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//home/cluster1/data/bu01/1121861/jlex/rdloci/alignments/pre-locus2-igrs.aln
CLUSTAL W (1.83) multiple sequence alignment 98-152_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-18_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-147_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-210_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-171_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-180_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-151_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-212_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-170_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-208_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- M-00-14_Pre-RD_RD-Red-Short_no -------------------------------------------------- 98-149_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-169_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- HP1_Pre-RD_RD-Green_non-RD_2 -------------------------------------------------- M-00-14_Pre-RD_RD-Green_non-RD -------------------------------------------------- M-00-12_Pre-RD_RD-Green_non-RD -------------------------------------------------- 26695_Pre-RD_non-RD_RD-Red_2 TTAGAAGAGCCTTTGGAAGTCTCTGCTAAACAATTGGCTGAAATCAAAAA J99_Pre-RD_non-RD_RD-Green_2 -------------------------------------------------- 98-150_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- J254_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-152_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-18_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-147_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-210_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-171_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-180_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-151_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-212_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-170_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-208_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- M-00-14_Pre-RD_RD-Red-Short_no -------------------------------------------------- 98-149_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-169_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- HP1_Pre-RD_RD-Green_non-RD_2 -------------------------------------------------- M-00-14_Pre-RD_RD-Green_non-RD -------------------------------------------------- M-00-12_Pre-RD_RD-Green_non-RD -------------------------------------------------- 26695_Pre-RD_non-RD_RD-Red_2 ACGCATGAAAAATTCGCCTAACCAACGCCCCGTCCAGCCTGACTACAACA J99_Pre-RD_non-RD_RD-Green_2 -------------------------------------------------- 98-150_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- J254_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-152_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-18_Pre-RD_non-RD_RD-Red_2 ------------------------------AGCGGGATCCGT--AAAGGA 98-147_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------- 98-210_Pre-RD_non-RD_RD-Red_2 --------------------------AGTCAGTGNGATCCGGTAAAAAGG 98-171_Pre-RD_non-RD_RD-Red_2 ------------------------CAAGTCAGTG-GATCCCGTAAAAGGA 98-180_Pre-RD_non-RD_RD-Red_2 ------------------------CAAGTCAGTGAGATCCGGTAAAATGA 98-151_Pre-RD_non-RD_RD-Red_2 -------------------------------------------------G 98-212_Pre-RD_non-RD_RD-Red_2 ----------------------CCTAAGTCAGTGGGATACGACTAAAATG 98-170_Pre-RD_non-RD_RD-Red_2 ------------------------CAAGTCAGTGGGATCCGC-AAAAAGA 98-208_Pre-RD_non-RD_RD-Red_2 -------------------------AAGTCAGTGGGATCCGCT--AATGA M-00-14_Pre-RD_RD-Red-Short_no ------------------------------------------------GA 98-149_Pre-RD_non-RD_RD-Red_2 ---------------------------------------GACGCTAATGA 98-169_Pre-RD_non-RD_RD-Red_2 ---------------------------------------GACGCTAATGA HP1_Pre-RD_RD-Green_non-RD_2 -------------------------------------------------- M-00-14_Pre-RD_RD-Green_non-RD --------------------------------------GGACGCTAAGGA M-00-12_Pre-RD_RD-Green_non-RD ----------------------------------------------AAGG 26695_Pre-RD_non-RD_RD-Red_2 CCGTGATCATTAAAAGCTCAGCTGAGACCCGCTAAAGATCCGCTAAATTT J99_Pre-RD_non-RD_RD-Green_2 -----------------------------------AGATCCGCTAAAATT 98-150_Pre-RD_non-RD_RD-Red_2 -----------------------------------AGACCCACTAAAATG J254_Pre-RD_non-RD_RD-Red_2 ----------------------------------------CGCTAAA-TG 98-152_Pre-RD_non-RD_RD-Red_2 --------CT-TTTATAA--GAGAGAGGTATAAAAATCATTCTTCATAA- 98-18_Pre-RD_non-RD_RD-Red_2 AACTCTCTCT-TTTATAA-AGAGAGAGGTATAAAAATCATTCTTCATAA- 98-147_Pre-RD_non-RD_RD-Red_2 --CTCTCT---TTTATAA--GAGAGAGGTATAAAAATCATTCTTCATAA- 98-210_Pre-RD_non-RD_RD-Red_2 AACTCTCTC--TTTATAA--GAGAGAGGTATAAAAATCATTCTTCATAA- 98-171_Pre-RD_non-RD_RD-Red_2 AACTCTCTCT-TTTATAA-AGAGAGAGGTATAAAAATCATTCTTCATAA- 98-180_Pre-RD_non-RD_RD-Red_2 AACTCTCTCT-TTTATAA-AGAGAGAGGTATAAAAATCATTCTTCATAA- 98-151_Pre-RD_non-RD_RD-Red_2 AACTCTCTCT-TTTATAA-AGAGAGAGGTATAAAAATCATTCTTCATAA- 98-212_Pre-RD_non-RD_RD-Red_2 AACTCTCTCT-TTTATAA-AGAGAGAGGTATAAAAATCATTCTTCATAA- 98-170_Pre-RD_non-RD_RD-Red_2 AACTCTCTC--TTTATAA-AGAGAGAGGTATAAAAATCATTCTTCATAA- 98-208_Pre-RD_non-RD_RD-Red_2 AACTCTCTCT-TTTATAA-AGAGAGAGGTATAAAAATCATTCTTCATAA- M-00-14_Pre-RD_RD-Red-Short_no AACTCTCTC--TTTATAA-AGAGAGAGGTATAAAAATCATTCTTCATAA- 98-149_Pre-RD_non-RD_RD-Red_2 AACTCTCTC--TTTATAA-AGAGAGAGGTATAAAAATCATTCTTCATAA- 98-169_Pre-RD_non-RD_RD-Red_2 AACTCTCTC--TTTATAA-AGAGAGAGGTATAAAAATCATTCTTCATAA- HP1_Pre-RD_RD-Green_non-RD_2 -ACTCTCTCTATTTATAA-AGAGAGAGGTATAAAAATCATTCTTCATAAT M-00-14_Pre-RD_RD-Green_non-RD AACTCTCTCT-TTTATAA-AGAGAGAGGTATAAAAATCATTCTTCATAAT M-00-12_Pre-RD_RD-Green_non-RD AACTCTCTCT--TTATAA-AGAGAGAGGTATAAAAATCATTCTTCATAAT 26695_Pre-RD_non-RD_RD-Red_2 AAAACCCCCTCTTT-TAA--AAGAGGGAGGTAAAAATCATTCTTCATAA- J99_Pre-RD_non-RD_RD-Green_2 AAAACTCTCTCTTT-TAA--AAGAGGGAGGTAAAAATCATTCTTTATAA- 98-150_Pre-RD_non-RD_RD-Red_2 AAAACCCTCTCTTTATAA-AGAGAGGGATATAAAAATCATTCTTCATGA- J254_Pre-RD_non-RD_RD-Red_2 AAAACTCTCTCTTTATAATAAAGAGGGAGATAAAAATCATTCTTCATGA- ** *** **** * ************** ** * 98-152_Pre-RD_non-RD_RD-Red_2 --AACAACGC-TAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA 98-18_Pre-RD_non-RD_RD-Red_2 --AACAACGC-TAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA 98-147_Pre-RD_non-RD_RD-Red_2 --AACAACGC-TAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA 98-210_Pre-RD_non-RD_RD-Red_2 --AACAACGC-TAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA 98-171_Pre-RD_non-RD_RD-Red_2 --AACAACGC-TAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA 98-180_Pre-RD_non-RD_RD-Red_2 --AACAACGC-TAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA 98-151_Pre-RD_non-RD_RD-Red_2 --AACAACGC-TAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA 98-212_Pre-RD_non-RD_RD-Red_2 --AACAACGC-TAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA 98-170_Pre-RD_non-RD_RD-Red_2 --AACAACGC-TAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA 98-208_Pre-RD_non-RD_RD-Red_2 --AACAACGC-TAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA M-00-14_Pre-RD_RD-Red-Short_no --AACAACGC-TAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA 98-149_Pre-RD_non-RD_RD-Red_2 --AACAACGC-TAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA 98-169_Pre-RD_non-RD_RD-Red_2 --AACAACGC-TAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA HP1_Pre-RD_RD-Green_non-RD_2 AAAACAACGC-CAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA M-00-14_Pre-RD_RD-Green_non-RD AAAACAACGC-CAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA M-00-12_Pre-RD_RD-Green_non-RD AAAACAACNC-CAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA 26695_Pre-RD_non-RD_RD-Red_2 --AACGCCAC-TAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA J99_Pre-RD_non-RD_RD-Green_2 --AACACCGC-TAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA 98-150_Pre-RD_non-RD_RD-Red_2 --AACACCGCATAAAAATTGCAACCGCTTGTATTTTGTAAAACGCTCAAA J254_Pre-RD_non-RD_RD-Red_2 --AACACCGC-TAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAA *** * * ************************** *********** 98-152_Pre-RD_non-RD_RD-Red_2 CGCTAAAGACGATTGGGATTCCTACTAAGAAGTTTAAAAAAGGTTCTGTT 98-18_Pre-RD_non-RD_RD-Red_2 CGCTAAAGACGATTGGGATTCCTACTAAGAAGTTTAAAAAAGGTTCTGTT 98-147_Pre-RD_non-RD_RD-Red_2 CGCTAAAGACGATTGGGATTCCTACTAAGAAGTTTAAAAAAGGTTCTGTT 98-210_Pre-RD_non-RD_RD-Red_2 CGCTAAAGACGATTGGGATTCCTACTAAGAAGTTTAAAAAAGGTTCTGTT 98-171_Pre-RD_non-RD_RD-Red_2 CGCTAAAGACGATTGGGATTCCTACTAAGAAGTTTAAAAAAGGTTCTGTT 98-180_Pre-RD_non-RD_RD-Red_2 CGCTAAAGACGATTGGGATTCCTACTAAGAAGTTTAAAAAAGGTTCTGTT 98-151_Pre-RD_non-RD_RD-Red_2 CGCTAAAGACGATTGGGATTCCTACTAAGAAGTTTAAAAAAGGTTCTGTT 98-212_Pre-RD_non-RD_RD-Red_2 CGCTAAAGACGATTGGGATTCCTACTAAGAAGTTTAAAAAAGGTTCTGTT 98-170_Pre-RD_non-RD_RD-Red_2 CGCTAAAGACGATTGGGATTCCTACTAAGAAGTTTAAAAAAGGTTCTGTT 98-208_Pre-RD_non-RD_RD-Red_2 CGCTAAAGACGATTGGGATTCCTACTAAGAAGTTTAAAAAAGGTTCTGTT M-00-14_Pre-RD_RD-Red-Short_no CGCTAAAGACGATTGGGATTCCTACTAAGAAGTTTAAAAAAGGTTCTGTT 98-149_Pre-RD_non-RD_RD-Red_2 CGCTAAAGACGATTGGGATTCCTACTAAGAAGTTTAAAAAAGGTTCTGTT 98-169_Pre-RD_non-RD_RD-Red_2 CGCTAAAGACGATTGGGATTCCTACTAAGAAGTTTAAAAAAGGTTCTGTT HP1_Pre-RD_RD-Green_non-RD_2 CGCTAAAGACGATTGGAATTCCTACTAAGGAGTTTAAAAAAGGCTCTGTT M-00-14_Pre-RD_RD-Green_non-RD CGCTAAAGACGATTGGAATTCCTACTAAGGAGTTTAAAAAAGGCTCTGTT M-00-12_Pre-RD_RD-Green_non-RD CGCTAAAGACGATTGGAATTCCTACTAAGGAGTTTAAAAAAGGCTCTGTT 26695_Pre-RD_non-RD_RD-Red_2 CGCTAAAGACGATTGGGATTCCTACTAAGGAGTTTAAAAAAGGCTCTGTT J99_Pre-RD_non-RD_RD-Green_2 CGCTAAAAATGATTAGGATTCCTACTAAGGAGTTTAAAAAAGGCTCTATT 98-150_Pre-RD_non-RD_RD-Red_2 CGCTAAAGACGATTAGGATTCCTACTAAGGAGTTTAAAAAAGGCTCTGTT J254_Pre-RD_non-RD_RD-Red_2 CGCTAAAGACGATTGGGATTCCTACTAAGGAGTTTAAAAAAGGCTCTGTT ******* * **** * ************ ************* *** ** 98-152_Pre-RD_non-RD_RD-Red_2 CTAATTGGGTAACATAGAGCCTTTAAAATACCATAAATAAGCTAAAA-CG 98-18_Pre-RD_non-RD_RD-Red_2 CTAATTGGGTAACATAGAGCCTTTAAAATACCATAAATAAGCTAAAA-CG 98-147_Pre-RD_non-RD_RD-Red_2 CTAATTGGGTAACATAGAGCCTTTAAAATACCATAAATAAGCTAAAA-CG 98-210_Pre-RD_non-RD_RD-Red_2 CTAATTGGGTAACATAGAGCCTTTAAAATACCATAAATAAGCTAAAA-CG 98-171_Pre-RD_non-RD_RD-Red_2 CTAATTGGGTAACATAGAGCCTTTAAAATACCATAAATAAGCTAAAA-CG 98-180_Pre-RD_non-RD_RD-Red_2 CTAATTGGGTAACATAGAGCCTTTAAAATACCATAAATAAGCTAAAA-CG 98-151_Pre-RD_non-RD_RD-Red_2 CTAATTGGGTAACATAGAGCCTTTAAAATACCATAAATAAGCTAAAA-CG 98-212_Pre-RD_non-RD_RD-Red_2 CTAATTGGGTAACATAGAGCCTTTAAAATACCATAAATAAGCTAAAA-CG 98-170_Pre-RD_non-RD_RD-Red_2 CTAATTGGGTAACATAGAGCCTTTAAAATACCATAAATAAGCTAAAA-CG 98-208_Pre-RD_non-RD_RD-Red_2 CTAATTGGGTAACATAGAGCCTTTAAAATACCATAAATAAGCTAAAA-CG M-00-14_Pre-RD_RD-Red-Short_no CTAATTGGGTAACATGGAGCCTTTAAAATACCATAAATAAGCTAAAA-CG 98-149_Pre-RD_non-RD_RD-Red_2 CTAATTGGGTAACATAGAGCCTTTAAAATACCATAAATAAGCTAAAA-CG 98-169_Pre-RD_non-RD_RD-Red_2 CTAATTGGGTAACATAGAGCCTTTAAAATACCATAAATAAGCTAAAA-CG HP1_Pre-RD_RD-Green_non-RD_2 CTAATTGGGTAACATAGAGTTTTTAAAA-ACCATAAATAAGCTAAAAACG M-00-14_Pre-RD_RD-Green_non-RD CTAATTGGGTAACATAGAGTTTTTAAAATACCATAAATAAGCTAAAAACG M-00-12_Pre-RD_RD-Green_non-RD CTAATTGGGTAACATAGAGTTTTTAAAATACCATAAATAAGCTAAAAACG 26695_Pre-RD_non-RD_RD-Red_2 CTAACTGGGTAACATAGAGTTTTTAAAATACTATAAATAAGCTAAGAACG J99_Pre-RD_non-RD_RD-Green_2 CTAATTGGGTAATATAGAGTCTTTAAAATACCATAAATAAGCTAAAAACG 98-150_Pre-RD_non-RD_RD-Red_2 CTAATTGGGTAATATAGAGTCTTTAAAATACCATAAATAAGCTAAAAACG J254_Pre-RD_non-RD_RD-Red_2 CTAATTGGGTAATATAGAGTCTTTAAAATACCATAAATAAGCTAAAAACG **** ******* ** *** ******* ** ************* * ** 98-152_Pre-RD_non-RD_RD-Red_2 ATTTTATGGTGTT------TTCTTATGC- 98-18_Pre-RD_non-RD_RD-Red_2 ATTTTATGGTGTT------TTCTTATGC- 98-147_Pre-RD_non-RD_RD-Red_2 ATTTTATGGTGTT------TTCTTATGC- 98-210_Pre-RD_non-RD_RD-Red_2 ATTTTATGGTGTT------TTCTTATGC- 98-171_Pre-RD_non-RD_RD-Red_2 ATTTTATGGTGTT------TTCTTATGC- 98-180_Pre-RD_non-RD_RD-Red_2 ATTTTATGGTGTT------TTCTTATGC- 98-151_Pre-RD_non-RD_RD-Red_2 ATTTTATGGTGTT------TTCTTATGC- 98-212_Pre-RD_non-RD_RD-Red_2 ATTTTATGGTGTT------TTCTTATGC- 98-170_Pre-RD_non-RD_RD-Red_2 ATTTTATGGTGTT------TTCTTATGC- 98-208_Pre-RD_non-RD_RD-Red_2 ATTTTATGGTGTT------TTCTTATGC- M-00-14_Pre-RD_RD-Red-Short_no ATTTTATGGTGTT------TTCTTATGC- 98-149_Pre-RD_non-RD_RD-Red_2 ATTTTATGGTGTT------TTCTTATGC- 98-169_Pre-RD_non-RD_RD-Red_2 ATTTTATGGTGTT------TTCTTATGC- HP1_Pre-RD_RD-Green_non-RD_2 ATTTTATGGTGT--------TCTTATGC- M-00-14_Pre-RD_RD-Green_non-RD ATTTTATGGTGT--------TCTTATGC- M-00-12_Pre-RD_RD-Green_non-RD ATTTTATGGTGT--------TCTTATGC- 26695_Pre-RD_non-RD_RD-Red_2 ATTTTATGGTGTT------TTCTTATGC- J99_Pre-RD_non-RD_RD-Green_2 ATTTTATGGTGTT------TTCTTATGCC 98-150_Pre-RD_non-RD_RD-Red_2 ATTTTATGGTATTCTTATTTTCTTATGC- J254_Pre-RD_non-RD_RD-Red_2 ATTTTATGGTGTTCTTATTTTCTTATGC- ********** * ********