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


DroEre_CAF1_left   CGTTACAAACGCTATGTGTGCA-TTTCCATTTA-GTTTGGCTACGCACCACCA-TTCGCCTTCTTCGTATGGGCGTTTTGCTCGAGGTTTGTACATCGGGGATGTAGCTCAGTGGTAGAG
DroGri_CAF1_left   AATACGTGGCAATTCCTCAGCGCAGGC-AGTGCACTG-CTTTGTCAGCCAGAGGGCACTGCTTACTTGATGGCATTTAGCTGAGCATTTTTCAC-ATGGGGATGTAGCTCAGTGGTAGAG
DroMel_CAF1_left   CATTACTAACGCTGTGTCAGCA-TTTCATTTGA-GTTTGCTTACCCACCACCA-TTCGGTTGCTTCGTATGGGCGTTTGGCTCGCAAGTTATTCAACGGGGATGTAGCTCAGTGGTAGAG
DroMoj_CAF1_left   TTTATTCTCATCACGTTTCACT-TTAATGCGCA-TGACCATTGACAACTGACA-TGCGCTTAGCTTAGGCTGCTGTTTGTGCTGCTGCTCACTCAACGGGGATGTAGCTCAGTGGTAGAG
DroSec_CAF1_left   CACATTAATAACGCTGTCAGCA-TTTCATTTGA-GTTTGCTTACCCACCACCA-TTCGGTTGCTTCCTATGGGCGTTTGGCTAGGTGGTTGTTCAACGGGGATGTAGCTCAGTGGTAGAG
DroSim_CAF1_left   NNNNNNNNNNNNNNNNNNNNNN-NNNNNNNNNN-NNNNNNNNNNNNNNNNNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
DroYak_CAF1_left   CATTACCAGCGCTGTGTGCGCA-TTTCATTTTA-GTTTGCTTACCCACCACCA-TACGCTTGCCTTGTATAGGCGTTTTGCTCGCCAATAGTACATCGGGGATGTAGCTCAGTGGTAGAG
DroVir_CAF1_left   ACAATTACAAATGTGCAAACTA-TTGCCTTGCA-GTGAATTGCTTGGTGTGTT-AACGCGGCGCTCTTGTTGACATTTGGCTGAATCATTTCAACATGGGGATGTAGCTCAGTGGTAGAG

DroEre_CAF1_left   CGCTCGCTTTGCATGTGAGAGGCCCCGGGTTCAATCCCCGGCATCTCCAAGTACATTTTT-T-GCTTTTCTTTTTTTATTTTTATTCACAGCGATCGCTGTG----T-----TGAT-TGC
DroGri_CAF1_left   CGCTCGCTTTGCATGTGAGAGGCCCCGGGTTCAATCCCCGGCATCTCCAATTCAACTTT--TTGTTTTTTTCGG-----TATT-TT-TCAAAAATGTGATCGCAACTTGCGAAATC-GTT
DroMel_CAF1_left   CGCTCGCTTTGCATGTGAGAGGCCCCGGGTTCAATCCCCGGCATCTCCAAGTACAATTTT-TTGCTTTTCATTTTTTTCGTGT-TTTATGTACTTCCATATAAGCAC-----CGAT-CGC
DroMoj_CAF1_left   CGCTCGCTTTGCATGTGAGAGGCCCCGGGTTCAATCCCCGGCATCTCCAATTACGTTTTT-TGTTTTTAATTTT-----TATT-TT-AAATATTTCTATACAAAATGCTCTTGAAC-AAT
DroSec_CAF1_left   CGCTCGCTTTGCATGTGAGAGGCCCCGGGTTCAATCCCCGGCATCTCCAAGTACAGTTTT-TTGTTTTTCATTTTTTTCGTGT-TTTATTTACTTCCATATAAGCAC-----CGAT-CGC
DroSim_CAF1_left   NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCTCCAAGTACAATTTTTTTGTTTTTCATTTTTTTCGTAT-TTTATTTACTTCCATATAAGCAC-----CGAT-CGC
DroYak_CAF1_left   CGCTCGCTTTGCATGTGAGAGGCCCCGGGTTCAATCCCCGGCATCTCCAAGTACATTTTT-T-GTTTTCCATTTTTTGTTTTTATTCACAACCATATATGAG--CAC-----CGAT-CGT
DroVir_CAF1_left   CGCTCGCTTTGCATGTGAGAGGCCCCGGGTTCAATCCCCGGCATCTCCAAGTACATTTTT-T-GTTATTTTTCCCTTTT--TT-AAAATGCACAACCATTCAAAATA-----CTTTTTCA

DroEre_CAF1_left   CGTTGGTGATGCTCTCTTGCGGATTTGTCTC----GTCCAAGTT-GTGA-AAAAAGCCTTGTCC-------GCACGATCATCTGGCGGCGGTCATGA-TTCCGATTCTGAGATC----AC
DroGri_CAF1_left   GCC-GCTGTGGCCTGTTTATGGCCGCGTAGC----GAT----CG-AATCGCTGCTCTCTGCTCA-------CCGCTCGCTTCACACTGAATGTTTTT-TGTTGGTGC-ACTC-AT--TTT
DroMel_CAF1_left   GAT----GATGCTATTTTGCGGATTTGTCTC----GTCCGAGTT-TTGA-AAAAGGCTATGCGG-------TCATGATTCCGATTCTGAGATCACAA-AACCAAAAAAAAAATCGATTCG
DroMoj_CAF1_left   TTT-TTTCTGCCGATATTTT-TGCTTTGGT-----TGC----TG-CGCG-ATCGCATCAATTCA-------GGTGGTTAGCCCCGTTATTTTCCCCC-TTTCCCGCT-TTTT-GT--GTT
DroSec_CAF1_left   GAT-GATGATGCTATTTTGCGGATTTGTCTC----GTACGAGTTTTTGA-AAAATGCCATGCGT-------TCATGATTCCGATTCTGAGATCACAA-AACCAAAAA-AAAATCG---AT
DroSim_CAF1_left   GAT-GATGATGCTATTTTGCGGATTTTTCTC----GTCCGAGTT-TTGA-AAAAGGCCATGCGG-------TCATGATTCCGATTCTGAGATCACAA-AACCAAAAA-AAAATCG--ATT
DroYak_CAF1_left   TGT-GGTGATGCTCTTTTGAGGTTTTGTCTC----GTTCGAGTT-GTGA-AA-AAGCCATGCCC-------ACACGATCATCTGACGGCGGTCATGA-TTCCGATTCTGAGATCA--CAA
DroVir_CAF1_left   ----GTAGACTCTCAGTTGGTGCTGTGCGCTGTGCTG--------GTTT-AAAGCGCGATCGCATCGATTCATTTGATGCCATTGCTGC---TC-GCTCGCTTACAT-TATT-GT--TTT