CLUSTAL W --- LocARNA 1.4.8 - Local Alignment of RNA DroEre_CAF1_left AAGACGATCAAGACTAAGCTTA-AAGTTCGCTCCGTTGCTATTGTTCGTGGAGAG-CGAAATG---TA-GCATTAGCTT-TGCTGAAGCAGGAAACGAATTTTGTGTCTCTGCTCCAACG DroMel_CAF1_left CGATCAAG---AACTAAGCTTA-AAGTTCAAACAATTTATATTGCTTGTGTAGTG-CAAATTTGATCA-TCGTTAATTC-ATCAGAAGCACAAAACTAATTTTGTGCGTCAAACTCGACG DroMoj_CAF1_left ATAATTAGC--TCTGTAAAATA-GCAATAGAAGTTATAAAATATTTGCAATGTTT-TCTGTTAGAATT-TT-GCACTGT-AAAAGCTTCAGAAAATCAATTTAGAGCGACCGTGAGAACA DroSec_CAF1_left CGATAAAG---AACTAAGCTTA-AAGTTCAAACTATTTGTATTGCTCGTATAGTG-CAAATTTGATCA-TCGTTAATTC-ATCGCAAGCACAAAACTAATTTTGTGCGTTTGGCTCAACG DroSim_CAF1_left CGATCAAG---AACTAAGCTTA-AAGTTCAAACTATTTGTATTGCTCGTATAGTG-CAAACTTGATCA-TCGTTAATTC-ATCGCAAGCAGAAAACTAATGTTGTGCGTTTGGCTCAACG DroVir_CAF1_left GTAGACCAG--AAATTCAAATA-TGTTTGCGTTTTTTATTAAAGCTTAAAATTAG-CCAGGCCGCATG-AT-ACGCTGA-AAGCACGATACAAAAGCGATTTGGAGCGCCGAGTGCTCCG DroYak_CAF1_left CGATCAAA---AAGTAAGCTTA-AAGTTCACTCGCTTGGTAATGTTTATATAAAG-CAAAATGTATTA-TCGTTAGCTT-TTCCAAAGCATAAAACTAATTTTGTGCATTGGCACAAGCG DroAna_CAF1_left ATTTAAGC---CTTG-AACTT-GTCAATCTATTTTAAATCTGCTAATT-AAGTAAATAAATTCTCTAACTAATAGCTTC-TCCGAAAGCATAAAACAATATTTGTGTCTAGAGTACAACG DroGri_CAF1_left GTGTCAAA---TA-A-AGCAATTTAAGATAACACGAAAACAACAATAA-ATTGCCACTGGCAATTTAGCAAT-ACATGTTGGAAACGTGACAAAAGCAATTTCGATCGCTATGAATCACG DroPer_CAF1_left AGCTCTTA---TCAA-ATCTTCGTCTTTGCGATGGAGTGATGCTGTGG-GTAGGAATTTCTTTGAAGA-CTTCCGCTGC-TTCGGCAGCACGAAATCTACATTGGGCTGACAGACCCACG DroPse_CAF1_left AGCTCTTA---TCAA-ATCTTCGTCTTTGCGATGGAGTGATGCTGTGG-GTAGGAATTTCATTGAAGA-CTTCCTCTGC-TTCGGCAGCACGAAATCTACATTGGGCTGACATACCCACG DroEre_CAF1_left TGGCGTCGGTGGTGTAATGGTTAGCATAGTTGCCTTCCAAGCAGTTGACCCGGGTTCGATTCCCGGCCGACGCAGTT----CGCTTT--------T-TGCATTTTTTTTCTTTGTTTCCT DroMel_CAF1_left TGGCGTCGGTGGTGTAATGGTTAGCATAGTTGCCTTCCAAGCAGTTGACCCGGGTTCGATTCCCGGCCGACGCAGTT----CACTTT--------T-TGTATT-TTTTTCAATTCTTTAC DroMoj_CAF1_left TGGCGTCGGTGGTGTAATGGTTAGCATAGTTGCCTTCCAAGCAGTTGACCCGGGTTCGATTCCCGGCCGACGCATTG----TACTTT--------T-TTGCAC-T-TTTTCTG------C DroSec_CAF1_left TGGCGTCGGTGGTGTAATGGTTAGCATAGTTGCCTTCCAAGCAGTTGACCCGGGTTCGATTCCCGGCCGACGCAGTT----CGCTTT--------T-TGCATT-TTTTTTATTTTTCTAC DroSim_CAF1_left TGGCGTCGGTGGTGTAATGGTTAGCATAGTTGCCTTCCAAGCAGTTGACCCGGGTTCGATTCCCGGCCGACGCATTT----CGCTTT--------T-TGCATTTTTTTTTATTTTTCTAC DroVir_CAF1_left TGGCGTCGGTGGTGTAATGGTTAGCATAGTTGCCTTCCAAGCAGTTGACCCGGGTTCGATTCCCGGCCGACGCATGT----TACTTT--------T-TGCCTT-TTTCTTATG------T DroYak_CAF1_left TGGCGTCGGTGGTGTAATGGTTAGCATAGTTGCCTTCCAAGCAGTTGACCCGGGTTCGATTCCCGGCCGACGCAGTT----AACTTT--------TTTGCTTTTATATTCTTGTTTCTCC DroAna_CAF1_left TGGCGTCGGTGGTGTAATGGTTAGCATAGTTGCCTTCCAAGCAGTTGACCCGGGTTCGATTCCCGGCCGACGCAGTT----CGCTTT--------T-T---------T------------ DroGri_CAF1_left TGGCGTCGGTGGTGTAATGGTTAGCATAGTTGCCTTCCAAGCAGTTGACCCGGGTTCGATTCCCGGCCGACGCAGTTTCGCTTTTTGCCAATTTTT-G---------T------------ DroPer_CAF1_left TGGCGTCGGTGGTGTAATGGTTAGCATAGTTGCCTTCCAAGCAGTTGACCCGGGTTCGATTCCCGGCCGACGCAGCT----CGCTTT--------T-T---------T------------ DroPse_CAF1_left TGGCGTCGGTGGTGTAATGGTTAGCATAGTTGCCTTCCAAGCAGTTGACCCGGGTTCGATTCCCGGCCGACGCAGCT----CGCTTT--------T-T---------T------------ DroEre_CAF1_left AGCGGAGCAAAATACAAGTGGTATTTT--GTAGGTTTTCAGCAGGTTAT---TTTTT-T-----TAACAAGTAAAATATGATT-T--TGTGAACTGTCGT--ATCAGAATAGGACAGGAC DroMel_CAF1_left GG------CATATTAATTTTTTATTTTGTGAAATGAGA-AAGTAAC---------TT-A-----AGATTTAAGGAGGGCTAAGAA--ATCGAACATTATATATATG---TAT-TCACAGA DroMoj_CAF1_left AT------TGAATATGTATT-TATTTATTTTGTTTTATTCACATTCTT--AATATAAAAAC------CTCATAAT-------C-AGATTCTAAGATTATG--TTTA---AAT-ATTATTT DroSec_CAF1_left AG------CAACATATTTTTTAATTTTGTGAAATGAAA-AACTAGTTAAGCTACCTT-A-----AGATTTTAGGAGGGCAAAC-A--AGCGAACATTTAA--TATA---TTT-TCACAAA DroSim_CAF1_left AG------CAACTTATTTTTTTATTTTGTGAAATGAGA-AACTAGCTAAGCTAACTT-A-----AGATTTTAGGAGGGCAAAC-A--AGCGAACATTTAA--TATA---TTT-TCACAAA DroVir_CAF1_left TG------TGTTTTTGATTT-TATTTATTTTTTAATGTTAAGTACGCA--TAT----------------------------------TTCTGATTTTGC--------------------- DroYak_CAF1_left TA------AAAATACAAATGGTATTTTGTGGTGGTTTCCAACAGACAAGTTTTTTAA-CCATTAAAATATGAGGGACTAGGGT-A--AA-AAGCGTTCAT--TAAA---GTT-GTTTATG DroAna_CAF1_left -G------CTAT-T---TTT---------TAT---T----------------------------------------------------------TTAT-T--T----------------- DroGri_CAF1_left -T------ATTT-T---TAA---------ATA---T----------------------------------------------------------TTATTA--TTTT---GTA-TTTTTAT DroPer_CAF1_left -G------CAAA-A---TTT---------GAA---T----------------------------------------------------------ATTA-A--T----------------- DroPse_CAF1_left -G------CAAA-A---TTT---------GAA---T----------------------------------------------------------ATTA-A--T----------------- DroEre_CAF1_left TAGGATACACAACATTCAT------TAA DroMel_CAF1_left TATATATTAGTAAAACCAACATAAAAAG DroMoj_CAF1_left TT-TTTATTTTATTTTTAA------TTT DroSec_CAF1_left AATAAAATAGTAAAACCGA------CAT DroSim_CAF1_left AATAAAATAGTAAAACCGA------CAT DroVir_CAF1_left -------------------------CAT DroYak_CAF1_left ACTAAGATG-----CTAGT------TCT DroAna_CAF1_left ---ATTTTTGTTATTTATG------TTT DroGri_CAF1_left TTAAAATAATCTTTGCTTA------TAC DroPer_CAF1_left ---AG----CTTTTTC--T------TTT DroPse_CAF1_left ---AG----CTTTCTCTTT------TTT