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


DroEre_CAF1_left   TTATCGAAGTCAAAGAATAAGTAACAAAAGCTATAAAAAGAACGCTTATCTT-----A-CTTTGCGGCCACAACGAAGCGCTACGC-TTATA----TACACATTTTTGCCGCGACGAATC
DroMel_CAF1_left   GTAAAAAAAAA------TTAGTAACAAAAGCTATAAATAGAACGCCCATCTTACGTTCTCTTTTTAGCCGCAACGAGTTGCTTCGC-TTGTA----TACACTTTTTCGCCGCGACGAATC
DroSec_CAF1_left   GAGCTCAAAAA------TTAGTAACAAAAGCTATAAATAGAACGCCTAGCTTACGTTCTCTTTTTAGCCGCAGCGAGTTGCTACGC-TTATA----TAAGCTTTTTCGCCGCGACCGGAC
DroSim_CAF1_left   GAGGTCAAAAA------TTAGTAACAAAAGCTATAAATAGAACGCCCAGCTTACGTTCTCTTTTCAGCCGCAACGAGTTGCTACGC-TTATA----TCAGCTTTTTCGCCGCGACCGAAC
DroYak_CAF1_left   TCAACAAAAAAGTAGCAAAAGCTATAAA----TAAAACGCCTAGCTTACGCG-----A-ACTTTTAGCCACAACAAATCGCTACGT-TTATAGCTTTACACATTTTAGCTGCGACGAGTC
DroAna_CAF1_left   ACTATTTCAAT------TTTAAAATAAAGATTCTTTGTAAATATTTGATCCGAAAACT-ATATTTAGATTTTGAAAATAAACTTTATTTTCG----TTTTCATATTGGCTGCTAGGGATT

DroEre_CAF1_left   TCAAGTCCCATATTGTCTAGTGGTTAGGATATCCGGCTCTCACCCGGAAGGCCCGGGTTCAATTCCCGGTATGGGAAACTTGTGTGG-A--CTACA--TTTTGTT-TTTTT---------
DroMel_CAF1_left   GCAAGTCCCATATTGTCTAGTGGTTAGGATATCCGGCTCTCACCCGGAAGGCCCGGGTTCAATTCCCGGTATGGGAAACTTATGTGG-A--TTTAT--TTTTTTTTTAAGAGCTATTGTG
DroSec_CAF1_left   TTAAGTCCCATATTGTCTAGTGGTTAGGATATCCGGCTCTCACCCGGAAGGCCCGGGTTCAATTCCCGGTATGGGAAACTTCTGTGG-A--CTTAT--TTTTTTT-TTTTA---------
DroSim_CAF1_left   TTAAGTCCCATATTGTCTAGTGGTTAGGATATCCGGCTCTCACCCGGAAGGCCCGGGTTCAATTCCCGGTATGGGAAACTTCTGTGT-A--CTTCT--TTTT--T-TTAAT---------
DroYak_CAF1_left   TCAAGTCCCATATTGTCTAGTGGTTAGGATATCCGGCTCTCACCCGGAAGGCCCGGGTTCAATTCCCGGTATGGGAAACTTCTGTGG-A--CATAT--TTTTTTT-TTCAT---------
DroAna_CAF1_left   CCATATCCCATATTGTCTAGTGGTTAGGATATCCGGCTCTCACCCGGAAGGCCCGGGTTCAATTCCCGGTATGGGAAACATACAATTCAGTAATGGATTAAA--T-TTTTTGTATTTAC-

DroEre_CAF1_left   -TTTCTTTCTTCTAATGAAAAAAGTTGCTTCAAA-ATAATTGTTGTC-CACTCTGTGTATCCCTAGATTATTCGTTTCTAC-TTTT----CA---T--C
DroMel_CAF1_left   GGTTA-GAAA-AAAG--TTTACTTCAAA-TAATC-GCCTGTATCCTTTAAATTATTCGCCTCTCCTATTCGTCGAATTCC---------------A--A
DroSec_CAF1_left   -TGTAGGAAA-AAAG---TTACTTCAAA-TAATC-GACTGTATCCTT-AGACTATTCGCTCCTTCCTTCCGTTGAATTCCAATAGGTTTGCA---A--A
DroSim_CAF1_left   -GTAGGAAAA-AAAG---TTACTTCAAA-TAATC-GACTGTATCCTT-AGACTATTCGCTCCTTCCTTTCGTCGAATTCCAATAGGTTTGCA---AAGC
DroYak_CAF1_left   -TTAATGAACTTCAAAATAATCGTTTGT-CCACT-TTTTGTATCCTT-AGCTGATTCTTTTCTATTTCTCATCTAATCCCAATGAG----TT---T--G
DroAna_CAF1_left   -------TTT-TAAT-CTA--AAACTTT-TTAGCCTAAAAACTTTAT-AAATTAAAAACCCGTTTTCGATTAATTTTCAATTTATTCCGTTTTTCC--T