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


DroMel_CAF1_left   TTCCAAAAGACTGACAGCTGAATACC---CCGTAGGAAAAAAA-ACACGCACAACACAATTCGCGTTTGAGAGAAGGCCCCGGCGAGATTCGAACTCACGATCTCCTGTTTACTAGACAG
DroSec_CAF1_left   G---CAACGTACTGCAA-TGAATAGGAAAAAGTAGGAAAAAAACAATTCCACAACACAATTCGCGCTTGAGAATAGGCCCCGGCGAGATTCGAACTCACGATCTCCTGTTTACTAGACAG
DroSim_CAF1_left   GCTGCAACGTAGTGCAA-TGAATACC---CCGTAGGAAAAAAACAATTCCACAACACAATTCGCGTTCGAGAATAGGCCCCGGCGAGATTCGAACTCACGATCTCCTGTTTACTAGACAG
DroAna_CAF1_left   TG---AACGTGTGGCAGTAAAAAA-GAAATAATTAAAAAAAAGAAACGTCACACAACAAACTCTTGTGCTCGGAAGGCCCCGGCGAGATTCGAACTCACGATCTCCTGTTTACTAGACAG

DroMel_CAF1_left   GCGCTTTAACCAACTAAGCCACGGCGCCACTTATGTTGAACCTGAAAATTTGGAAACTTCTGTGGTGGG----------TGGT----TG---GAGGTATCAA--TGATCATTAAAAATAA
DroSec_CAF1_left   GCGCTTTAACCAACTAAGCCACGGCGCCACTTGTATTGAGCCCGAAAATTTGGAAACTTCTGTGGTGGG----------TGGT----TG---GAGCTATCAA--TGATCATTAAAAATAA
DroSim_CAF1_left   GCGCTTTAACCAACTAAGCCACGGCGCCACTTGTGTTCAACCCGAAAATTTGGAAACTTCTGTGGTGGG--TGGGTGCTTGGT----TG---GAGGTATCAA--TGATCATTAAAAATAA
DroAna_CAF1_left   GCGCTTTAACCAACTAAGCCACGGCGCCGCTTGGAAATAAATCGAAAATTTGGAAATTTCCATAGCAACACTCATAAGATCTACTAGAATACTAGATAAGATATATG-----ATTTAAAA

DroMel_CAF1_left   CTCAAGGTC-AAGTATTGATT-TTGA-------TAGATGATACTATGAAGATAAAATTAAAAAGATATGAAA----AACTAAAAAATACTGA
DroSec_CAF1_left   CTCAAGGTC-AATTATTGATT-TCGA-------GTGATGATACTATACAGATAAAATTAAAAAGATATGAAA----AACAAAAAAATACAAA
DroSim_CAF1_left   CTCAAGGTC-AAGTATTGATT-TCGA-------TTGATGATACTATACAGATAAAATTAAAAAGATATGAAA----AACAAAAAAATATTGA
DroAna_CAF1_left   ATAATTATCATTTTAAA-GTATGTTGTTTTCTTCATTTTTTATCAGTCTGCGAAAG--ACTAGGCCTCCTAAGGTGTAACATTCTAAATCAT