CLUSTAL W --- LocARNA 1.4.8 - Local Alignment of RNA DroMoj_CAF1_left AG---AT---------ATAC-TCA--CAG---CATCTATTCTCTCTAC-TTTAAAGGCGAAAAAACACTAGAGAAATAAAT---------ATATATAC--ACT-TATAAA-TATTCACAT DroVir_CAF1_left AC---AG---------CGTC-TATTCTCT---CTACTTTAAAGGCTATAAACAGATAACTGGGCGATATAGTTTTAAGTCT---------ATATAGAC--ATG-GA--TA-TAGAT-CGT DroAna_CAF1_left TG---AT---------ATAGATTTTGA---AACTTACAGCACAGCCAC-TATTCTCTCTACTTTAAAGGCGGGTATC-----------CTGCGAGTCCTGTCA-C--CTAACTCGT-TAT DroEre_CAF1_left AT---AT---------ATTA--A---------CTTACAGCACGGCAAC-TATTCCCTCTACTTTAAAGGCTGCGATTTAGCTA-AGTAAGCTGGCAAC--TTT-G--GCT-TTCAT-TTC DroGri_CAF1_left AC---TA---------ATTC--AT--------CAACTTTATCAGAAGC-TGTATACTTTTCATACC-GGAAACG--GAAGCAC-TGTAAGCACTCTTC--ACTAG--TTA-TTCAA-CAC DroMel_CAF1_left GT---AT---------ATTA--A---------CTTACAGCACAGCAAC-TATTCCCTCTACATTAAAGGCTGTGATTAAGTTTAAGTAAGCTGCCAAC--TTT-G--ACT-TTCAT-TTT DroPer_CAF1_left GA---TA---------TATA-GAGTCGAAGGACATATAGCACAGCAAC-TATTCTCTCTACTTCAAAGGCTGGT-GT-----------GGTCTCCATCGCTGA-G--TGT-TTCGT-TTC DroPse_CAF1_left GA---TA---------TATA-GAGTCGAAGGACATATAGCACAGCAAC-TATTCTCTCTACTTCAAAGGCTGGT-GT-----------GGTCTCCACCGCTGA-G--CGT-TTCGT-TTC DroSec_CAF1_left ATGGTAT---------ATTA--A---------CTTACAGCACAGCAAC-TATTCCCTCTACTTTAAAGGCTGTGATTAAGTTT-AGTAAGCTGCCAAC--T-T-G--GCT-T-AAT-TTT DroSim_CAF1_left CG-GTAT---------ATAA--A---------CTTACAGCACAGCAAC-TATTCCCTCTACTTTAAAGGCTGTGATTAAGTTT-AGTAAGCTGCCAAC--T-T-G--GCT-TTCAT-TTT DroWil_CAF1_left AT---ATGAAATTGAAAAGG--G---------CATAAAACACAGCAAC-TATTCTCTCTACTTTAAAGGCTGGTTGAAAACCA-CTTGA--------A--AAC-T--TTG-CTGGA-TAT DroYak_CAF1_left TT--GTT---------ATTA--A---------CTTACAGCACAGCAAC-TATTCCCTCTACGTTAAAGGCTGTGATTAAACTT-AGTGAGATGCCGAC--TTT-G--GCT-TTCAT-TTC DroMoj_CAF1_left TC---ATATTGTAGTCTGGGGGACTGCACGCGCTATAAAGGAAAATCACTGTGATATGTAACGGTC-G-AT-TAACGCATATCACAACGATCGTTCCTTTTAGCGCATGGCCCATTCA-- DroVir_CAF1_left AT---GTGGTGTTGCTTTACGGGCTGCACGCGCTATAAAGGAAAATCACTGTGATATGTAACGGTT-A-AT-GAACGCATATCACAACGATCGTTCCTTTTAGAGCATGACCCAATTT-- DroAna_CAF1_left TT--TTGATGCATTTTGGACA-ACTGCATGCGTTATAAAGGAAAATCACTGTGATATGTAACGAGG-G-AT-AAACGCATATCACAACGATCGTTCCTTTTAGCGAATGGTCCTTAGA-- DroEre_CAF1_left CC-ATTGATGAGTTTTGGACTTTTTACATGCGTTATAAAGGAAAATCACTGTGATATGTTAGG----G-AA-CAACGCATATCACAACGATCGTTCCTTTTAGCGAACGGCCCGTCAA-- DroGri_CAF1_left TGGTTAGTTGAGTTTTGG--GCAGAGCACGCGCTATAAAGGAAAATCACTGTGATATGTAACGATTTA-AT-GAACGCATATCACAACGATCGTTCCTTTTAGCGAGTGACCCATAAC-- DroMel_CAF1_left CC--TTGATGAGTTGTGGACTTTAAACATGCGTTATAAAGGAAAATCACTGTGATATGTTAGG----A-AA-CAACTCATATCACAACGATCGTTCCTTTTAGCGAATGGCCCGATGA-- DroPer_CAF1_left CC--ATGTGTGGCTGTGGGCG-CAGACATGCGCTATAAAGGAAAATCACTGTGATATGTAACGGTG-A-AT-TAACGCATATCACAACGATCGTTCCTTTTAGCGTATGGCCCCTAGG-- DroPse_CAF1_left CC--ATGTGTGGCTGTGGGCG-CAGACATGCGCTATAAAGGAAAATCACTGTGATATGTAACGGTG-A-AT-TAACGCATATCACAACGATCGTTCCTTTTAGCGTATGGCCCCTAGG-- DroSec_CAF1_left CC--TTGATGAATTGTGGACTTTAAACATGCGTTATAAAGGAAAATCACTGTGATATGTTCGG----G-AA-CAACTCATATCACAACGATCGTTCCTTTTAGCGAATGGCCCGATGA-- DroSim_CAF1_left CC--TTGATGAATTGTGGACTTTTAACATGCGATATAAAGGAAAATCACTGTGATATGTTG-G----G-AA-CAACTCATATCACAACGATCGTTCCTTTTAGCGAATGGCCCGATGA-- DroWil_CAF1_left TG--TTGATATATTGGACAGAACATGCATGCGCTATAAAGGAAAATCACTGTGATATATAACGGT--GAATCTAACGCATATCACAACGATCGTTCCTTTTAGCGAATGGCCCAGAAAAA DroYak_CAF1_left CC--TTGATGAGTTGTGGACTTTGTACATGCGTTATAAAGGAAAATCACTGTGATATGTTAGG----G-AA-TAACGCATATCACAACGATCGTTCCTTTTAGCGAACGGCCCGTTAA-- DroMoj_CAF1_left -TCGAGTTTGCA-TTTTG-AACTTTC-ATAAAAAC--TTTT--C-----ATAGATGTATATATATATATTATATATAGGC--GC----------TGCT-TATGCC---ACAACGAACTTC DroVir_CAF1_left -A-TATATAGTA-TACGA-GA-ATAT-CAGATATA--TATA--T-----GGTCAGATTA---TAGCCGCTGC-TTATGCC--AC----------AACG-AA--CT---TCAATGGTTGTC DroAna_CAF1_left -A-TATTTTACATTTTTT-TTCGA-A-TA--GTCA--CATT--T--GA-AATTCTTGTT---AATAAGCGCC-GCAATTGCCACAACGAACTTCAATGGTTGTCTAGCTTTATG------ DroEre_CAF1_left -A-TTAGGGGAT-CACTT-AACTGGA-TT--TGCT--AACT--C--TT-GGTGCTGCTG---ATGCCACAAC-GAACTTC--------------AATGGTTGTCTAGCTTTATGATCAG- DroGri_CAF1_left -G-ACTTTAACA-CATAT-ATCAGGA-AT--ATTATATACACTATATA-ATCGCTGCGT---ATGCCACAAC-GAACTTC--------------AATGGTTGTCTAGCTTTATGATCAG- DroMel_CAF1_left -A-TTTGGGGAT-CACTT-AACATAA-TT--TCTT--GACT--C--GT-GGTGCTGCTA---ATGCCACAAC-GAACTTC--------------AATGGTTGTCTAGCTTTATGACCGG- DroPer_CAF1_left -A-AGTTGGGAGCTAATC-AATGACA-CT--GGGA--TGGA--T--GT-GAGGGTGGGT---ATGGGTGTTG-GTGTTGGTGTG-GGTGTGGTTGTGGTAGGTAGTGCTGCAAA------ DroPse_CAF1_left -A-AGTTGGGAACTAATC-AATGACA-CT--GGGA--TGGA--T--GT-GAGGGTGGGT---GTGGGTGTTG-GTGTGGGTGTG-------GTTGTGGTAGGTAGTGCTGCAAA------ DroSec_CAF1_left -A-TTTGGGGAT-CACTT-AACTTGA-TT--TCCT--GACT--T--GT-GGTGCTGCTA---ATGCCACAAC-GAACTTC--------------AATGGTTGTCTAGCTTTATGATCGG- DroSim_CAF1_left -A-TTTGGTGAT-AACTT-AACTTGA-TT--TCTT--GACT--T--GT-GGTGCTGCTA---ATGCCACAAC-GAACTTC--------------AATGGTTGTCTAGCTTTATGATCGG- DroWil_CAF1_left AA-CGACGATGA-AACTTGAACTTTGCTA--TTGA--TGTC--CTTAA-ACTGGCGATA---ATGCCACAAC-GAACTTC--------------AATGGTTGTCTAGCTTTATGATCAG- DroYak_CAF1_left -A-TTGGGGGAA-CACTT-AACTCGA-TT--TCTT--GACCCGT--AATGGTGCTGCTA---ATGCCACAAC-GAACTTC--------------AATGGTTGTCTAGCTTTATGATCAG- DroMoj_CAF1_left AATGGTTGTCTAGCTTTA DroVir_CAF1_left TAGCTTTATGATCAGAGA DroAna_CAF1_left --------ATCAG-AGAA DroEre_CAF1_left AAAAGTCACCTAAGGCTG DroGri_CAF1_left AGAAATCACCTAA----G DroMel_CAF1_left AAAAATCACCTAAGGCTG DroPer_CAF1_left -TGCCACAAC-------G DroPse_CAF1_left -TGCCACAACGAA-CTTC DroSec_CAF1_left AAAAGTCACCTAAGGCTG DroSim_CAF1_left AAAAGTCACCTAAGGCTG DroWil_CAF1_left AGAAATCACCT------A DroYak_CAF1_left AAAAGTCACCTAAG---G