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


DroEre_CAF1_left   G-CAAACAGAGAACATCCTAATTTATTGCTTCAACGCCCCATTTT-GTATTTATTTATATGACAC--TAGAAATTGGGCGCTTACG-AAACCAAGTGTCAGGATGGCCGAGCGGTCTAAG
DroMel_CAF1_left   G-CAAACAGAGAACATCCTAATTTATTGGTTCAACGCCCCATTTT-GTATATACTTTTATGACAC--TAGATTTTGGGCGTTTGCG-GAATCAAGTGTCAGGATGGCCGAGCGGTCTAAG
DroPer_CAF1_left   CACTTTCGCAGAACACACTGAAATGA-ATGAAGTTTCATG--AGA-ATATTTATTATTATTCAACGGAGCTTTTTTAGCAATGACC-AATCCAAGTGTCAGGATGGCCGAGCGGTCTAAG
DroPse_CAF1_left   CACTTTCGCAGAACACACTGAAATAA-ATGAAGTTTCATG--AGA-ATATTTATTATTATTCAACGGAGCTTTTTTAGCAATGGCC-AATCCAAGTGTCAGGATGGCCGAGCGGTCTAAG
DroSec_CAF1_left   G-TTCCGCATTTTGTTATTCTAGTGTCTTTGGTTCAACGCACCAT-TTTGTAATTATTTTTACAC--TAGATTTTGGGCGCTTGCG-GAAACAAGTGTCAGGATGGCCGAGCGGTCTAAG
DroYak_CAF1_left   G-CCAACAAGGAACATCCTAATTTATTGGGTAGTCGCTCCGTTTT-GTATTTATTTATATCACAC--TAGATTTTGGGCGCTTGCG-AAACCAAGTGTCAGGATGGCCGAGCGGTCTAAG
DroAna_CAF1_left   T-GGTTTTATAGACAATATAAACTGGCAGTTTATTGTTCCTTTTTTCCTGCCATTACTTAAGGCT--GGCACTTT--GGGCGGACGGATCTCAAGTGTCAGGATGGCCGAGCGGTCTAAG

DroEre_CAF1_left   GCGCCAGACTCAAGATGA-TAAATCTTACTTTCTGAACGAAAGTGT------ATGAGCGTTCTGGTCCTCTCTGAGGGCGTGGGTTCGAATCCCACTTCTGACAAATATTTTTTGCATAT
DroMel_CAF1_left   GCGCCAGACTCAAGATTG-AAAATCTTACTTTCTGAACGAAAGTGTTTGTGAATGAGCGTTCTGGTCCTCTTTGAGGGCGTGGGTTCGAATCCCACTTCTGACAAATATTTTTTTAAGCC
DroPer_CAF1_left   GCGCCAGACTCAAGGTATTGAAATCTTGCTTTCTGAACGAAAGTGT-------TGAGCGTTCTGGTCCTCTCTGAGGGCGTGGGTTCGAATCCCACTTCTGACAAATATTTTTTGCTTCT
DroPse_CAF1_left   GCGCCAGACTCAAGGTGTTGAAATCTTGCTTTCTGAACGGAAGTGT-------TGAGCGTTCTGGTCCTCTCTGAGGGCGTGGGTTCGAATCCCACTTCTGACAAATATTTTTTGCTTGT
DroSec_CAF1_left   GCGCCAGACTCAAGATTG-AAATTCTTACTTTCCGAACGAAAGTGTT-----ATGAGCGTTCTGGTCCTCTCTGAGGGCGTGGGTTCGAATCCCACTTCTGACAAATATTTTTTGCAGCC
DroYak_CAF1_left   GCGCCAGACTCAAGATGT-AAAATCTTACTTTCTGAACGAAAGTGT------ATGAGCGTTCTGGTCCTCTCTGAGGGCGTGGGTTCGAATCCCACTTCTGACAAATATTTTTTGCATCC
DroAna_CAF1_left   GCGCCAGACTCAAGATAT-AGAATCTTGCTTTCTGAACGAAAGTGCG----AGTGAGCGTTCTGGTCCTCTCTGAGGGCGTGGGTTCGAATCCCACTTCTGACAAATCTTTTTCTCGAAA

DroEre_CAF1_left   TTAA--AGAATATTACAGTATCTTAATAA---TTAGTTTCAACTCTTATAGTTTTGCGAAAAAAATTGG-AACTAAA---TTATTT-ACCAATGTATAT-ATTTTATAAAAAT----ATT
DroMel_CAF1_left   CACA--GAAATTAGCAATGATTTGACAAA---CAATGCAAA-ATTA-ATAAATAATCAAATATATATTT-GCGTATACT-TTTGA--AAGATCTCTCTTTTGGGTTCACCTATATAAATA
DroPer_CAF1_left   TTTGTCAGAATGTAATAACTTTCGATATGTGATAAACATACCCATG-GCAAAGCATTCATTTTGAATATTTCTATTGG--AAATTC-TCTACTGTCTAC-ATTTAAAATAAGTATCATAT
DroPse_CAF1_left   TTTGTCAGAATGTAATAATTTTCGATATGTGATAAACATACCCATG-GCAAAGCATTCATTTTGAATATTTCTCTTGG--AAATTC-TCTACTGTCTAC-ATTAAAAATAAGTATCATAT
DroSec_CAF1_left   CAAA---AAAAAGAACGTTGTTTTGACAA---ACCATGCAAAATCATTTTAATAATCCAA-TATATATTTGCTTATA---CTTTTGAAAAATCTCTCGT-TGGGTTTACCTATATAAATA
DroYak_CAF1_left   CCAA---GAATATAAAATCATTTTAATAG---TATTTTGTTGTATTTCGATATTAGAAAT-AGCAAAAC-TAGATAA---TTACTTGTAGTTCAAACTC--TTC--AAC-TTTTGCGAAA
DroAna_CAF1_left   TCT---TTTCAAAACTTTTTGAAAATATT---------TAGAAAC----CAAATAGCCATTTTTTTCTA-GTCATTATTATAAATTGTTAA---G-----TTT-CATTCAAACCCGAACT

DroEre_CAF1_left   GTTAGCAAG
DroMel_CAF1_left   CGTGACCAA
DroPer_CAF1_left   TTTGCTAGA
DroPse_CAF1_left   TTTGCTAGA
DroSec_CAF1_left   CCTGCTTAA
DroYak_CAF1_left   TAAAATTGA
DroAna_CAF1_left   ATCAATCTA