CLUSTAL W --- LocARNA 1.4.8 - Local Alignment of RNA DroAna_CAF1_left ATT-TTGAA-GATTAATATCGAAAACCCTG--ATATTCAAGTAAAATTCCCAACTAGTTCAGACAATGTGCTGAAGGAAACCCTCTACCTGAGCAGGAGAAAGCATACTTACCTGGCGTA DroGri_CAF1_left GCC-TACTT-TCAGGGTCCTGTGCATACCT--TCTATCCCAAGTAATTCCCAAGTGGTTCTAGCAGTGTGGCCATGGTAGTTCAGTTGCCGAGCTGAGAAAAGCATACTTACCTGGCGTA DroMel_CAF1_left TGC-CTACA-TTGCACTCCTTGCACTCACA--TACAGTGCCTATAATTCCCAACTGGTTCTGGCTACTTCCCTATGGAGATCCCATAGTTGAGCAGCAGAAAGCATACTTACCTGGCGTA DroMoj_CAF1_left AAG-TATTGCCTACTTTGCAGGTTGTATCA---ATGCAATTTGTAATTCTCAAACGGTTCTAGCAGCTCAGCAATGGAAACCCCAGCCCAGAGTCGAATTAGGCATACTTACCTGGCGCA DroPer_CAF1_left AGG-TATGC-GAGGCTACCTGGATTTTCCA--GCCCTCCCATACAATTCCCAACTGGTTCTGGCCAGGACTTTAAGGACACCCCAGACCTTGGCAGAGGAAAGCATACTTACCTGGCGTA DroPse_CAF1_left AGG-TATGC-GAGGCTACCTGGATTTTCCA--GCCCTCCCATACAATTCCCAACTGGTTCTGGCCAGGACTTCAAGGACACCCCAGGCCATGGCAGAGGAAAGCATACTTACCTGGCGTA DroSec_CAF1_left CAG-TGCCT-ACTTTCTCCTTTCACTCGCA--CACAGTCCCTATAATTCCCAACTGGTTCTGGCTGCTTGCCTATGGAGATCCCAGAGTTGAGCGGCGATAAGCATACTTACCTGGCGTA DroSim_CAF1_left CAG-TGCCT-ACTTTCTCCTTTCACTCGCA--CACAGTGCCTATAATTCCCAACTGGTTCTGGCTGCTTGCCTATGGAGATCCCAGAGTTGAGCAGCGATAAGCATACTTACCTGGCGTA DroVir_CAF1_left AAA-GGGTT-GCCTACT--TTCTAGCTGAGATGTGACTGTATATAATTCCCAAACAGTTTCAGCCGCGCGGCAATGGAAACCCAACCGTTGAGCCGGAGAAAGCATACTTACCTGGCGTA DroYak_CAF1_left GCAGAGCCT-ACTTTCTCCTTGCACT-GCA--TGCAGTGCCTGTAATTCCCAAGTAGTTCTGACAGTTCCCTCAAGGAGATCCCAGAGTTGAGCAGCAGAAAGCATACTTACCTGGCGTA DroEre_CAF1_left AGC-CGAGC-CTACTTTGTCCTTGCACTCA--TGCAGCGCCTGTAATTCCCAATTGGTTCTAGCAGTTTCCCTATCGAGTTCCCAGAGTTGAGCGCTGGAAGGCATACTTACCTGGCGTA DroAna_CAF1_left GAGGTTAACCGTGATCACGAAGGCG-GTTCCTCCGGAGTGAGACCTGGCCATTGCACT-TAGGTTGGGTTGACCTCTGCGATTATTCCTAATGTGAATAACTCGTGCGTGTAATTTTTGG DroGri_CAF1_left GAGGTTAACCGTGATCACTAAGGCG-GTTCCTCCGGAGTGAGGCTCGGTCATTGCACATTCGGCTGAGTTGACCTCTGCGATTATTCCTAATGTGAATAACTCGTGCGTGTAATTTTTGG DroMel_CAF1_left GAGGTTAACCGTGATCACGAAGGCG-GTTCCTCCGGAGTGAGGCTTGGCCATTGCACC-TCGGCTGAGTTGACCTCTGCGATTATTCCTAATGTGAATAACTCGTGCGTGTAATTTTTGG DroMoj_CAF1_left GAGGTAAACCGTGATCACGAAGGCG-GTTCCTCCGGAGTGAGGCTTGGTCATTGCACATTCGGCTGAGTTGACCTCTGCGATTATTCCTAATGTGAATAACTCGTGCGTGTAATTTTTGG DroPer_CAF1_left GAGGTTAACCGTGATCACCAAGGCGTGTTCCTCCGGAGTGAGGCTTGGCCATTGCACT-GCGGCTGAGTTGACCTCTGCGATTATTCCTAATGTGAATAACTCGTGCGTGTAATTTTTGG DroPse_CAF1_left GAGGTTAACCGTGATCACCAAGGCGTGTTCCTCCGGAGTGAGACTTGGCCATTGCACT-GCGGCTGAGTTGACCTCTGCGATTATTCCTAATGTGAATAACTCGTGCGTGTAATTTTTGG DroSec_CAF1_left GAGGTTAACCGTGATCACGAAGGCG-GTTCCTCCGGAGTGAGGCTTGGCCATTGCACC-TCGGCTGAGTTGACCTCTGCGATTATTCCTAATGTGAATAACTCGTGCGTGTAATTTTTGG DroSim_CAF1_left GAGGTTAACCGTGATCACGAAGGCG-GTTCCTCCGGAGTGAGGCTTGGCCATTGCACT-ACGGCTGAGTTGACCTCTGCGATTATTCCTAATGTGAATAACTCGTGCGTGTAATTTTTGG DroVir_CAF1_left GAGGTGAACCGTGATCACGAAGGCG-GTTCCTCCGGAGTGAGGCTTGGCCATTGCACATTCGGTGGAGTTGACCTCTGCGATTATTCCTAATGTGAATAACTCGTGCGTGTAATTTTTGG DroYak_CAF1_left GAGGTTAACCGTGATCACGAAGGCG-GTTCCTCCGGAGTGAGGCTTGGCCATTGCACC-TCGGCTGAGTTGACCTCTGCGATTATTCCTAATGTGAATAACTCGTGCGTGTAATTTTTGG DroEre_CAF1_left GAGGTTAACCGTGATCACGAAGGCG-GTTCCTCCGGAGTGAGGCTTGGCCATTGCACC-TCGGCTGAGTTGACCTCTGCGATTATTCCTAATGTGAATAACTCGTGCGTGTAATTTTTGG DroAna_CAF1_left TAGCCGGGAATGGCGTTCGCGCCGTCCCGACATAA-AT-AATACATCG-AAAACCATTTACGTA-GTTGATATTTTTA-AGAAT--AT-A--CTCCTCTAAATACTCAAAAAAAGTAT-- DroGri_CAF1_left TAGCCGGGAATGGCGTTCGCGCCGTCCCGACATTT-AAT-AATACATCTTACTCAACTAAAATT-AAACAGTCCTCCA-ATGCA--CT-ATTTATTGTATTAATAACATTTTTGTGCT-- DroMel_CAF1_left TAGCCGGGAATGGCGTTCGCGCCGTCCCGACATTT-AAA-ATAAATACCAATTCCAATTTAATA-T-----TATATTG-CATGT--AAGCTGGCACTTACAAAAGTTGATACACAA--GA DroMoj_CAF1_left TAGCCGGGAATGGCGTTCGCGCCGTCCCGACATAT-ATTGATAAATACGATCTCA-TATT-TGC-G-GCATCTGGTTC-ATTCG--AC-ATCGACTGTTTTTT----------TAGTCCG DroPer_CAF1_left TAGCCGGGAATGGCGTTCGCGCCGTCCCGACATAT-GCGAATACATTTCAAGATCATCCTTATT-G--CCTGCTTCGC-AAAGC--AA-A--TATTTGATGTAAACTCCGAGAGTCAA-- DroPse_CAF1_left TAGCCGGGAATGGCGTTCGCGCCGTCCCGACATAT-GCGAATACATTTCAAGATCATCCTTATT-G--CCTGCTTCGC-AAAGC--AA-A--TATTTGATGTAAACTCCGAGAGTCAA-- DroSec_CAF1_left TAGCCGGGAATGGCGTTCGCGCCGTCCCGACATTG-ATA-ATACATACGAATTCCAATTTAATA-ATATCTTCTATTG-CATGT--AAGCTGGCAGATACGTAAGTTGATACACAAAAGA DroSim_CAF1_left TAGCCGGGAATGGCGTTCGCGCCGTCCCGACATTA-ATA-ATAAATGCAAATTCTAATTTAAATTTAATAATATGTAA-TAATA--TC-TATGTAAGCTGGCACATACATAAGTTGAT-- DroVir_CAF1_left TAGCCGGGAATGGCGTTCGCGCCGTCCCGACATGT-TTT-AATAAATCTCAACCAACTTAATAC-GATA---TATATT-AATAG--CA-T--TTGTTTACTTCTTCTTTCTCAGAAGT-- DroYak_CAF1_left TAGCCGGGAATGGCGTTCGCGCCGTCCCGACATTTAATA-ATAAATACAAATTCTATTTCAGTT-GTTTTAATTGCAT-CATCA--CCTCATTATTTTTGATACACGTTTAGATAAGTCG DroEre_CAF1_left TAGCCGGGAATGGCGTTCGCGCCGTCCCGACATAA-ATA-ATTAATACAAATTCTACTCTACTC-AATTCAATTGCAAATAAGCTGACAGTTGATTATTTTCGGTACACGTTTAGATA-- DroAna_CAF1_left TATCTGTAT--CAA----A--AATT--CTTTAAACCTTTG-------TT-AAGT---CCTCTAAATTCAA DroGri_CAF1_left ATACT-TTTATACC----A--CATC--TTTGCTAGCAGCA-------GC-AGAG-A-AG---AAG--ACA DroMel_CAF1_left TCTTT-TCC--AAT----T--ATAA--TATGCAAGATGTAACGCCCCAT-AATC-C-TC---TCT--TTT DroMoj_CAF1_left AAACT-CAG--CTC----G--ACCGTCGTAAATACGAGTA--------T-AAGG---TG---GTT--TCC DroPer_CAF1_left TCATT-TGT--CTG----T--CT-----GTCCATCCATCA-------CC-AGGG---CG---GCC--ATC DroPse_CAF1_left TCATT-TGT--CTG----T--CT-----GTCCATCCATCA-------CC-AGGG---CG---GCG--GCC DroSec_CAF1_left TATTT-TCT--AAT----T--TTAA--AATGCAATAGGAT-------TA-TGCT-C-TC---TTA--TTT DroSim_CAF1_left ACACA-AAA--GAT----A--TTTT--CTAATTATAAAAA-------GC-AAGA-GGAT--TATG--CTC DroVir_CAF1_left CGAAC-AGT--TGTTCATTCGGATT--TATT-TTTCCGCA-------CTAATGCCA-GC---ATT--GTA DroYak_CAF1_left ATACA-CAA--GTC----G--CTCT--TTTGTAATCATAT-------GC-AAGA-T-GT---AAC--GTC DroEre_CAF1_left AGTCG-GTA--CAC----AA-GATC--TTTCTAATTATAT-------GC--AAG---AT---GTA--ACG