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


DroMel_CAF1_left   TGTGGTGGGTGGTTGGAGGTATCAATGATCATTAAAAATAACTC-AAGGTCAAGT-ATTGAT--TTTGATAGATGATACTATGAAG-ATAAAAT--TAAAAAGATATGAAAAACTAAAAA
DroPer_CAF1_left   GCCCCGTTTTGGAAACTTGTAATACTAAAATGATAAAATTATTG-TTC---CAGT-TTTTAAAAGATCA---A-TAAACTAAGTCG-TTC-AGG--TCAAAATATTGGCTTTTAAAAATG
DroPse_CAF1_left   GCCCCGTTTTGGAAACATGTAATACTAAAATGATAAAATTATTG-TTC---CAGT-TTTTAAAAGATCA---A-TAAACTAAGTCG-TTA-AGG--TCAAAATATTGGCTTTTAAAAAAG
DroSec_CAF1_left   TGTGGTGGGTGGTTGGAGCTATCAATGATCATTAAAAATAACTC-AAGGTCAATT-ATTGAT--TTCGAGTGATGATACTATACAG-ATAAAAT--TAAAAAGATATGAAAAACAAAAAA
DroSim_CAF1_left   GTGGGTGCTTGGTTGGAGGTATCAATGATCATTAAAAATAACTC-AAGGTCAAGT-ATTGAT--TTCGATTGATGATACTATACAG-ATAAAAT--TAAAAAGATATGAAAAACAAAAAA
DroAna_CAF1_left   AAAAT-TATATTTTATTTATAAAAACTACAGTTTTTTTTAATTTTCAGATTAATATTTTAAT--TTTCATAAATAAAATATTAATTTATAATCATACATACATACAAACAAAT-AAAAAA

DroMel_CAF1_left   ---ATACTGACACAATCTTTTGTGTAGGCCCCGGCGAGATTCGAACTCACGATCTCCTGTTTACTAGACAGGCGCTTTAACCAACTAAGCCACGGCGCCATGCGTTATATGCCTGACCAA
DroPer_CAF1_left   ---TATAATATATCCACTTAGACGAAGGCCCCGGCGAGATTCGAACTCACGATCTCCTGTTTACTAGACAGGCGCTTTAACCAACTAAGCCACGGCGCCAACTGATTCCGCCGTGTCCAA
DroPse_CAF1_left   ---TATAATATAGCCACTTAGACAAAGGCCCCGGCGAGATTCGAACTCACGATCTCCTGTTTACTAGACAGGCGCTTTAACCAACTAAGCCACGGCGCCAACTGACTCCGCCGTGTCCAA
DroSec_CAF1_left   ---ATACAAAGACAAGCTCGTGTGTAGGCCCCGGCGAGATTCGAACTCACGATCTCCTGTTTACTAGACAGGCGCTTTAACCAACTAAGCCACGGCGCCATACGTTGTTCGTCTGACCAA
DroSim_CAF1_left   ---ATATTGACACAAGCTCTTGTGTAGGCCCCGGCGAGATTCGAACTCACGATCTCCTGTTTACTAGACAGGCGCTTTAACCAACTAAGCCACGGCGCCATGCGTTGTTCGTCTGACCAA
DroAna_CAF1_left   AGAAGCAATGCTTATATTTCCTCAAAGGCCCCGGCGAGATTCGAACTCACGATCTCCTGTTTACTAGACAGGCGCTTTAACCAACTAAGCCACGGCGCCAGATGAAATTCACTTGTCCAA

DroMel_CAF1_left   ATTTTCATAATTGCCTTGCCCAATTCAAATTA--AAGTGTCAATA-GCTGAAATGACATGC-TCTTCAAATAGAAGATCTTAAAAAGTAATTCAACGAGGTCCACG
DroPer_CAF1_left   CCACCAATAATTAGTTCTCTCCGTCCGTAAAGAAATTAATTATGC-TGATTGAATATTGGA-ATAGGAAT-ATCTATAGATGTATATCTG-GAGACGAACAAGGAA
DroPse_CAF1_left   CCACCATCAATTAGTTCTCTCCGTCCGTGAAGAAATTAATTATGC-TGATTGAATATTGGA-ATAGGAAT-ATCTATAGATGTATATCTG-GAGACGAACAAGGAA
DroSec_CAF1_left   TTTTTCATAATTGCCTTGCCCAATTCAAATTA--AAGTGTCAATA-GCTGAAAAGAAATGC-TCTTTAAATAGAAGATCTTAAAGAATAATTCAACGAAGTCCACG
DroSim_CAF1_left   TTTTTCATAATTGCCTTGCCCAATTCAAATTA--AAGTGTCAATA-GCTGAAATGAAATTC-TCTTCAAATAGAAGATCTTAAAGAGAAATTAAACGAAGTCCACG
DroAna_CAF1_left   AAAGCTACATATTTTTAAGCATATGTTAAATC-GGTTTATGATTATGATATATATAAATTTTAAACAG-ATGTTCTAAAGCTGTTTATATAATTAGGTG--TATTT