CLUSTAL W --- LocARNA 1.4.8 - Local Alignment of RNA DroEre_CAF1_left AGTATTACT-AATAAAATGAATT-TCACAAGACGG--TAAC----CATTGAAATCAT-CTCATCCA-TTCAACCCTG---TTTACTCATATTCAACATAGCGT---TT--AGGGACTC-- DroGri_CAF1_left GTAAGA-GA-AAAAATGCGACT----CAGCTATTGAGTGTG----GTTACACAGCAT-T-CAGCTTGTGAACGTTTG---CTGTCTTAAGTTAAGCGTTT-GTTACTT--TCTGCTCA-- DroMel_CAF1_left AGCTAA-GA-TTGATTTTCATCT-TTTCATATTGT--AATG----AAATACCAGTCATCCCATACA-GTCAAGGCCG---GTTACTCATATTCAACATAGCAA---CC--AGCGCTTT-- DroMoj_CAF1_left TGTGTG-CG-AGAGAGAC-AAAA-ATACTATACAA--TAAC----CATAATAACTGT-TCTGTATT-GAGCAGCTGG---CTGTCTTTTATTGCACATTAGCA---GA--AACCCCGACA DroSim_CAF1_left CAGTAG-TT-AGAACACTGTAAT-A-TGTTCCACA---TTTCTATTTATTTTCATTG-G-TAACAAAGTGTCCT-TTGCACTTACCCGAGCTCTAGGGCC-TT---TT--GGCTTCAA-- DroVir_CAF1_left GAGAGA-GG-AAAATACT-A-CTCAGCTGCTGTAG--CTAG----TTCTTTCAGTTGGCGGTTTGT-GTGCAGTCAC---T-GTCTTTAATCGAACAATAGTT---GCACAGCAAGCA-- DroYak_CAF1_left TTAAAA-CT-CTGATTATGTACC-A-AAATTCTAA---TAA----GATTCTACTAAG-G-CTTAGGGTAAATGTTGTACGTTAGCTGAAAATCAACGTTGTGC---TC--AGGATTTC-- DroPer_CAF1_left ACCTAA-AAATTAAAGCCAATCA-ACTTTAAACAA--TAAT----TGTATTTA-TTT-G-TACTTT-TTTCACCCAT-CTTTTAATTTAAGGATTTTGTCGAG---CC--CGGAACCA-- DroPse_CAF1_left CCTAAA-AA-TTAAAGCCAATCA-ACTTTAAGCAA--TAAT----TGTGTTTAATTT-G-TACTTT-TTGCACCCAT-CTTTTAATTTAACGATTTTGTCGAA---AC--GCGAACCA-- DroEre_CAF1_left GTAAGCAGAGTGGCGCAGTGGAAGCGTGCTGGGCCCATAACCCAGAGGTCCGAGGATCGAAACCTTGCTCTGCTAG---------GA-AGTA-TTCGCAAGTGCGATTT---ATTT---- DroGri_CAF1_left ACAAGCAGAGTGGCGCAGTGGAAGCGTGCTGGGCCCATAACCCAGAGGTCCGAGGATCGAAACCTTGCTCTGCTAA--T------TG-AGTAGCTTGTGGGTGATTGTA-T-ACCG---- DroMel_CAF1_left ATAAGCAGAGTGGCGCAGTGGAAGCGTGCTGGGCCCATAACCCAGAGGTCCGAGGATCGAAACCTTGCTCTGCTAT---------AG-AGTATTTCGCAAGTTCGAATT---GTTTTTAT DroMoj_CAF1_left ACAAGCAGAGTGGCGCAGTGGAAGCGTGCTGGGCCCATAACCCAGAGGTCCGAGGATCGAAACCTTGCTCTGCTAG--AATACAGTC-GGTT-GGAAAATGAGTTTCCA---ATTC---- DroSim_CAF1_left GCAAGCAGAGTGGCGCAGTGGAAGCGTGCTGGGCCCATAACCCAGAGGTCCGAGGATCGAAACCTTGCTCTGCTAT---------GG-AGTATTACGCAAGTGCGAATT---ATTT---- DroVir_CAF1_left ACAAGCAGAGTGGCGCAGTGGAAGCGTGCTGGGCCCATAACCCAGAGGTCCGAGGATCGAAACCTTGCTCTGCTATGGAGAGTACTGAGGTG-GAAAGCTGTGATTTCC---ATTA---- DroYak_CAF1_left ACAAGCAGAGTGGCGCAGTGGAAGCGTGCTGGGCCCATAACCCAGAGGTCCGAGGATCGAAACCTTGCTCTGCTAG---------GA-AGTAATTCGCAAGTGCGATTT---ATTT---- DroPer_CAF1_left ACTAGCAGAGTGGCGCAGCGGAAGCGCGCTGGGCCCATAACCCAGAGGTCCGGGGATCGAAACCTTGTTCTGCTAA--T------TG-AC-TGGTGTGGGGTGCAATTCCCAATTT---- DroPse_CAF1_left ACTAGCAGAGTGGCGCAGCGGAAGCGCGCTGGGCCCATAACCCAGAGGTCCGGGGATCGAAACCTTGTTCTGCTAA--T------TG-AC-TGGTGTGGGGTGCAATTCCC-ATTT---- DroEre_CAF1_left TTTTT--TAATTTGTTAAAATAAGTTTAATC-TTA-TTTGTTT-GACTATATTCAAATCATTCATA-TGT-GT-------AAA-ATGTAA-TATTGTCC-ATTTGGGTA--AT DroGri_CAF1_left CA-CAATCTTTTTTTTGTTTCAACGCATATA-AAAACAATATG-TATGTAAAGATATATTAATTAA-TGA-TGGCTGCTTTTACATGTA--AATTTG-CGCCGCTAGACCTTC DroMel_CAF1_left TTGAC--TTTTGTGTATATATTTTGTTAACA-AGA-ACAATAC-TTCA-TGAAAGTTAGTTGTATA-TGT-AA-------ATA-TTGTCT-TTTT------GGTGTTTGGGTG DroMoj_CAF1_left TTTTT--TTATTATATCTACATACAAAATTG-TAT-ACAAACC-TGCAGAGAACGCTATAAATTCT-CCG-AA-------TAA-TTTGAT-AACTTTTATAATTTAAAATTTA DroSim_CAF1_left TAATT--TGACTTTTGCAAAAAT--ATATTT-ATA-TACTTTT-TAATCAGAACTATATAAGTTGC-TTTACT-------ATA-TCTTA--TATTAA-TGAAATTATTATTAT DroVir_CAF1_left TT--T--TAATTTTGCTAAAATCACTAAAGTATTC-AAACATCCATCCATTCAGAGCTCACT-GAAAGTA-T--------TTA-TGCAAAAAGATTTTATATTTTGCGGAACT DroYak_CAF1_left TTTAA-AAAATTTGTACATACTTTTCATAGC-AAA-TAAAATC-AATGTAAATTGTTTTGCTATAT-GCA-TA-------TGA-ACGTC--ATA--A-TATAGTCTTTTTGTG DroPer_CAF1_left TTGTA-TGCATAATAACATAAAACATGGACT-AAA-ACAGTTT-CAGTAAAAACCTCTCGCATTCT-GATTCT-------AAA-TATTT--ATTT-TTTTTAATAAAACTCAG DroPse_CAF1_left TTGTA-TGCATAATAACATAAAACATAGAAT-AAA-ACAGTTT-CAGTAAAAACATCGCATTCTAAATAGTTA-------TTT-TTTTT--AATA-AGACTCAGCTTAATTTT