CLUSTAL W --- LocARNA 1.4.8 - Local Alignment of RNA DroAna_CAF1_left GGATAGC-TC-------TCTTCATT---TCACTATTCGTGGA---GTATCCT--TGCGG----CCGGAGCC---ATAACAGACAGGACAACGGACAGATTAGATCG-A-A-CAATACGA- DroEre_CAF1_left TC------GT-------GGAGGATCTGAAAGCGAATAGCTGGAGCGCTAGCA--CCACAGG--ACAGACAGGACAAAAGGT-TACGCCAGACGAACTGGAAGTG-GAACT-GGGTT-TA- DroMel_CAF1_left CAA-TTC-GC-------GGAGGATCTGAAAGCGGAAATCTAA---GCTAACA--CCTCA----ACGGACAGGACACAGTGT-TAGGCCAGACGAACTGAATGTG-GAACTTGGGTT-TA- DroMoj_CAF1_left TGTATATAAC-------TTGACTGT---CGACGGATAGCTCT---CTTCATTTCGCTAT----T--CGCAG---AACTGAG--GGACAAAG-GA-CATAGGCAG-ACAGA-CAGTTATAT DroSec_CAF1_left ACAATTC-GC-------GGAGGATCTGAAAGTGGAAAGCTGG---GCTAGCA--CCTCA----ACGGACAGGACACAGGGT-TAGGCCAGACGAACTGGAAGTG-GAACT-GGGTT-TA- DroVir_CAF1_left ATAGCTC-TC-------TTCATTTC---GCTATTCGCAAGTT---TGGT-TAGCTTGAA----A--AAGCC---AAAGGAC--AATGGACA-TT-TTCCAGACA-GAAAA-CAGGT-TA- DroWil_CAF1_left TCGACGG-------------ATAGCTCTCTTCATTTCGCTATT-CGGATGCA--ATTTTGTGCAGGGGCAGGCCTAAAAAA-TAAGGCAAGTGAG-GTTAGCTG-GGA---GATTA-AC- DroYak_CAF1_left TCATTTC-ACTATTCGTGGGGGATCTGAAAGCGGAAAGCTGAAGTGCTAGCG--CCTCAGG--ACAGACAGGACAAGAGGT-TAGGCCAGACAAGCTGGGTTTA---------------- DroGri_CAF1_left TTT-CGC-TA-------TTCGTAA-----TTTGTTGTGAAACT-TAAAAGCC--GCAAAGC--TTTGAAAGGACAACA--------------GACAATTTATTTCAGACA-GAGGA-CA- DroAna_CAF1_left -TATTAGTGG-G-TGT--TAGTGATCGGAGCGAAGCGTCGAATATTATACAAAGAGAGCAATTCCATGACAGTGTTAT----AGGTATCTGGACTGTCGACGGACAGCTCTCTTTATTCA DroEre_CAF1_left -GTGGTTTGGTTAGTC----AGCCTCATAGTGCATCGTCGAATATTATACAAAGAGAGCAATTCCATGACAGTGATATTAAATGGTTTCTGGACTGTCGACGGACAGCTCTCTTTATTCA DroMel_CAF1_left -GTCGTTTGGTTAGTCTCATTGCCTCACAGCGCATCGTCGAATATTATACAAAGAGAGCAATTCCATGACAGTGATATTAAATAGTTTCTGGACTGTCGACGGACAGCTCTCTTTATTCA DroMoj_CAF1_left CGGTTAATCGGG--GT----TAG---TTTGGGCAACGTCGAATATCATACAAAGAGAGCAATTCCATGACAGTTTTACAA--TCTTTACTGGACTGTCGACGGACAGCTCTCTTTATTCA DroSec_CAF1_left -GTGGTTGGGTTAGTCTCATTGCATCACAGCGCATCGTCGAATATTATACAAAGAGAGCAATTCCATGACAGTGATATTAAATGGTTTCTGGACTGTCGACGGACAGCTCTCTTTATTCA DroVir_CAF1_left -TATGGTGTTAGATTC----GGTTAGTTTGGGCAACGTCGAATATCATACAAAGAGAGCAATTCCATGACAGTATTACAT--TTGTTACTGGACTGTCGACGGACAGCTCTCTTTATTCA DroWil_CAF1_left -TGGGGGTGGGGTTAG----TTTTACTTTGGGTCACGTCGAATATCATACAAAGAGAGCAATTCCATGACAGTTTTAAAATCGTTTAACTGGACTGTCGACGGACAGCTCTCTTTATTCA DroYak_CAF1_left -GTGGTTAGGTTAGTC----AGCCTCATAGCGCATCGTCGAATATTATACAAAGAGAGCAATTCCATGACAGTGATATTAAATGAATTCTGGACTGTCGACGGACAGCTCTCTTTATTCA DroGri_CAF1_left -AGGTCAAT--TTGT-----TAGTTGTTCGGGCAACGTCGAATATCATACAAAGAGAGCAATTCCATGACAGTATTAA--AATTTATACTGGACTGTCGACGGACAGCTCTCTTTATTCA DroAna_CAF1_left CGTATTCGCATTCGA-GATA--GTCT-AG-------GTGTTAATCAAACA-TT-GAAGGT-------G-A--GGGG-GGACGG-CACAAAATACGT--ACGGATA--CGTAT---A-CT- DroEre_CAF1_left CTTATTCGCATATGT-ATTCGATTCG-ATTA-----GACTCGTTCTAGGT-GT-TAATCA-------G-A--CATT-CAATGAGGACGGCACAAAA--ATACAGA--TACCT---C-T-- DroMel_CAF1_left CTTATTCGCATTTGG-ATTCGATTTG-----------GTTCGTTCTAGGT-GT-TAATCA-------G-A--CATT-CAATGTGGACAGCACAGATACATACAGA--TACCT---A-TAT DroMoj_CAF1_left CTTATTCGCATTTTCGCTACGATTTCAATTG-----TTAATCAACATATA-GA-CAACAC-------AAA--CTAT--AATAAATACAGTAGACTG--CTCATAA--GAGCA---T-CA- DroSec_CAF1_left CTTATTCGCATTTGG-ATTCGATTCT-AG-------GTGTTAATCAGACA-TT-CAATGA-------G-G--ACGG-CACAGATACATACAGATAT--ACCTATA--TATTA---T-AA- DroVir_CAF1_left CTTATTCGCTTTTGG-GTACGATTTG-ATGG-----TTATTGAACATTTA-GTTCAGCGG-------GGA--CGGC-ACACAAACATTGAGCAAGT--AGTAAGA--ATGTT---G-TA- DroWil_CAF1_left CTTATTCGCTTTTTC-TTAT-AGTGT-AA-------TAAGTATTTATATT-GT-TAAATT-------T-A--AAAAGAATAAC------GACAAAAAAATAACGA--AAATGGGAC-AT- DroYak_CAF1_left CTTATTCGCATATGG-ATTCGATTCG-ATTCGACTCGACTTGTTCTAGGT-GT-TAATCA-------G-A--CATT-CAATGAGGACGGCACAAGA--ATACAGAATATAAA---A-AT- DroGri_CAF1_left CTTATTCGCTTTTCA-TAATTTCTCT-CG-------TTCTGATTCAGTGGGGT-TAATCAACATTTAATTGGGGGA-CAGACAACAGGACACATCA--C--ATCA--CGAAC---AGTT- DroAna_CAF1_left ATAC--GCACCACTGG-GGTG-GTGTATAGATATTTT DroEre_CAF1_left ACTA--TAAACGCTTTCTGTATATCGTATGTATCTAC DroMel_CAF1_left ACTATATAAATGCTTTCCACACATTGTACAT-ACATA DroMoj_CAF1_left AGAA--A--ATGCCCTAATTTGAATATACTCTTTAGT DroSec_CAF1_left ACGC--TTTCCACATATTGCACA-TATGTACATTTGT DroVir_CAF1_left GCCG--G--AAAAAACCGACTGCA-CGATACCCTGTT DroWil_CAF1_left ATAC--GAATCACAAA-AATA-AGCTAAATATTTGTC DroYak_CAF1_left ---------ACCTATACTATA-AACGCCTCCTATATA DroGri_CAF1_left ACCAAAAAAAAGAATGTATTTGTAGGCTAATGTTTGC