACTCGTCCGAGAAATCGCTCAGGATTTCAAAAC----- H3.2|ClusterVII|1|411 TCCGAAAGTTGCCCTTCCAGCGACTCGTCCGAGAAATTGCTCAGGACTTCAAGAC----- * ** *** * ** ***** ** * ** * ** * * * H3.Cen|ClusterV|27|362 ATGTCTTGCGATGGCAAGCGGACGCGCTCGTGTGTTTGCAAGAGGCCACGGAAAACATAC H3.t3|ClusterXVII|1|411 -CGATCTTCGCTTCCAGTCTTCTGCCGTCATGGCGCTTCAGGAAGCCGCCGAAGCTTACC H3.3|ClusterXVIII|24|434 -TGATCTACGATTCCAGTCCGCAGCGATCGGAGCTCTCCAGGAAGCATCTGAAGCATACC H3.t1|ClusterXIII|1|411 -TGATCTTCGCTTCCAGTCTTCCGCCGTCATGGCCCTCCAGGAAGCTTCTGAGGCTTACC H3.t2|ClusterIX|1|411 -CGACCTTCGTTTCCAGTCTTCCGCCGTTATGGCCCTTCAGGAAGCTTCTGAGGCCTACC H3.3|ClusterXIV|50|460 -TGATCTCCGCTTCCAATCTGCTGCCATTGGAGCTCTTCAGGAAGCTTCCGAAGCGTATC H3.2|ClusterII|1|411 -CGACCTCCGCTTCCAGTCTTCCGCCGTCATGGCTCTCCAGGAAGCTTCTGAGGCTTACC H3.sh|ClusterVIII|1|297 -CGACCTCCGCTTCCAGTCTTCCG-----GGGGTTGTCCGG------------------- H3.2|ClusterIII|1|411 -TGATCTTCGATTCCAGTCTTCCGCTGTTATGGCTCTTCAGGAAGCCTCCGAGGCTTACC H3.2|ClusterVII|1|411 -CGATCTCCGATTCCAGTCTTCCGCCGTCATGGCCCTCCAGGAAGCTTCTGAGGCTTACC * * ** * ** * * * * H3.Cen|ClusterV|27|362 TTGTGACACTTTTTGAAGTCGCAAATCTGTATGCCGTCCATGCCAAGCGAGTAACAGTCA H3.t3|ClusterXVII|1|411 TCGTTGGTCTCTTCGAAGACTCAAATCTTTGCGCCATTCATGCAAAGCGAGTTACTGTCA H3.3|ClusterXVIII|24|434 TTGTTGGCCTTTTCGAAGACACAAATCTTTGCGCAATTCACGCCAAGCGCGTTACCATCA H3.t1|ClusterXIII|1|411 TCGTCGGTCTCTTTGAGGACTCCAACCTCTGCGCCATCCACGCCAAGCGAGTTACCGTCA H3.t2|ClusterIX|1|411 TCGTCGGTCTCTTTGAGGACTCCAACCTTTGCGCCATCCACGCCAAGCGAGTCACTGTCA H3.3|ClusterXIV|50|460 TCGTCGGGCTTTTCGAAGACACAAACTTGTGCGCCATCCACGCCAAGCGAGTGACAATCA H3.2|ClusterII|1|411 TCGTCGGACTTTTTGAGGATACCAACTTGTGCGCGATTCACGCCAAGCGAGTTACGATCA H3.sh|ClusterVIII|1|297 --------------------------------------------------------ATCG H3.2|ClusterIII|1|411 TTGTCGGTCTCTTTGAAGACACCAACTTGTGCGCCATCCACGCCAAGCGAGTCACCATCA H3.2|ClusterVII|1|411 TCGTCGGACTCTTTGAAGATACTAACTTGTGCGCAATCCACGCCAAGCGAGTCACCATCA ** H3.Cen|ClusterV|27|362 TGACGAAAGATCTTCAACTTGTAAGAAGAGTTGCGGGC--ATGAACTTGA---------- H3.t3|ClusterXVII|1|411 TGCCAAAGGACATGTGGCTCGCTCGACGAATCCGAGGTGAACGAGCTTAG---------- H3.3|ClusterXVIII|24|434 TGCCAAAAGATATTCAGTTGGCACGACGAATTCGAGGCGAGCGGGCCTAAAGACTCCATT H3.t1|ClusterXIII|1|411 TGCCAAAGGACATGGCTCTCGCCCGACGTATCCGAGGAGAAGCCAAGTAA---------- H3.t2|ClusterIX|1|411 TGCCCAAGGACATGGCCCTCGCTCGACGAATCCGAGGAGAAGCCAAGTAA---------- H3.3|ClusterXIV|50|460 TGCCGAAGGACATCCAGCTCGCGCGACGAATCCGAGGAGAACGAGCTTAACCTCCTGAAG H3.2|ClusterII|1|411 TGCCAAAGGACATCCAGCTCGCCAGACGAATCCGAGGAGAACGTGCTTAA---------- H3.sh|ClusterVIII|1|297 TGTCG-----------GCTCA-----------------------GATTGA---------- H3.2|ClusterIII|1|411 TGCCTAAGGACATCCAGCTCGCCCGACGAATTCGAGGCGAACGAGCTTAA---------- H3.2|ClusterVII|1|411 TGCCAAAGGACATCCAGCTCGCTCGACGAATCCGAGGAGAACGTGCCTAAACACACTTTC ** * * * H3.Cen|ClusterV|27|362 --------ACGGCATAGCCAAGAAATGACGCGAGTCACTT--ATCAGCTCCTGCACCACA H3.t3|ClusterXVII|1|411 ------------------------------------------------------------ H3.3|ClusterXVIII|24|434 CATTTTTCACCAAGTGTTCCTCTCACTCATCCTGTTTTTT--TCCAATTTTGTTTTCGAT H3.t1|ClusterXIII|1|411 ------------------------------------------------------------ H3.t2|ClusterIX|1|411 ------------------------------------------------------------ H3.3|ClusterXIV|50|460 CATCATCGACCATTTCCGTTCTTCGTAAACCAGTTAAATT--GACAGCATTCCTGTCCCA H3.2|ClusterII|1|411 ------------------------------------------------------------ H3.sh|ClusterVIII|1|297 ------------------------------------------------------------ H3.2|ClusterIII|1|411 ------------------------------------------------------------ H3.2|ClusterVII|1|411 TACTCATCAAACAGGCCCTTTTTAGGGCCACAAATAATTGAAAACAGCACTACGCTGGCT H3.Cen|ClusterV|27|362 TATTTTCTACTTTTCCCATTCC-------------------------------------- H3.t3|ClusterXVII|1|411 ------------------------------------------------------------ H3.3|ClusterXVIII|24|434 GTTTTTCAACCTTTACTTTTTCGCTGGGACAGTGAACATCACTTCTTAATGCAACACACT H3.t1|ClusterXIII|1|411 ------------------------------------------------------------ H3.t2|ClusterIX|1|411 ------------------------------------------------------------ H3.3|ClusterXIV|50|460 GAAGTTTTATTTGAAATTACTA-------------------------------------- H3.2|ClusterII|1|411 ------------------------------------------------------------ H3.sh|ClusterVIII|1|297 ------------------------------------------------------------ H3.2|ClusterIII|1|411 ------------------------------------------------------------ H3.2|ClusterVII|1|411 GTATTTTTGCTCTACCTCATTTTATCTGATAATAAATGTCAATCATTGCTA--------- H3.Cen|ClusterV|27|362 ------------CCGTTTTCGAAACCTGCCTGTTTTCATCCCCTGCAAATTCCCCCTCCA H3.t3|ClusterXVII|1|411 ------------------------------------------------------------ H3.3|ClusterXVIII|24|434 CAACGATTTCAACGATACTAGCTTCGTGAGTGACGCCGTAGTCGCCAACGATGCTCACCT H3.t1|ClusterXIII|1|411 ------------------------------------------------------------ H3.t2|ClusterIX|1|411 ------------------------------------------------------------ H3.3|ClusterXIV|50|460 -----AAATAACCAGTCGTTTTATCATGCCTGCCACTTTTTTGAGAAACAAAACATTTGT H3.2|ClusterII|1|411 ------------------------------------------------------------ H3.sh|ClusterVIII|1|297 ------------------------------------------------------------ H3.2|ClusterIII|1|411 ------------------------------------------------------------ H3.2|ClusterVII|1|411 ------------------------------------------------------------ H3.Cen|ClusterV|27|362 GTTTTCCATCCAAATGCTTATTCGAAAATCC----------------------------- H3.t3|ClusterXVII|1|411 ------------------------------------------------------------ H3.3|ClusterXVIII|24|434 TCTTAAATCGCCATTTATAAATGTTAACCTGCCGAACACCTACAGCTCTATACTGATCCC H3.t1|ClusterXIII|1|411 ------------------------------------------------------------ H3.t2|ClusterIX|1|411 ------------------------------------------------------------ H3.3|ClusterXIV|50|460 TTTCTTAATTTACTTATTGAAAAATAAATCAGCAAA------------------------ H3.2|ClusterII|1|411 ------------------------------------------------------------ H3.sh|ClusterVIII|1|297 ------------------------------------------------------------ H3.2|ClusterIII|1|411 ------------------------------------------------------------ H3.2|ClusterVII|1|411 ------------------------------------------------------------ H3.Cen|ClusterV|27|362 ------------------------------------------------------------ H3.t3|ClusterXVII|1|411 ------------------------------------------------------------ H3.3|ClusterXVIII|24|434 ATCTGCGTGTCATACCCGGAGGTGAATCTACTCTTGGTCTTCTAGCTTCGTATTAATGAA H3.t1|ClusterXIII|1|411 ------------------------------------------------------------ H3.t2|ClusterIX|1|411 ------------------------------------------------------------ H3.3|ClusterXIV|50|460 ---------------------------------------------------AATTCAAAA H3.2|ClusterII|1|411 ------------------------------------------------------------ H3.sh|ClusterVIII|1|297 ------------------------------------------------------------ H3.2|ClusterIII|1|411 ------------------------------------------------------------ H3.2|ClusterVII|1|411 ---------------------------------------------------ANAAAAAAA H3.Cen|ClusterV|27|362 --------AATTAACAAACGATATAAAATAA H3.t3|ClusterXVII|1|411 ------------------------------- H3.3|ClusterXVIII|24|434 ATACTCAATTGNAAAAAAAAAAAAAAAAAAA H3.t1|ClusterXIII|1|411 ------------------------------- H3.t2|ClusterIX|1|411 ------------------------------- H3.3|ClusterXIV|50|460 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA H3.2|ClusterII|1|411 ------------------------------- H3.sh|ClusterVIII|1|297 ------------------------------- H3.2|ClusterIII|1|411 ------------------------------- H3.2|ClusterVII|1|411 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA