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/home/cluster1/data/bu01/1121861/jlex/rdloci/alignments/founder_red.aln
CLUSTAL W (1.83) multiple sequence alignment J178_Red_locus2_EQ ATGGAATCAGTAAAAACAGGAAAAACAAATAAAGTTGGCAAAAACGCAGAGACAGCTAAC J230_Red_locus1_NK ATGGAATCAGTAAAAACAGAAAAAACAAATAAAGTTGGCAAAAACACAGAGACAGCTGAC J282_Red_locus2_EQ ATGGAATCAGTAAAAACAGGAAAAGCAAATAAAGTTGGCAAAAACACAGAGACAGCTAAC J258_Red_locus1_SN ATGGAATCAGTAAAAACAGGAAAAACAAATAAAGTTGGCAAAAACACAGAGACAGCTAAC J170_Red_locus1_NK ATGGAATCAGTAAAAACAGGAAAAACAAATAAAGTTGGCAAAAACGCAGAGACAGCTGAC J178_Red_locus1_NK ATGGAATCAGTAAAAACAGGAAAAACAAATAAAGTTGGCAAAAACGCAGAGACAGCTAAC J282_Red_locus1_NK ATGGAATCAGTAAAAACAGGAAAAACAAATAAAGTTGGCAAAAACGCAGAGACAGCTAAC J166_Red_locus1_KD ATGGAATCAGTAAAAACAGGAAAAACAAATAAGGTTGGCAAGAACACAGAGATGGCTAAC J254_Red_locus1_NK ATGGAATCAGTAAAAACAGGAAAAACAAATAAAGTTGGCAAAAACACAGAGACAGCTAAC J99_Red_locus1_NK ATGGAATCAGTAAAAACAGTAAAAACAAATAAAGTTGGCAAAAACACAGAGACAGCTAAC ******************* **** ******* ******** *** ****** *** ** J178_Red_locus2_EQ ACAAAGGCAAATAAAGAGGCTCATTTTAAACAAGCGAGCGCCATTACAAATACGCTCAGA J230_Red_locus1_NK ACAAAGGCAAATAAAGAGGCTCATTTAAAACAAGCGAGTGCCATTACAAATACGCTCAGA J282_Red_locus2_EQ ACAAAGGCAAATAAAGAGACTCATTTTAAACAAGCGAGTGCCATTACAAATATAATCAGA J258_Red_locus1_SN ACAAAGGCAAATAAAGAGGCTCATTTTAAACAAGCGAGCGCCATTACAAATACGCTCAGA J170_Red_locus1_NK ACAAAGGCAAATAAAGAGACTCATTTTAAACAAGCGAGCGCCATTACAAATATAATCAGA J178_Red_locus1_NK ACAAAGGCAAATAAAGAGACTCATTTTAAACAAGCGAGCGCCATTACAAATATAATCAGA J282_Red_locus1_NK ACAAAGGCAAATAAAGAGACTCATTTTAAACAAGCGAGCACCATTACAAATATAATCAGA J166_Red_locus1_KD GCAAAGACAAATAAAGAGACTCATTTTAAACAAGCGAGTGCCATTACAAATATAATCAGA J254_Red_locus1_NK GCAAAGGCAAATAAAGAGACTCATTTTAAACAAGCGAATGCCATTACAAATATAATCAGA J99_Red_locus1_NK ACAGAGGCAAGTAAAGAGACTCATTTTAAACAAGCGAGTGCCATTACAAATACGCTCCGA ** ** *** ******* ******* ********** ************ ** ** J178_Red_locus2_EQ TCAATTGGTGGGTTTTTTACAAAGATCGCAAAGAGAGTTAGAGAACTTGTAAAAAAACAC J230_Red_locus1_NK TCAATTGGTGGGTTTTTTACAAAAATTGTAAAGAGAGTTAGAGAACTTGTAAAAAAACAC J282_Red_locus2_EQ TCAATTGGTGGGTTTTTTACAAAGATCGCAAAGAGAGTTAGAGAACTTGTAAAAAGACAT J258_Red_locus1_SN TCAATTGGTGGGTTTTTTACAAAGATCGCAAAGAGAGTTAGAGAACTTGTAAAAAGACAC J170_Red_locus1_NK TCAATTAGTGGGTTTTTTACAAAGATTATGAAGAGAGTTAGAGAACTTGTAAAAAAACAC J178_Red_locus1_NK TCAATTAGTGGGTTTTTTACAAAGATCGCAAAGAGAGTTAGAGAACTTGTAAAAAAACAC J282_Red_locus1_NK TCAATTGGTGGGTTTTTTACAAAAATTGCAAAGAAAGTTAGAGAACTTGTAAAAAAACAC J166_Red_locus1_KD TCAATTGGTGGGTTTTTTACAAAGATTATGAAGAGAGTTAGAGAACTTGTAAAAAAACAC J254_Red_locus1_NK TCAATTAGTGGGTTTTTTACAAAAATTGCAAAGAAAGTTAGAGAACTTGTAAAAAAACAT J99_Red_locus1_NK TCAATTGGTGGGATTTTTACAAAAATTGCAAAGAAAGTTAGAGAACTTGTGAAAAAACAT ****** ***** ********** ** **** *************** **** *** J178_Red_locus2_EQ CCCAAGAAAAGCAGGGCGGCATTAGTAGTATTGACCCATGTTGCATGCAGGAAAGCGAAA J230_Red_locus1_NK CCCAAGAAAAGCAATGCGGCATTAGTAGTATTGACCCATGTTGCATGCAAGAAAGCGAAA J282_Red_locus2_EQ CCCAAGAAAAGCAATGCGGCATTAGTAGTATTGACCCATGTTGTGTGCAGGAAAGCGAAA J258_Red_locus1_SN CCCAAGAAAAGCAATGCGGCATTAGTAGTATTGACCCATGTTGTGTGCAGGAAAGCGAAA J170_Red_locus1_NK CCCAAGAAAAGCAATGCGGCATTAGTAGTATTGACCCATGTTGCATGCAGGAAAGCGAAA J178_Red_locus1_NK CCCAAGAAAAGCAATGCGGCATTAGTAGTATTGACCCATGTTGCGTGCAAGAAAGCGAAA J282_Red_locus1_NK CCCAAGAAAAGCAATGCGGCATTAGTAGTATTGACCCATGTTGCATGCAAGAGGGCAAAA J166_Red_locus1_KD CCCAAGAAAAGCAAGGCGGCATTAGTAGTATTGACCCATGTTGCGTGCAAGAAAGCAAAA J254_Red_locus1_NK CCCAAGAAAAGCAATGCGGCATTAGTAGTATTAACCCATGTTGCGTGCAAGAAAGCGAAA J99_Red_locus1_NK CCCAAGAAAAGCAGTGTGGCATTAGTAGTATTGACCCATATTGCGTGCAAGAGGGCAAAA ************* * *************** ****** *** **** ** ** *** J178_Red_locus2_EQ GAATTGGACGATAAAGTCCAAGATAAATCCAAACAAGCTGAAAAAGAAAATCAAATCAAT J230_Red_locus1_NK GAATTGGACGATAAAGTCCAGGATAAATCCAAACAAGCTGAAAAAGAAAATCAAATCAAT J282_Red_locus2_EQ GAATTGGACGATAAAGTCCAGGATAAATCCAAACAAGCTGAAAAAGAAAATCGAATCAAT J258_Red_locus1_SN GAATTGGACGATAAAGTCCAGGATAAATCCAAACAAGCTGAAAAAGAAAATCGAATCAAT J170_Red_locus1_NK GAATTAGACGATAAAGTCCAAGATAAATCCAAACAAGCTGAAAAAGAAAATCAAATCAAT J178_Red_locus1_NK GAATTGGACGATAAAGTCCAGGATAAATCCAAACAAGCTGAAAAAGAAAATCAAATCAAT J282_Red_locus1_NK GAATTAGACGATAAAGTCCAGGATAAATCCAAACAAGCTGAAAAAGAAAATCAAATCAAT J166_Red_locus1_KD GAATTGGACGATAAAGTCCAGGATAAATCCAAACAAGCTGAAAAAGAAAATCAAATCAAT J254_Red_locus1_NK GAATTAGACGATAAAGTCCAGGATAAATCCAAACAAGCTGAAAAAGAAAATCAAATCAAT J99_Red_locus1_NK GAATTGGACGATAAAGTCCAAGATAAATCCAAACAAGCTGAAAAAGAAAATCAAATCAAT ***** ************** ******************************* ******* J178_Red_locus2_EQ TGGTGGAAATATTC---AGGATTAACAATAGCGGCAAGTTTATTATTAGCCGCTTGTAGC J230_Red_locus1_NK TGGTGGAAATATTCTTCAGGATTAACAATAGCGGCAAGTTTATTACTAGCCGCTTGTAGC J282_Red_locus2_EQ TGGTGGAAGTATTC---AGGACTCACAATAGCGACAAGTTTATTATTAGCCGCTTGTAGT J258_Red_locus1_SN TGGTGGAAGTATTC---AGGACTCACAATAGCGACAAGTTTATTATTAGCCGCTTGTAGT J170_Red_locus1_NK TGGTGGAAATATTC---AGGATTAACAATAGCGGCAAGTTTATTATTAGCCGCTTGTAGC J178_Red_locus1_NK TGGTGGAAATATTC---AGGATTAACAATAGTGGCAAGTTTATTATTAGCCGCTTGTAGC J282_Red_locus1_NK TGGTGGAAATATTC---AGGATTAACAATAGCGACAAGTTTATTATTAGCCGCTTGTAGC J166_Red_locus1_KD TGGTGGAAATATTC---AGGATTAACAATAGCGGCAAGTTTATTATTAGCCGCTTGTAGT J254_Red_locus1_NK TGGTGGAAATATTC---AGGATTAACAATAGCGGCAAGTTTATTATTAGCCGCTTGTAGC J99_Red_locus1_NK TGGTGGAAATATTC---AGGATTAACAATAGCGGCAAGTTTATTATTAGCCGCTTGTAGC ******** ***** **** * ******* * *********** ************* J178_Red_locus2_EQ GTTGGTGATATTGATAAACAAATAGAGTTA J230_Red_locus1_NK GCTGGTGATATTGATAAACAAATAGAGTTA J282_Red_locus2_EQ GCTGGTGATATTGATAAACAGATAGAGTTA J258_Red_locus1_SN GCTGGTGATATTGATAAACAGATAGAGTTA J170_Red_locus1_NK GTTGGTGATACTGATAAACAGATAGAGTTA J178_Red_locus1_NK GTTGGTGATACTGATAAATAGATAGAGTTA J282_Red_locus1_NK GTTGGTGATACTGATAAACAGATAGAGTTA J166_Red_locus1_KD GTTGGTGATATTGATAAACAAATAGAACTA J254_Red_locus1_NK GCTGGTGATATTGATAAACAAATAGAACTA J99_Red_locus1_NK ACTGGTGATATTGATAAACAAATAGAACTA ******** ******* * ***** **