CLUSTAL W --- LocARNA 1.4.8 - Local Alignment of RNA DroAna_CAF1_left TT-TTTTTTCAAACTGTATGAGTGTGC---AG--GTG--TG-AGTGTGTATGTGTGA-CTGTGTGTGTGTGTGTGTGTGTGTGTTACAG-TGTTCACCACCTCACCTGATTCTTAAAGGT DroGri_CAF1_left AG-CGAG-AGAGCGAGAGAGAGAGAGA---GT--GAG--TG-AGCGAGTGCGTGCGT-GCGTGCGAGCGAGACAGACAGAGAAAGAAAGAATGACGTCACCTCACCCGATTCTCAAAGGT DroMoj_CAF1_left TG-AGTG-ATTGACTGAGTGTGCGTGT---GA--GTG--AG-CTAGCATGTGTGCAT-GGCTGTTAGTGTGTGAGCAAGAGCGAGTGAACCAGCTGTCACCTCACCCGATTCTCAAAGGT DroPer_CAF1_left GAGAGAG-AAAGAGAGAGAGAGAGAGA---GA--GAG--AG-AGAGAGAGAGAGAGA-GCGAACGAGAGAGAGTGCCAGAGAAAGCGAC-GTCACGATTCACCTCACGATTCTCAAAGGT DroPse_CAF1_left GCCAGGG-AAAGAGAGTGTATGCGAGA---GA--GAG--AG-AAAGAGAGAGAGAGA-GCGAACGAGAGAGAGTGCCAGAGAAAGCGAC-GTCACGATTCACCTCACGATTCTCAAAGGT DroVir_CAF1_left TG-TGAA-CGTGTGTGTGTGAGTGTGT---GT--GTG--TG-TGTGTGTGTGTGCAT-GAGTATGGCTGTGAGCGTGAGAGAGAAAGTACAAGATGTCACCTCACCCGATTCTCAAAGGT DroWil_CAF1_left TT-GAAT-GTCTAAGGCAAGAGAGAGA---GA--GAGCGAT-AGAGCGAGTGAATGTGGCGAATGTATGAGT--GGGAATGAGTGCGAGTG-GGAGGGAGCCTAACGAATTCTCAAAGGT DroEre_CAF1_left AG-AATG-AGAGAGAGAAAGAATGCCAGTGTGCTTGC--CA-AAGGAAAGCAA---T-AGTAATTAATGTTAA--GATTGGAAGAAGAGAAAAGTGTCACCTCACACGATTCTCAAAGGT DroMel_CAF1_left AG-AGAG-AGAGTATGCCAGTGTGTTT---GCTAAAG--AA-A-AGTAATAGTACTT-AATGTTGAGATTGAAA-AGAAAAAAATAGAGAAAAGTGTCACCTCACACGATTCTCAAAGGT DroSec_CAF1_left AG-TATG-CCAGTGTGTTTGCTAACGG---AAAGTAA--TA-ATAGTATTTAATGTT-GGGATTGCAAAAAAA--AAAAAAAAACAGAGAAAAGTGTCACCTCACACGATTCTCAAAGGT DroSim_CAF1_left AG-TATG-CCAGTGTGTTTGCTAACGG---AAAGTAA--TA-ATAGTACTTAATGTT-GGGATTGAAAAAAAA--AAAAAAAAACAGAGAAAAGTGTCACCTCACACGATTCTCAAAGGT DroYak_CAF1_left CC-AGTG-TGTGTTTTT--GCTAAAGG---AAAGTAA--TACATAGTAATTAATGTA-AAGATTGAAAAAAAAA-AAAAAAAAACAGAGAAAAGTGTCACCTTACACGATTCTCAAAGGT DroAna_CAF1_left AAATATCAGCTGGTAATTCTGGGAGCTATGCCTGAT--TATGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTCGAATTGCATTTTATCACCAAAAACTACCTAAAAAAAGCCGCAA DroGri_CAF1_left AAATATCAGCTGGTAATTCTGGGAGCAATGCCA-AA--TATGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTTATCACCAAATCG---CAAAAAAAACCCAAAA DroMoj_CAF1_left AAATATCAGCTGGTAATTCTGGGAGCAATGCCCA-A--TATGAAACACTCGGAATTTCAGTTGGTATATACTTTTTTGAATTGCATTTTATCACCAAAGCG---CAAACCAAA-AAAGAA DroPer_CAF1_left AAATATCAGCTGGTAATTCTGGGAGCTAAGCAA-GA--TATGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTTATCACCAAAGCG---CAAAGAAAA-ACACAA DroPse_CAF1_left AAATATCAGCTGGTAATTCTGGGAGCTAAGCAA-GA--TATGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTTATCACCAAAGCG---CAAAGAAAA-ACACAA DroVir_CAF1_left AAATATCAGCTGGTAATTCTGGGAGCAATGCCTAAA--TATGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTTATCACCAA-GCG---CAAAAAAAA-ATAACA DroWil_CAF1_left AAATATCAGCTGGTAATTCTGGGAGCTATGCCTAGATATTTGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTAATCACCAAAAAA---AAAAAACAA-AAAAAT DroEre_CAF1_left AAATATCAGCTGGTAATTCTGGGAGCTAAGCCTAAA--TATGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTGATCACCATAAGC---GCAACAAAC-CGAAAC DroMel_CAF1_left AAATATCAGCTGGTAATTCTGGGAGCTAAGCCTAAA--TATGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTGATCACCATAAGC---GCAACAAAA-CGAAAC DroSec_CAF1_left AAATATCAGCTGGTAATTCTGGGAGCTAAGCCTAAA--TATGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTGATCACCATAAGC---GCAACAAAC-CGAAAC DroSim_CAF1_left AAATATCAGCTGGTAATTCTGGGAGCTAAGCCTAAA--TATGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTGATCACCATAAGC---GCAACAAAC-CGAAAC DroYak_CAF1_left AAATATCAGCTGGTAATTCTGGGAGCTAAGCCTAAA--TATGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTGATCACCATAAGC---GCAACCAAC-CGAAAC DroAna_CAF1_left AAAAACCA---CCCAAAAAAACT----AAATAAAAATATTATTAAA---T--AATTTATTA-AAA-TA-AAAAACAA-AACGCACTTTACGGCACGT-GG-CAAAAAAA DroGri_CAF1_left AAAAACAA---AAGAAAAATCC-----AAAAAAAAAAAC-AAAAGA---A--AAATCCGAA-ATA-AA-CATAATAA-AAAAAA-AACACAAAAACT-AA-ATAAACAA DroMoj_CAF1_left CAAGAAAAG--CAAAGAGAAACTT---AAAAATAAAAAC-AACAAA---A--GAAATTGAA-ACA-AA-TCAAATCA-AAC----AAACAAACAAAATTA-AAAAAAAA DroPer_CAF1_left CAATAGAA---AGCAAAAAACCG----AAAGAAAAAAAC-AAAACA---AAAAAAATACTC-GCT-AATTCGCACCT-AC-----GGCACGTGGCTAAAAC-TGTATTG DroPse_CAF1_left CAATAGAA---AGCAAAAAACCG----AAAGAAAAAAAC-AAAAAC---A-AAAAATACTC-GCT-AATTCGCACCT-AC-----GGCACGTGGCTAAAACTGTATTGG DroVir_CAF1_left GAAGAATAA--TACAAATAAAATC---GAATCTGAAAAA-AAAAGA---A--AAACCAAAA-ACA-AA-ATAAAATT-AAA----AAAAAAAAAAAAAAA-GTACACAC DroWil_CAF1_left CAATCAAAAACAATAAAAATCGC----ACTTCACTTTAC-GGAACA---A--AAAAAA--A-AAA-AA-CAAACAAA-CAAAT--TAATTAAATTAAGTT-GAACATTT DroEre_CAF1_left CAA-ACAC---CACAAAAACAA-----AAAGCAATCAAC-ATAAAT---T--TGAAAATAAAAACACA-CAGAAAAGTACCAC--AAAAATGCAAAAAGA-AGGGAAAT DroMel_CAF1_left CAA-ACAC---CACAAAAAAGAAA---AAAACAATCAAC-ATCAATTTGC--AAAAAAAAA-AACACA-CAGAAAAG-T--AC--CACAGAAAT-ACAAA-AAAGAAGG DroSec_CAF1_left CAA-ACAC---CACAAAAAAAAGAGAAAAAACAATCGAC-ATTAAT---T--TGAAAATAA-AAAAAA-CAAAAACA-CATAG--AAAACTACCACAGAA-ATAC---A DroSim_CAF1_left CAA-ACAC---CACAAAAAAAAAA--AAAAACAATCGAC-ATCAAT---T--TGAAAACAA-AAA-AA-CAAAAACA-CATAG--AAAAGTACCACAGAA-ATACAAAA DroYak_CAF1_left CAA-ACAC---CACAAAAAACAAT--CAACATAAATTTG-AATAT----A--AATAACCAC-ACAGAA-AAGTACCA-CAAAA--ATACAAAAAAAAAAA-GAAAAAAG