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


DroEre_CAF1_left   AG-GGCTGAAATTTCAAGAACTGAA-GAAAATGACAA-TGATTAGGTATATTCTAAGCATCCTTTGATGGCCGGC--------GAT--AAAATAAGGACCCCAGGAG-GTCAGG--GCTC
DroMel_CAF1_left   CAGGGTCAAAAGTTCATGAACTAAA-GAAAATGCCAC-GAATAAGTTACATTTTAACCATCCTTCGATGACCGTC--------GAT--AAAATAAGGACACCGGAA--GGTCAG--GCTC
DroSec_CAF1_left   GG--ATTAAAAGTTCATGAACTAAA-GTAAATTCCCA-GGATAATTTAAATTTTAAACATCCTTTGATGACCTGT--------GAT--AAAATAAGGACACCGAAAGAGGTCAG--GCTC
DroSim_CAF1_left   GG--GTTAAAAGTTCATGAACTAAA-GTAAATTCCAA-GAATAAGTTACATTTGAAACATCCTTTGATGACCTGT--------GAT--AAAATAAGAACACCGGAAGAGGTCAG--GCTC
DroYak_CAF1_left   AC-AGTTAAAAGTTCGAAAACTGAA-GAAAATGACAA-AGATAAGTTATGTATTTGGCATCCTTTGTTGACCGGC--------GAT--AAAATAAGGACCCCAGGAG-GTCAAG--GCTC
DroAna_CAF1_left   CA-AGACACGCG-TGAAA---AATA-TCAAA-ATTAAATAAC-TAATTATAATAGTTTGTTTTTTAATGAATGTT--------TTTAATACAAATTCGTGCAAAATATTGGATGGGAGTC
DroMoj_CAF1_left   AA-TTGTTCTTT-ACCATTACAATTTTTATT-TACGTATATA-TATATTTT-TTTATCGATATACTTTATTTTAA--------AAT-TAAAAAAAATAAAGCGACTTTGTATAA--AGCC
DroVir_CAF1_left   CA-ACACAATCC-GTA-----TTGA-ATTAA-AATTT--TAC-TTTAAACC-CTTAAAGTACAAAATTGTTTTAAAAAGATTTAAA-CAAAAAAAAAAAAAAAAGAGTTACATA--AGCC

DroEre_CAF1_left   AGGTTCCACCGAGATTTGAACTCGGATCGCTGGATTCAGAGTCCAGAGTGCTAACCATTACACCATGGAACCGCCGTATTGGTCCTGAGCCAGTTTC-CT-TTTTCTGCTCGGGAAATTC
DroMel_CAF1_left   AGGTTCCACCGAGATTTGAACTCGGATCGCTGGATTCAGAGTCCAGAGTGCTAACCATTACACCATGGAACCACCGTATTGGTCCTGGGCCATTTTC-CT-TTTTCTGCTCGGGAAATTC
DroSec_CAF1_left   AGGTTCCACCGAGATTTGAACTCGGATCGCTGGATTCAGAGTCCAGAGTGCTAACCATTACACCATGGAACCACCGTATTGGTCCTGGGCCTTTTTC-CT-TTTTCTGCGCGGGAAATTT
DroSim_CAF1_left   AGGTTCCACCGAGATTTGAACTCGGATCGCTGGATTCAGAGTCCAGAGTGCTAACCATTACACCATGGAACCACCGTATTGGTCCTGGGCCATTTTC-CT-TTTTCTGCGCGGGAAATTC
DroYak_CAF1_left   AGGTTCCACCGAGATTTGAACTCGGATCGCTGGATTCAGAGTCCAGAGTGCTAACCATTACACCATGGAACCACCGTATTGGTCCTGGGCCATTTTC-CT-TTTTCTGCTCGGGAAATTC
DroAna_CAF1_left   AGGTTCCACCGAGATTTGAACTCGGATCGCTGGATTCAGAGTCCAGAGTGCTAACCATTACACCATGGAACCAACGTGTTGGCCATGAGCCATTTTGCCTC--TTCAGGCCGAGAGTGGC
DroMoj_CAF1_left   AGGTTCCACCGAGATTTGAACTCGGATCGCTGGATTCAGAGTCCAGAGTGCTAACCATTACACCATGGAACCAACTTGCCCGGCTTGCCAA-ACTTGGCCCATATCAGCCAAAGAGCAGC
DroVir_CAF1_left   AGGTTCCACCGAGATTTGAACTCGGATCGCTGGATTCAGAGTCCAGAGTGCTAACCATTACACCATGGAACCAACTTGCCCGGGTTGGCAAACTTGG-CCTATTTCAAGCAGCAAACGAC

DroEre_CAF1_left   GCACTGCGCATGCTGCAAGCTGGTGCGAAAGGGATGGC-AAG-C--TGTAAGGA---CTT--TCTGTTTACCGTTGAACTT
DroMel_CAF1_left   GCACTGCGCATGTTGCAAGCTGGTGCGAAAGGGATGGC-AAG-CGTTGTAAGGA---CTT--TCTGTTCACCGTTA--ACG
DroSec_CAF1_left   GCACTGCGCATGCTGCAAACTGGTGCGAAAGGGATGGC-TAG-CGCTGTAAGGA---CTT--TCTGTTAACCGTTA--CAC
DroSim_CAF1_left   GCACTGCGCATGCTGCAAACTGGTGCGGAAGGGATGGC-AAG-TGCTGTAAGGA---CTT--TCTGTTAACCGTTA--CAC
DroYak_CAF1_left   GCACTGCGCATGCTGCAAGCTGGTGCGAAAGGGATGGC-CAG-C--TGTAAGGA---CTT--TCTGTTTACCGTTACACAG
DroAna_CAF1_left   CCAGTGCGCATGCTGCAAACAGGAGCGACAGGGATGGC-GGC---CTTGCAACA---GGTGCGCGTCCAAAGGGCG--CGA
DroMoj_CAF1_left   GTACTGCGCATGTTGTGATTG--AGCCCACCCCAACTGGAATGAAAG---AGCATCACT---TTCGACAGCTGGGC--GAC
DroVir_CAF1_left   GCACTGCGCATGTTGTGATTCAGCATAAAAGAGATGGC-CTC-TAAC---TTGAAAAT---CAACACCATGAATTT--CGA