CLUSTAL W --- LocARNA 1.4.8 - Local Alignment of RNA DroEre_CAF1_left TA-GTAATCATTGCCGACATCGGTCA-ACTCTGATGAACAAGAACAGCAACCAGGATGAAAGAATTCCCTA--GGTTTTCGAGATATATTCGACGGGAATTCTG-------C----CGGA DroMel_CAF1_left TA-GTATTCATTGCTGACATCGGTCA-AGAATGATGAAGAAGAACAGCAACCAGGATGAACGAATTCCTTG--GGTTCTCGAGAAACATTCGAAGGGAATTCTG-------T----CGAT DroSec_CAF1_left TA-GTATTCATTGCCGACATCGGTCA-AGAATGATGAACAAGAACAGCAACCAGGATGAACCAATTCCTTA--GGTTCTCGAGAAACATTCGTAGGGAAATCGG-------T----CGAT DroSim_CAF1_left TA-GTATTCATTGCCGACATCGGTCA-AGAATGATGAACAAGAACAGCAACCAGGATGAACGAATTCCTTA--GGTTCTCGAGAAACATTCGTAGGGAAATCTG-------T----CGAT DroYak_CAF1_left GG-TGATTTAGTAATCATTGCCGACATCGGTCAACTCTGATGAACAAG-ACCAGGGTAAAAGAATTCCCCA--GGTTTTCGAGGAACATTCGGGAGGAATTCTG-------G----CAAT DroWil_CAF1_left TGACGTCACAAATTGCTGTTGCAAAG-GCTTATC-ATACACACACATTAATATTCACATATTCATAAGATGATGCAGCTTTTTAAAGATGCAAGTCGATTGAATGAGACTGGTTTTTGGG DroEre_CAF1_left CCCC----TATCACATCCCATATTGTCTAGTGGTTAGGATATCCGGCTCTCACCCGGAAGGCCCGGGTTCAATTCCCGGTATGGGAAAATGGTGGAAATGTTTATTTTCTTTTGAGAAAC DroMel_CAF1_left CTGC----TATCACATCCCATATTGTCTAGTGGTTAGGATATCCGGCTCTCACCCGGAAGGCCCGGGTTCAATTCCCGGTATGGGAATATGGTG----AAGAAATATTCTTTTTAGAAAT DroSec_CAF1_left CTAT----TATCACATCCCATATTGTCTAGTGGTTAGGATATCCGGCTCTCACCCGGAAGGCCCGGGTTCAATTCCCGGTATGGGAATATGGTG----AAGAAATATTCTTTTTAGAAAC DroSim_CAF1_left CTAT----TATCACATCCCATATTGTCTAGTGGTTAGGATATCCGGCTCTCACCCGGAAGGCCCGGGTTCAATTCCCGGTATGGGAAAATGGTG----AAGAAATCTTCTTTTTAGAAAT DroYak_CAF1_left CCCC----TATCACATCCCATATTGTCTAGTGGTTAGGATATCCGGCTCTCACCCGGAAGGCCCGGGTTCAATTCCCGGTATGGGAAAGTAGTG----AAAATGTTTTCTTTTAAGAAAA DroWil_CAF1_left CTACAAAGATCCAAGTCCCATATTGTCTAGTGGTTAGGATATCCGGCTCTCACCCGGAAGGCCCGGGTTCGATTCCCGGTATGGGAAACTTTTT----T--TCCCTCGTATTATTATAGT DroEre_CAF1_left TTAAAATA-AAATTTA-TGT-AATTAATGATCTATTTGTAGACCCAAACATTTAT-AGC-TTTATACTCTCA-AAA---TTGCATTTTGTAATTTTTTTCTGTTAAA---TTACCGATCC DroMel_CAF1_left TTTCACTTTAATTA-T-ATTTATTTATTGGTCTATTTGTAGATCAAGAACAAAAAGGTA--A--AGCTTTAT-TCTTGATGAAAATTTGTAATTTTTTA---ATTATCAATTATCGTTAA DroSec_CAF1_left TTTTACTTTAATTT-A-ATTTATTTATTGGTCTATTTGTAGATCAAGAACAAGGG-GGT-TA--AGCTTTAT-ACTGTCAAAATGGAAATTTTTCTTTT---TAAATTGTCGAACTATTA DroSim_CAF1_left TTTTACTTTAATTT-T-ATTTATTTATTGGTCTATTTGTAGATCAAGAACAAAGA-TAT--T--AGCTTCTG-TCAAAATAGAAATTTGTAATTTGTTTTTTTTTTTTTATTGTCGTTAG DroYak_CAF1_left CA--------AGTT-A-TTTA--TTATTGATCTATTTGTAGATCCAAAGATAAGT-ACT-AA--AATGCTGC-AAATACTCTCAAACATGCATTTTGTT---AAAACGATCAAACGATCT DroWil_CAF1_left ATTATTTTTTTTGT-GCAGG--CGAATTTTGATATATATTTCACATTTTTTCCTA-GATCAGTAAT-CCTTAGTGGTCATGAGGTTAGATTTAGACTTTTGATAAGC---CAAGTGA-AA DroEre_CAF1_left AAATCGCTAGCCAACACTGGA--T DroMel_CAF1_left CCAAC---ACTGAATGCAAGAATG DroSec_CAF1_left TAATCGTTAGCCAACACT-GA--A DroSim_CAF1_left CCAAC---ACTGAATGCAAGA--A DroYak_CAF1_left TAATCGTTAGTCAA-CACTGG--A DroWil_CAF1_left AGTCA-TCTTAAATTTATATA--G