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/home/cluster1/data/bu01/1121861/jlex/rdloci/alignments/all_l1_pre_igrs.aln
CLUSTAL W (1.83) multiple sequence alignment 98-151_non-RD_RD-Green_1 ---CCTCCATTTGTAA-----G-TTTTACCTT-ATTTTAGGGATAGTTTA 98-152_non-RD_RD-Green_1 ---CCTCCATTTGTAA-----GGTTTTACCTT-ATTTTAGGGATAGTTTA J99_non-RD_RD-Red_1 ---CCTCCATAGGTAACCCATAGTTTTACCTT-ACTTTAGGGGTAGTTTA J166_non-RD_RD-Green_1 -------------------------------------------------- 98-150_non-RD_RD-Green_1 ---CCTCCATTTGTA------AGTTTTACCTT-ATTTTAGGGATAGTTTA 98-169_non-RD_RD-Green_1 ---CCTCCATTTGTAA------GTTTTACCTT-ATTTTAGGGATAGTTTA 98-171_non-RD_RD-Green_1 ------------CCCCATTGTAGTTT-ACCTT-ATTTTAGGGATAGTTTA 98-182_non-RD_RD-Green_1 -----GGGGTTACCCCATTGTAGTTT-ACCTT-ATTTTAGGGATAGTTTA 98-147_non-RD_RD-Green_1 -------------CCCATTGTAGTTT-ACCTT-ATTTTAGGGATAGTTTA 98-180_non-RD_RD-Green_1 -------------CCCATTGTAGTTT-ACCTT-ATTTTAGGGATAGTTTA HP1_non-RD_RD-Red_1 CTTGCGGGTTACCCCCATTGTAGTTTTACCTT-ACTTTAGGGATAGTT-A 98-170_non-RD_RD-Green_1 -----------CCTCNATTGTAGTTT-ACCTT-ATTTTAGGGATAGTTTA 98-210_non-RD_RD-Green_1 ----------CCTCCATTTGTAGTTTTACCTT-ATTTTAGGGATAGTTTA 98-212_non-RD_RD-Green_1 ----------CCTCCATTTGTAGTTTTACCTT-ATTTTAGGGATAGTTTA 26695_non-RD_RD-Red_1 ---------CCTCCATTTGTAAGTTTTACCTT-ACTTTAGGGATAGCTTA 98-149_non-RD_RD-Green_1 ----------CCTCCATTTGTAGTTTTACCTTTATTTTAGGGATAGTTTA 98-152-PreL1-RevComp --------------------------CCTGTTTATTTGAAAGTAGGTT-- 98-151_non-RD_RD-Green_1 AGCTTTTAAATAAGGCTCTCTTTTATTGTCAAATAACGCCACCATAAAAA 98-152_non-RD_RD-Green_1 AGCTTTTAAATAAGGCTCTCTTTTATTGTCAAATAACGCCACCATAAAAA J99_non-RD_RD-Red_1 AGCTTTTAAATAAGGATCTCTTTTATTGTCAAATAACGCTACCATAAAAA J166_non-RD_RD-Green_1 ---------------------------GTCAAATAACGCCACCATAAAAA 98-150_non-RD_RD-Green_1 AGCTTTTAAATAAGGCCCTCTTTTATTGTCAAATAACGCCACCATAAAAA 98-169_non-RD_RD-Green_1 AGCTTTTAAATAAGGATCTCTTTTATTGTCAAATAACGCCACCATAAAAA 98-171_non-RD_RD-Green_1 AGCTTTTAAATAAGGATCTCTTTTATTGTCAAATAACGCCACCATAAAAA 98-182_non-RD_RD-Green_1 AGCTTTTAAATAAGGATCTCTTTTATTGTCAAATAACGCCACCATAAAAA 98-147_non-RD_RD-Green_1 AGCTTTTAAATAAGGATCTCTTTTATTGTCAAATAACGCCACCATAAAAA 98-180_non-RD_RD-Green_1 AGCTTTTAAATAAGGATCTCTTTTATTGTCAAATAACGCCACCATAAAAA HP1_non-RD_RD-Red_1 AGCTTTTAAATAAGAATCCCTTTTATTACCAAATAACGCTACCATAAAAA 98-170_non-RD_RD-Green_1 AGCTTTTAAATAAGGATCTCTTTTATTGTCAAATAACGCCACCATAAAAA 98-210_non-RD_RD-Green_1 AGCTTTTAAATAAGGATCTCTTTTATTGTCAAATAACGCCACCATAAAAA 98-212_non-RD_RD-Green_1 AGCTTTTAAATAAGGATCTCTTTTATTGTCAAATAACGCCACCATAAAAA 26695_non-RD_RD-Red_1 AGCTTTTAAATAAGGATCTCTTTTATTGCCAAATAACGCTACCATAAAAA 98-149_non-RD_RD-Green_1 AGCTTTTAAATAAGGATCTCTTTTATTGTCAAATAACGCCACCATAAAAA 98-152-PreL1-RevComp -GTTTTTGAAAAAAGGTGGTAATGGATCNGTAAAAACGGGAAAACAAATA ** **** * * *** * 98-151_non-RD_RD-Green_1 ATGTTTTCAAAAGCCGACAGATAATTAAAAACTTAATGT-----TTTTAA 98-152_non-RD_RD-Green_1 ATGTTTTCAAAAGCCGACAGATAATTAAAAACTTAATGT-----TTTTAA J99_non-RD_RD-Red_1 ATGATCTCAAAAGCCGACAGATAATTAAAAACTTAATGT-----TTTTAA J166_non-RD_RD-Green_1 ATGTTTTCAAAAGCCGACAGATAATTAAAAACTTAATGT-----TTTTAA 98-150_non-RD_RD-Green_1 ATGTTTTCAAAAGCCGACAGATAATTAAAAACTTAATGT-----TTTTAA 98-169_non-RD_RD-Green_1 ATGTTTTCAAAAGCCGACAGATAATTAAAAACTTAATGT-----TTTTAA 98-171_non-RD_RD-Green_1 ATGTTTTCAAAAGCCGACAGATAATTAAAAACTTAATGT-----TTTTAA 98-182_non-RD_RD-Green_1 ATGTTTTCAAAAGCCGACAGATAATTAAAAACTTAATGT-----TTTTAA 98-147_non-RD_RD-Green_1 ATGTTTTCAAAAGCCGACAGATAATTAAAAACTTAATGT-----TTTTAA 98-180_non-RD_RD-Green_1 ATGTTTTCAAAAGCCGACAGATAATTAAAAACTTAATGT-----TTTTAA HP1_non-RD_RD-Red_1 AT-----CAAAAGCCGACAGATAATTAAAAACTTGGTGTAATG-TTTTAA 98-170_non-RD_RD-Green_1 ATGTTTTCAAAAGCCGACAGATAATTAAAAACTTAATGT-----TTTTAA 98-210_non-RD_RD-Green_1 ATGTTTTCAAAAGCCGACAGATAATTAAAAACTTAATGT-----TTTTAA 98-212_non-RD_RD-Green_1 ATGTTTTCAAAAGCCGACAGATAATTAAAAACTTAATGT-----TTTTAA 26695_non-RD_RD-Red_1 ATGTTTTCAAAAGCCGACAGATAATTAAAAACTTGGTGCAATGTTTTTAA 98-149_non-RD_RD-Green_1 ATGTTTTCAAAAGCCGACAGATAATTAAAAACTTAATGT-----TTTTAA 98-152-PreL1-RevComp AGGTTGGCANGACACAGAG------------------------------- * ** * * 98-151_non-RD_RD-Green_1 TCG 98-152_non-RD_RD-Green_1 TCG J99_non-RD_RD-Red_1 TCG J166_non-RD_RD-Green_1 TGC 98-150_non-RD_RD-Green_1 TCG 98-169_non-RD_RD-Green_1 TCG 98-171_non-RD_RD-Green_1 TCG 98-182_non-RD_RD-Green_1 TCG 98-147_non-RD_RD-Green_1 TCG 98-180_non-RD_RD-Green_1 TCG HP1_non-RD_RD-Red_1 TCG 98-170_non-RD_RD-Green_1 TCG 98-210_non-RD_RD-Green_1 TCG 98-212_non-RD_RD-Green_1 TCG 26695_non-RD_RD-Red_1 CCG 98-149_non-RD_RD-Green_1 TCG 98-152-PreL1-RevComp ---