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/home/cluster1/data/bu01/1121861/jlex/rdloci/alignments/igrs.aln
CLUSTAL W (1.83) multiple sequence alignment J99_non-RD_RD-Red_1 -------------------------------------------------- M-00-14_non-RD_RD-Red-Long_2 -------------------------------------------------- 26695_non-RD_RD-Red_1 -------------------------------------------------- M-00-14_non-RD_RD-Red_1 -------------------------------------------------- M-00-14_non-RD_RD-Green_2 -------------------------------------------------- J99_non-RD_RD-Green_2 -------------------------------------------------- 26695_non-RD_RD-Red_2 -------------------------------------------------- J99_RD-Red_non-RD_1 -------------------------------------------------- 26695_RD-Red_non-RD_1 -------------------------------------------------- 26695_RD-Green_RD-Red_1 -------------------------------------------------- 26695_RD-Red_RD-Red_2 -------------------------------------------------- 26695_RD-Red_RD-Green_1 -------------------------------------------------- J99_RD-Green_non-RD_2 -------------------------------------------------- 26695_RD-Red_Post-RD_2 AATCTTTGTAAAAAACCCACCAACTGATCTGATTATATTTGTAATGGCAT M-00-14_non-RD_RD-Red-Short_2 -------------------------------------------------- J99_non-RD_RD-Red_1 -------------------------------------------------- M-00-14_non-RD_RD-Red-Long_2 -------------------------------------------------- 26695_non-RD_RD-Red_1 -------------------------------------------------- M-00-14_non-RD_RD-Red_1 -------------------------------------------------- M-00-14_non-RD_RD-Green_2 -------------------------------------------------- J99_non-RD_RD-Green_2 -------------------------------------------------- 26695_non-RD_RD-Red_2 -------------------------------------------------- J99_RD-Red_non-RD_1 -------------------------------------------------- 26695_RD-Red_non-RD_1 -------------------------------------------------- 26695_RD-Green_RD-Red_1 -------------------------------------------------- 26695_RD-Red_RD-Red_2 -------------------------------------------------- 26695_RD-Red_RD-Green_1 -------------------------------------------------- J99_RD-Green_non-RD_2 -------------------------------------------------- 26695_RD-Red_Post-RD_2 TCGCTTGTTTAAAATGAGTCTCTTTATTTGCCTTTGCGTTASTGTCTCTG M-00-14_non-RD_RD-Red-Short_2 -------------------------------------------------- J99_non-RD_RD-Red_1 -------------------------------------------------- M-00-14_non-RD_RD-Red-Long_2 -------------------------------------------------- 26695_non-RD_RD-Red_1 -------------------------------------------------- M-00-14_non-RD_RD-Red_1 -------------------------------------------------- M-00-14_non-RD_RD-Green_2 -------------------------------------------------- J99_non-RD_RD-Green_2 -------------------------------------------------- 26695_non-RD_RD-Red_2 -------------------------------------------------- J99_RD-Red_non-RD_1 -------------------------------------------------- 26695_RD-Red_non-RD_1 -------------------------------------------------- 26695_RD-Green_RD-Red_1 -------------------------------------------------- 26695_RD-Red_RD-Red_2 -------------------------------------------------- 26695_RD-Red_RD-Green_1 -------------------------------------------------- J99_RD-Green_non-RD_2 -------------------------TTAAATCCTTTCAAAAAACAAT-CT 26695_RD-Red_Post-RD_2 CGTTTTTGCCAACTTTATTTGTTTTTCCTGTTTTTACTGATTCCATTACC M-00-14_non-RD_RD-Red-Short_2 -------------------------------------------------- J99_non-RD_RD-Red_1 -------------------------------------------------- M-00-14_non-RD_RD-Red-Long_2 -------------------------------------------------- 26695_non-RD_RD-Red_1 -------------------------------------------------- M-00-14_non-RD_RD-Red_1 -------------------------------------------------- M-00-14_non-RD_RD-Green_2 -------------------------------------------------- J99_non-RD_RD-Green_2 -------------------------------------------------- 26695_non-RD_RD-Red_2 -------------------------------------------------- J99_RD-Red_non-RD_1 -------------------------------------------------- 26695_RD-Red_non-RD_1 -------------------------------------------------- 26695_RD-Green_RD-Red_1 -------------------------------------------------- 26695_RD-Red_RD-Red_2 ------------TGTTAATAAAGAAATAGAAGCAGTTGCTAATACTGAAA 26695_RD-Red_RD-Green_1 -------------------------------------------------- J99_RD-Green_non-RD_2 TACCCATCAAAATCTTATTTTTGTAGTATATATAGTCATATTTAATCGCT 26695_RD-Red_Post-RD_2 AACCTTTCAAAATCTTATTATTGTAGTATATATAGCCATATTTAATCGCT M-00-14_non-RD_RD-Red-Short_2 -------------------------------------------------- J99_non-RD_RD-Red_1 -------------------------------------------------- M-00-14_non-RD_RD-Red-Long_2 -------------------------------------------------- 26695_non-RD_RD-Red_1 -------------------------------------------------- M-00-14_non-RD_RD-Red_1 -------------------------------------------------- M-00-14_non-RD_RD-Green_2 -------------------------------------------------- J99_non-RD_RD-Green_2 -------------------------------------------------- 26695_non-RD_RD-Red_2 -------------------------------------------------- J99_RD-Red_non-RD_1 -------------------------------------------------- 26695_RD-Red_non-RD_1 -------------------------------------------------- 26695_RD-Green_RD-Red_1 -------------------------------------------GGCATAA 26695_RD-Red_RD-Red_2 AGAAAGCAGAAAAAGCGGGTTATGGTTATAGTAAAAGGATGTAGGCATAA 26695_RD-Red_RD-Green_1 --------------------------------------------GCATAA J99_RD-Green_non-RD_2 ATTAAACGATTGGTTTGAAAAATTGTGAGGGTCAATCCAATCAGATTTTT 26695_RD-Red_Post-RD_2 ATTAAACGATTGGTTTGAAAAATTGTAAGGGTCAATCCAATCAGATTTTT M-00-14_non-RD_RD-Red-Short_2 -------------------------------------------------- J99_non-RD_RD-Red_1 -------------------------------------------------- M-00-14_non-RD_RD-Red-Long_2 -------------------------------------------------- 26695_non-RD_RD-Red_1 -------------------------------------------------- M-00-14_non-RD_RD-Red_1 -------------------------------AGACGCTAAG---GAA-CT M-00-14_non-RD_RD-Green_2 -------------------------------GGACGCTAAG---GAAACT J99_non-RD_RD-Green_2 -----------------------------AGATCCGCTAAAATTAAAACT 26695_non-RD_RD-Red_2 ------------------------------GATCCGCTAAATTTAAAACC J99_RD-Red_non-RD_1 -------------------------------------------------- 26695_RD-Red_non-RD_1 -------------------------------------------------- 26695_RD-Green_RD-Red_1 GAAAATAAGAACACCATAAAATCGTTTTTAGCTTCTAGGAGACATCAGTC 26695_RD-Red_RD-Red_2 GAAAATAAGAACACCATAAAATCGTTTTTAGCTTCTAGGAGACATCAGTC 26695_RD-Red_RD-Green_1 GAAAATAAGAACACCATAAAATCGTTTTTAGCTTCTAGGAGACATCAGTC J99_RD-Green_non-RD_2 CTAATCCATTCCAATAAAACTTGATACAAGTCTGCCTTGATACCCAAATT 26695_RD-Red_Post-RD_2 CTAATCCATTCCAACAAAACTTGATACAAGTTTTCCTTATACCTTAAACT M-00-14_non-RD_RD-Red-Short_2 ------------------------------------------------CG J99_non-RD_RD-Red_1 ----------------------------------CCTCCAT---AGGTAA M-00-14_non-RD_RD-Red-Long_2 --------------------------------------CTT---GGGTTA 26695_non-RD_RD-Red_1 --------------------------------------------CCTCCA M-00-14_non-RD_RD-Red_1 CTCTCTTT-ATAA-GAGAGAGGTATAAAAATCATTCTTCATAATAAAACA M-00-14_non-RD_RD-Green_2 CTCTCTTTTATAAAGAGAGAGGTATAAAAATCATTCTTCATAATAAAACA J99_non-RD_RD-Green_2 CTCTCTTTTAAAA-GAGGGAGGTA--AAAATCATTCTTTAT---AAAACA 26695_non-RD_RD-Red_2 CCCTCTTTTAAAA-GAGGGAGGTA--AAAATCATTCTTCAT---AAAACG J99_RD-Red_non-RD_1 ---------------------------TTACCAACCTTTTTTCAAAAAAC 26695_RD-Red_non-RD_1 ----------------------------TACCAACCTTTYTTTAAMAAAC 26695_RD-Green_RD-Red_1 AGTTTCTTGCCATAGAAAAATCGCTTATTAGCTTGCTCCCTTTAAAAGGG 26695_RD-Red_RD-Red_2 AGTTTCTTGCCATAGAAAAATCGCTTATTAGCTTGCTCCCTTTAAAAGGG 26695_RD-Red_RD-Green_1 AGTTTCTTGCCATAGAAAAATCGCTTATTAGCTTGCTCCCTTTAAAAGGG J99_RD-Green_non-RD_2 CACACCCTTTTAAAGGGAA--TAATAGGTAATAACTCGCTAGCTAAACAT 26695_RD-Red_Post-RD_2 CACACCCTTTTAAAGGGAA--TAATAAGTAATAACTCGCTAGCTAAACAT M-00-14_non-RD_RD-Red-Short_2 TATTCTTTTGTGGTATTTTAGCAAAATCGAATAAATACCAT---AAAATT J99_non-RD_RD-Red_1 CC-CATAGT--TTTACCT-----TACTTTAGGGGTAGTTTAAGCTTTTAA M-00-14_non-RD_RD-Red-Long_2 CCTCCTAGTAGTTTACCT-----TACTTTAGGGATAGTT-AAGCTTTTAA 26695_non-RD_RD-Red_1 TTTGTAAGT--TTTACCT-----TACTTTAGGGATAGCTTAAGCTTTTAA M-00-14_non-RD_RD-Red_1 ACCCCATAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAACGCTAAA M-00-14_non-RD_RD-Green_2 ACGCCAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAACGCTAAA J99_non-RD_RD-Green_2 CCGCTAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAACGCTAAA 26695_non-RD_RD-Red_2 CCACTAAAAATTGCAACCGCTTGTATTTTGTGAAACGCTCAAACGCTAAA J99_RD-Red_non-RD_1 ----AATCTTACCCATCAAAA----CTATATCAAT--GGAAACTAATACG 26695_RD-Red_non-RD_1 ----AATCTTACTTTWCAAAA----TYATATCA-T--GGAAACTAATACG 26695_RD-Green_RD-Red_1 TGTGAGTTTAAGGTATAAGGAAAACTTGTATCAAG--TTTTATTGGAATG 26695_RD-Red_RD-Red_2 TGTGAGTTTAAGGTATAAGGAAA-CTTGTATCAAG--TTTTATTGGAATG 26695_RD-Red_RD-Green_1 TGTGAGTTTAAGGTATAAGGAAAACTTGTATCAAG--TTTTATTGGAATG J99_RD-Green_non-RD_2 T--CACTCTCTGCTTGAGTGTAAGCCTTTATCATTCCTTTTGACCTACCA 26695_RD-Red_Post-RD_2 T--CACTCTCTGCTTGAGTGTAAGCCTTTATCATTCCTTTTGACCTACCA M-00-14_non-RD_RD-Red-Short_2 TCCGAGGTACAATGGGTTAATCTTGTCTTGGAAAAAATTTGAAGAATCAT * J99_non-RD_RD-Red_1 ----ATAAGGATCTCTTTTA-----TTGTCAAATAACGCTACCATAA--- M-00-14_non-RD_RD-Red-Long_2 ----ATAAGAATCCCTTTTA-----TTACCAAATAACGCTACCATAA--- 26695_non-RD_RD-Red_1 ----ATAAGGATCTCTTTTA-----TTGCCAAATAACGCTACCATAA--- M-00-14_non-RD_RD-Red_1 GACGATTGGAATTCCTACTAAGGAGTTTAAAAAAGGCTCTGTTCTAATTG M-00-14_non-RD_RD-Green_2 GACGATTGGAATTCCTACTAAGGAGTTTAAAAAAGGCTCTGTTCTAATTG J99_non-RD_RD-Green_2 AATGATTAGGATTCCTACTAAGGAGTTTAAAAAAGGCTCTATTCTAATTG 26695_non-RD_RD-Red_2 GACGATTGGGATTCCTACTAAGGAGTTTAAAAAAGGCTCTGTTCTAACTG J99_RD-Red_non-RD_1 AAAAAATCCACTCAAGTTAGATCAACCCCTTTATTA-------------- 26695_RD-Red_non-RD_1 AAAAA-TCCACTCAAGTTAGATTGATTTATTTATTA-------------- 26695_RD-Green_RD-Red_1 GATTAGAAAAATCTGATTGGATTGACCCTTACAATTTTTCAAACCAATCG 26695_RD-Red_RD-Red_2 GATTAGAAAAATCTGATTGGATTGACCCTTACAATTTTTCAAACCAATCG 26695_RD-Red_RD-Green_1 GATTAGAAAAATCTGATTGGATTGACCCTTACAATTTTTCAAACCAATCG J99_RD-Green_non-RD_2 AATTATTAGCATTCCTCTCAATCAAGCCTTGAGAAATTCAATTACACCCT 26695_RD-Red_Post-RD_2 AAT-ATTAGCATTTCTCTCAATCAAGCCTTGAGAAATTCAATTACACCCT M-00-14_non-RD_RD-Red-Short_2 CCTTAGGGTTAGCAGAAATCGCAAACTCGCAAAGTGTTTTATGTTCGCCA * J99_non-RD_RD-Red_1 ------AAAATGATCTCAAAAGCCGACAGATAA-TTAAAAAC---TTAAT M-00-14_non-RD_RD-Red-Long_2 ------AAAAT-----CAAAAGCCGACAGATAA-TTAAAAAC---TTGGT 26695_non-RD_RD-Red_1 ------AAAATGTTTTCAAAAGCCGACAGATAA-TTAAAAAC---TTGGT M-00-14_non-RD_RD-Red_1 GGTAACATAGAGTTTTTAAAATACCATAAATAAGCTAAAAACGATTTTAT M-00-14_non-RD_RD-Green_2 GGTAACATAGAGTTTTTAAAATACCATAAATAAGCTAAAAACGATTTTAT J99_non-RD_RD-Green_2 GGTAATATAGAGTCTTTAAAATACCATAAATAAGCTAAAAACGATTTTAT 26695_non-RD_RD-Red_2 GGTAACATAGAGTTTTTAAAATACTATAAATAAGCTAAGAACGATTTTAT J99_RD-Red_non-RD_1 -------------------------------------------------- 26695_RD-Red_non-RD_1 -------------------------------------------------- 26695_RD-Green_RD-Red_1 TTTAATAGCGATTAAATATGRCTATATACACTACAACAATA-AGATTTTG 26695_RD-Red_RD-Red_2 TTTAATAGCGATTAAATATGACTATATACACTACAACAATA-AGATTTTG 26695_RD-Red_RD-Green_1 TTTAATAGCGATTAAATATGGCTATATATACTACAATAATA-AGATTTTG J99_RD-Green_non-RD_2 TGTTTAACATCGTAAGTCTAGTAACTTAAAGCTCTTTTTTAGAGATTGGG 26695_RD-Red_Post-RD_2 TGTTTAACATCGCAAGCCTAGTAACTTAAAGCTCTTCTTTAGAGATTGGG M-00-14_non-RD_RD-Red-Short_2 ACGTTAAAAATCGCAACAAAATACTTCTTACTAAAAATATGGAGAGAGAA J99_non-RD_RD-Red_1 GT-----TTTTAATCG---------------------------------- M-00-14_non-RD_RD-Red-Long_2 GTAATG-TTTTAATCG---------------------------------- 26695_non-RD_RD-Red_1 GCAATGTTTTTAACCG---------------------------------- M-00-14_non-RD_RD-Red_1 GGTGTT--CTTATGC----------------------------------- M-00-14_non-RD_RD-Green_2 GGTGTT--CTTATGC----------------------------------- J99_non-RD_RD-Green_2 GGTGTTTTCTTATGCC---------------------------------- 26695_non-RD_RD-Red_2 GGTGTTTTCTTATGC----------------------------------- J99_RD-Red_non-RD_1 -------------------------------------------------- 26695_RD-Red_non-RD_1 -------------------------------------------------- 26695_RD-Green_RD-Red_1 AAAGGTTGGTA--------------------------------------- 26695_RD-Red_RD-Red_2 AAAGGTTGGTA--------------------------------------- 26695_RD-Red_RD-Green_1 AAAAGTGAGATTGTTTTTTGAAAGGATTTAA------------------- J99_RD-Green_non-RD_2 TTAGATTGATCCTTATCCTTAATTCAAGTGCATGCACATTCATCTTTGTT 26695_RD-Red_Post-RD_2 CTAGATTGATCCTTATCCTTAATTCAAGCGCATGCACATTCATCTTTGTT M-00-14_non-RD_RD-Red-Short_2 ATATTTCTCTCTCAAAG--------------------------------- J99_non-RD_RD-Red_1 -------------- M-00-14_non-RD_RD-Red-Long_2 -------------- 26695_non-RD_RD-Red_1 -------------- M-00-14_non-RD_RD-Red_1 -------------- M-00-14_non-RD_RD-Green_2 -------------- J99_non-RD_RD-Green_2 -------------- 26695_non-RD_RD-Red_2 -------------- J99_RD-Red_non-RD_1 -------------- 26695_RD-Red_non-RD_1 -------------- 26695_RD-Green_RD-Red_1 -------------- 26695_RD-Red_RD-Red_2 -------------- 26695_RD-Red_RD-Green_1 -------------- J99_RD-Green_non-RD_2 ATCTTTAAGCAAGC 26695_RD-Red_Post-RD_2 ATCTTTGAATAAAC M-00-14_non-RD_RD-Red-Short_2 --------------