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


DroAna_CAF1_left   AAGGGT-GGCTTTTCAACACACACGTATGAAGGCAATGGCAGGATGCTTTCGT--GGTGA----AAGTGTG-TCCTGAACGGGGCCTGTTTGGAGCTTCATAAGGCTGGAACAAACGTGA
DroGri_CAF1_left   TGT-GCGTGTGTGTCTATG-TGTGTGTGAGTGTGCGTATTTTGCGGATGCTCT--TCACTGATTAGGAACG-TTCTG--CGCGCCTCTTTCGCTGCT-TATATAGCTGCGACTAACGGCG
DroMel_CAF1_left   GTGGTT-TTTACTGCCACA-TCCTGGGAGGTGGAGGTGTCAGGATGCGAAAGTGTGGTGA----AAGTATG-TCCTGG-GAGTACCCATTTTGAGCTTTATAGGGCAGGGACAAACGGGA
DroSec_CAF1_left   GTGGTT-TTTACTGCCACA-TCCTGGGAGGTGGAGGTGTCAGGATGCGAAAGTGTGGTGA----AAGTGTG-TCCTGG-GAGTGCTCATTTTGAGCTTTATAGGGCAGGGACAAACGTGA
DroSim_CAF1_left   GTGGTT-TTTACTGCCACA-TCCTGGGAGGTGGAGGTGTCAGGATGCGAAAGTGTGGTGA----AAGTGTG-TCCTGG-GAGTGCTCATTTTGAGCTTTATAGGGCAGGGACAAACGTGA
DroYak_CAF1_left   CGCACA-ATTTAAGCTTAT-GCCGGCAAGGGTGGTTTTTACTGACACATCCTCGGAGGTG----GAGTATA-TCCTCG-TAGTGCTCATTTTGTGCTTTATTAGGCAGGGACAAACGTTT
DroMoj_CAF1_left   AGGCTA-GGGTAC-TAGGG-TGTGTCAGCCCTTGTTTGTGTTATGGATGCTCTAGACTGA----TTATGGCTTTCGTT-GCGCGCCTCTTTTGCCGCTTATATGGCCACAGTTAACGGTG
DroVir_CAF1_left   TGCAAT-GTTAAGGGTAAG-GGTGGATAGTCATTGTATGTGTTAGGATGCTTTAGACTGA----TTATGGT-TTTGCT-GCGTGCCTCATTTGCTATTTATAAGGCCGCAACAAACGCCG

DroAna_CAF1_left   CGTTTCAACAGGACCGTGTGGCCTAAAGGATAAGGCGTCGGACTTCGAATCCGAAGATTGCAGGTTCGAGTCCTGTCACGGTCGTCT-T--CTGCAATTTACTTTTTATA---TA-TTTA
DroGri_CAF1_left   CTTTACAACAGGACCGTGTGGCCTAATGGATAAGGCGTCGGACTTCGAATCCGAAGATTGCAGGTTCGAGTCCTGTCACGGTCGAAG-A--TTTGTATTTTTTTTTCTAA-ATTG-CACG
DroMel_CAF1_left   CGTTTCAACCGGACCGTGTGGCCTAAAGGATAAGGCGTCGGACTTCGAATCCGAAGATTGCAGGTTCGAGTCCTGTCACGGTCGATT-TAACGGCTGAATGCATTTTTTGCACCGACTGG
DroSec_CAF1_left   CGTTTCAACCGGACCGTGTGGCCTAAAGGATAAGGCGTCGGACTTCGAATCCGAAGATTGCAGGTTCGAGTCCTGTCACGGTCGATT-TACCGGCTAAATGCATTTTTTGCATAGAGTGG
DroSim_CAF1_left   CGTTTCAACCGGACCGTGTGGCCTAAAGGATAAGGCGTCGGACTTCGAATCCGAAGATTGCAGGTTCGAGTCCTGTCACGGTCGATT-TACCGGCTAAATGCATTTTTTGCATCAAGTCG
DroYak_CAF1_left   AGTGTCAGCCGGACCGTGTGGCCTAAAGGATAAGGCGTCGGACTTCGAATCCGAAGATTGCAGGTTCGAGTCCTGTCACGGTCGATTATAACTGCTAAGTGCATTTTTTGCAATAAGTGG
DroMoj_CAF1_left   TCTCGTAACAAGACCGTGTGGCCTAATGGATAAGGCGTCGGACTTCGAATCCGAAGATTGCAGGTTCGAGTCCTGTCACGGTCGTAT-CATACTTT--TTTTTTTTTTAATT-TTCAGGT
DroVir_CAF1_left   CTTTACAACGGGACCGTGTGGCCTAATGGATAAGGCGTCGGACTTCGAATCCGAAGATTGCAGGTTCGAGTCCTGTCACGGTCGTTT-TTTTTTTT-ATGTTTCTTTTCAAT-TTTTTTT

DroAna_CAF1_left   TAC---------CCTTGCAGAGGG-TATTATA-AT-TTTG-GTCAAAAGGT--GTGCAAC-G-CAGT-----GAAG-GAGACATCTCC---GACCCTAT--AAAGTATATATATTCTT--
DroGri_CAF1_left   CATG--------TGATTTCATCAATTTCTGTT-ATGTATT-TTTAATATAT--TTGCTAATTCCATA-----TGAA-TTGATTTTTTT---TGTTGTTA--AGAAATATTATTATTTT--
DroMel_CAF1_left   CTTGT-----TTAAACTTCTCTAGTTACTACCCTC-GTAT-GGTTTGCGTACTCAGAAAC-T-CATCTTGTTTGTT-TTGAAACACAATAAAAACCAGTTTCTTTCGACTCTGTGGCAAC
DroSec_CAF1_left   GTTCTTCTTTAGTAACTTCTTTAGTTACTATCCTT-GCAT-GGTTTGCTTACTGAAAAAC-T-CATCTTGTTTGTT-TTGAAACACAATAAACACCAGTTTCTGTCGACTCTTTGGCAAC
DroSim_CAF1_left   GTTGT-----TTAAACTTCTTTAGTTACTATA-TT-GCAT-GGTTTGCGTACTCAGAAAC-T-CATCTTGTGTGTT-GTGAAGCACAATAAAAACCAGTTTCTTTCGACTCTTTGGCAAC
DroYak_CAF1_left   ACCGT-----TCTAACTTTTTTAGCTACTACTTTT-ACAT-TGTTTAAGTACTCA-AAAA-T-CATCTTGTGTATT-TTGAAATACAATAAAAACCAGTTTCTTTGGACTTTGACTTTTG
DroMoj_CAF1_left   A-G---------ACAATAATACA-GGTAGTCAATAGATAGCTGAATGT-----TTATTTT-G-TATGTACTTAATG-GAAACATTTTT---AGATC-AAATTAA-TCAAGTTTGG-----
DroVir_CAF1_left   A-T---------TCGCTCGTAAG-TGTATATTTTTATTTTTAGAAAAT-----GCAGACC-T-ACCCAACTTAATTTTTTTAATCACA---ATATT-TAATTAA-GTTAGTATAC-----

DroAna_CAF1_left   ---TATCAG-
DroGri_CAF1_left   ---TTGC-A-
DroMel_CAF1_left   GC-AAAATG-
DroSec_CAF1_left   GC-AAAATG-
DroSim_CAF1_left   GC-AAAATGC
DroYak_CAF1_left   AAAAAAAGG-
DroMoj_CAF1_left   AT-TAAACG-
DroVir_CAF1_left   AT-AAAATT-