CLUSTAL W --- LocARNA 1.4.8 - Local Alignment of RNA


DroEre_CAF1_left   TAAGCTATCGGAAGTGTTTTTGTTT-TATAAATAAATACTATCAACATTATATTATTTTAGGGCACTCTTAA-GCATTCATACCAAAGCAGTCGTGGCCGAGTGGTTAAGGCGTCTGACT
DroGri_CAF1_left   AGAACCACCAATGCTATCCATCAGT-GCA-CTTGAGCTTTTGATAAGTTTAAGCTTTAAGTGTTCTTGGCGCCGATGTCGTCACACAGCAGTCGTGGCCGAGCGGTTAAGGCGTCTGACT
DroSim_CAF1_left   GATATGCATTTTTTGATTTTGCTTTGTAAATGTATACAATAGTATTAACTTAAGGT-TTATTGACTATTTAT-GAGCCCATATCGAAGCAGTCGTGGCCGAGTGGTTAAGGCGTCTGACT
DroVir_CAF1_left   AGTTTCAATAAGTTTAATAAACTCT-TACTTTGAAACATTCTTGTACTGATTTTCATATACATTTTATGCGC-TTAGCCGTCATGGAGCAGTCGTGGCCGAGCGGTTAAGGCGTCTGACT
DroYak_CAF1_left   CACAAGATATCGCACGTGTTTTTGG-TTTATAAATAAATGCTATATTTTATTAAAATTTATTGCCATCTTAA-GCAATCATATCGAGGCAGTCGTGGCCGAGTGGTTAAGGCGTCTGACT
DroMel_CAF1_left   TTTTTGTTTTTGTAAATTAATATAA-TACTCTTAACTTTATATTAGTTTCTTAAATTTTATTGATATTTTTT-GCGCATATATCAAGGCAGTCGTGGCCGAGTGGTTAAGGCGTCTGACT

DroEre_CAF1_left   AGAAATCAGATTCCCTCTGGGAGCGTAGGTTCGAATCCTACCGGCTGCGTTTGCGAGCTAGATTTTTGTG---CAAAAAAATAA-----TTAAAGTAGGAAATACATG-TGCCATA----
DroGri_CAF1_left   AGAAATCAGATTCCCTCTGGGAGCGTAGGTTCGAATCCTGCCGACTGCGCAATATCTAAAAT--TGCTTTT-TTTTCAATTTAT-----TTTTGAAATAT-TCATTTT-TTTTAAC-AGG
DroSim_CAF1_left   AGAAATCAGATTCCCTCTGGGAGCGTAGGTTCGAATCCTACCGGCTGCGTTTGTAAGCATAT--TTTTTAT-TTTGCAAAAAAA------TTATTATTAT-AATGAAAAGGAAAAAAACA
DroVir_CAF1_left   AGAAATCAGATTCCCTCTGGGAGCGTAGGTTCGAATCCTACCGACTGCGAATGGGCTAATTT--AGTTTTATTTTTAAAATTTA-----TTTTTTTTTAT-TTAAAAA-ATATTTAAATT
DroYak_CAF1_left   AGAAATCAGATTCCCTCTGGGAGCGTAGGTTCGAGTCCTACCGACTGCGTTTGTGAGCCACA--TTTTTGT-ACAATAAAATAA-----TTATATAATTA-TAATAGC-CGCCTCT-ACT
DroMel_CAF1_left   AGAAATCAGATTCCCTCTGGGAGCGTAGGTTCGAATCCTACCGGCTGCGTTTGTAAGCTTAA--TTTGTATTTTTACAAACAAAAAAAAATACTATTATAATTATAGT-AGCCTCA-C--

DroEre_CAF1_left   -AGTGCATTCCAG----TGTTGGCTATC----G---CACGAAAAG-AAGTGCAC-TTAAAT--ACCA--TATACTGCCGAGTTA-TT-TTAATCAAGA
DroGri_CAF1_left   CAGAGCGAAGCAC----CTCT---GA-CCCCAT---AAAGTATAT-A--AATA--TATTATTGATCA---GCAGC-AGCAACAA-AA-GCTGACTTGA
DroSim_CAF1_left   CCTCGGAAATGGT----GTAT---TTAAG--TG---CATTCCAGTGTTGTTTAC-CGCACG--AAAATAAATACA-ATTAAATA-CC-ATC-TACCGC
DroVir_CAF1_left   ATTTTTATATTTA----TTAA---AAGCT--TG---GTAATTTTGAT--TTTA--CGTTAT--ATACGCCAGATA-ATTAATTG-CA-ACA-GTAAAA
DroYak_CAF1_left   CGGAAATATGTAC----ATAT---GGGCA--TA---AGTGCATTC-C--AGTG--TTATTG--TCTAGCGTACGA-AAAAAAAT-AT-ATAAATTAAA
DroMel_CAF1_left   -CG--CGGAAATTGTATATG---TAAGTG--CATTCCAGTGTT-----GTTTACCGCAC-G--AAAATAAATACA-ATTAAATGGCCATCATCCTACC