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


DroEre_CAF1_left   A--TGAG--TCAAACGCTGCCTACTTAAT-TCAATTTAT-----AGATGA-TTT----A---CGTAATACA-ACTATTAAGCGATTGTTACAAAATACTAACTCTTA-------TGTGAA
DroMel_CAF1_left   GAATGAG--TCAAACGACGGCTCCTTTAT-TCATAAAACA---TTTTAGAATTAATTTA---CGTAATACA-AAACGTAAGCGATTGTTACACATTAGTATGTAAAG-------AAATTT
DroPer_CAF1_left   TCTG-AT--TCAAGTTTACACAACTCTTT-CTAGTATTTCCAATCATATTTTTATAAAAAAAATATGTTTT-TTTAACAAGCG----AGAAGAAAACTAAAAAATAGAGAAAAAAAAATT
DroPse_CAF1_left   TCTT-AT--TCAAGTTTAAACAAATCTTT-CTAGTATTTCCAATCATATTTTTATGAAAAAAATATATGTT-TTGAACAAGCG----AAAAAAAAACTAAAAAATAG-------AAAATG
DroSec_CAF1_left   GAATGAG--TCAAACGGCGGCTACTTTAT-TCATACAACA---ATTTAGAAATAATTTA---TGTAATACA-AAAATTAAGCGATTGTTACAAATTACTATAAAAAA-------AAATAA
DroSim_CAF1_left   GAATGAG--TCAAACGGGGGCTACTTTAT-TTATACAACA---CTTTAGAAATAATTTA---TGTAATACA-AAAACTAAGCGATTGTTACAGATTACTATTAAAAA-------AA-AAA
DroYak_CAF1_left   CTTAATTCATTTTATAAAGGAATTTTGAT-ATGATTTACG---TAATACAAATATTAAA---TAGCGATTG-TTACCTATTTGTAACTCCCTTATGTATAAAAAAAA-------CCTTGA
DroAna_CAF1_left   GACTGAG--GCAAGATTTTTTATG-CATAATACTA-GAAAA--ATAGATACTTCT-ACG---CTCTGTTTAAAAAAAAAATAAATAAATAAAATAAAATAAATAATA-------AATTAA

DroEre_CAF1_left   AGTAAAAAAGAAT--ACGAACTTTACCCCAGATGGGACTCGAACCCACAATCCCCGGCTTAGGAGGCCGATGCCTTATCCATTAGGCCACTGGGGCATGCTGTT-TCTG-TTGTCAGAAC
DroMel_CAF1_left   TAATAAAAAAGAGA-AC-AACTTTACCCCAGATGGGACTCGAACCCACAATCCCCGGCTTAGGAGGCCGATGCCTTATCCATTAGGCCACTGGGGCGTGTTATA-TTCG-TTGACAGAAC
DroPer_CAF1_left   TTAAAAAATCTAC--AT-CTCCTTACCCCAGATGGGACTCGAACCCACAATCCCCGGCTTAGGAGGCCGATGCCTTATCCATTAGGCCACTGGGGCACGTCTTA-GTAA-GTGGCTAACT
DroPse_CAF1_left   AAAAAAAATCTAC--AT-CTCCTTACCCCAGATGGGACTCGAACCCACAATCCCCGGCTTAGGAGGCCGATGCCTTATCCATTAGGCCACTGGGGCACGTCTTA-GTAA-GTGGCTAACT
DroSec_CAF1_left   AAATAAAAAAGAG--AC-AACTTTACCCCAGATGGGACTCGAACCCACAATCCCCGGCTTAGGAGGCCGATGCCTTATCCATTAGGCCACTGGGGCGTGTTGTACCCCT-TTGACAGAAC
DroSim_CAF1_left   AGAAAAAAAAGAG--AC-AACTTTACCCCAGATGGGACTCGAACCCACAATCCCCGGCTTAGGAGGCCGATGCCTTATCCATTAGGCCACTGGGGCGTGCTATT-TCTG-TTGACAGAAC
DroYak_CAF1_left   ATAAAAAAAGTAC--TT-GACTTTACCCCAGATGGGACTCGAACCCACAATCCCCGGCTTAGGAGGCCGATGCCTTATCCATTAGGCCACTGGGGCTTGTTATT-TCTG-TTGTCAAAAC
DroAna_CAF1_left   GAACAAAAAAGTTACTC-AACTTTACCCCAGATGGGACTCGAACCCACAATCCCCGGCTTAGGAGGCCGATGCCTTATCCATTAGGCCACTGGGGCTTGTGCTA-CGGGGCTGC-CAAAC

DroEre_CAF1_left   GTGGTGATAAGATTCA-AG---TCAGCTAAGAATAAACGGAAAAAGAACAATGAAAGTTAAAACTGAAATTGCAT-TCTCGAATTTAATCA-TGTGTCAAA-ACAA-CTGTTAAAA-C
DroMel_CAF1_left   GTTATTATAAAGCTCA-AG---TCT--TAGGAATAAGCAGAATAAGAACAATGAAAGTTAAAATATAATTTGTGTTGCTTGAATTTAATTG-TGTGGCAAA-ACAA-CTGTTAAAACA
DroPer_CAF1_left   GCGAATACAATCTACGGGCGGAACATGCGCGTAGATAGCAAAGCAGATCG----TATATGT-ACCTAAGTATGAGTGTGCATACGTGTATGTACA-GCAGTCTGTA-TGC-GTAT--T
DroPse_CAF1_left   GCGAATACAATCTACGGGCGGAACATGCGCGTAGATAGCAAAGCAGATCG----TATATGT-ACCTAAGCATGAGTGTGTATATGTGTATATACA-GCAGTCTGTA-TGC-GTAT--T
DroSec_CAF1_left   GTTATTAAAAAGCTCA-AG---TCCGCTAAGAATAAACAGAATAAGAACGATGAGAGTTAAAGTTTAATTTCTATTGCTCGAATGTAATAG-TGTGTCAAA-ACAA-CTGTTAAA--A
DroSim_CAF1_left   GTCATTAAAAAGCTCA-AG---TCCGCTAAGAATAAACAGAATAAGAACGATGAGAGTTAAAATTTAATTTGTATTGCTCGAATTTAATAG-TGTGACAAA-ACAA-CTGTTAAA--A
DroYak_CAF1_left   GTCATCATAAAATTCT-AG---TCAGCTAAGAATAAACAGAATAAGAACAATGAAAGTTAAAATTTAAATTGGATTGCTTGAATTTAATTA-TGTGGAAAA-ACAG-CTGTTAAA--A
DroAna_CAF1_left   GGCAACTTCAACACGG-GG---TGGGTAGGCGCTCAGCAGCAGGCAAACTGGACATGTTTATTTATAGATCGAGTAGAGGGTT-GAAAATA-TTTCCCTTG-CCGGTCTGGTGAA--A