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


DroAna_CAF1_left   ATATGTGA------ATTGCACACT---TATATTATTTTTATGAAAATT-GGTCT-ATC-TGATGTTTAAATATAAATTAAAAACA----AAAGAATTGTATTTGA-GAAC-CGAAACACA
DroPer_CAF1_left   CAGGTCA-------AAATTTCATC---ATTTTATAATTAATTTATTTT-TAATC-ATTCCACTCCAATGG---CACCCAT--TTT----GTGGCATTCAACAGAC-GAAA-CGAAACA--
DroPse_CAF1_left   CGAGAAC-------AGATTTCATC---ATTCTAGAATTAATTTATTTT-TAATC-ATTCCATTCCAATGG---CACCCAT--TTT----GTGGCATTCAACAGAC-GAAA-CGAAACA--
DroSim_CAF1_left   ATTACATA---TG-TTTTCATTCCAAATTACAATTTTGTCGTTTTTTG-TTAAA-TAGTTTTTCCTGGGT---TAAGCAA--AATAATCGTACAAATAAACGCAA-GCATTCAATTCAG-
DroMel_CAF1_left   TTGACCACCTCTGTATATGTTTTC---ATTCCATATCTTAATTTTCTTGTATTAATAGTTTTTCCTGGGT---TAAGCAA--AAT----AAACAAATAAACACAAGGCAT-TCATTCA--

DroAna_CAF1_left   GGCAATTG----CTAACAAAATGCTGCTTTGCTTCTGAGTTGCCAATATCCCATATGGTCTAGTGGCTAGGATATCTGGCTTTCACCCAGAAGGCCCGGGTTCGATTCCCGGTATGGGAA
DroPer_CAF1_left   -TCAAAGGA----G-AGAAAACGGGTTTTTGCGATAGGACAGCCAGTATCCCATATGGTCTAGTGGCTAGGATATCTGGCTTTCACCCAGAAGGCCCGGGTTCGATTCCCGGTATGGGAA
DroPse_CAF1_left   -TCAAAGGA----G-AGAAAACGGGTCTTTGCGATAGGACAGCCAGTATCCCATATGGTCTAGTGGCTAGGATATCTGGCTTTCACCCAGAAGGCCCGGGTTCGATTCCCGGTATGGGAA
DroSim_CAF1_left   -ACAAATGTTGGCGAACAAAACGAGTCTTTGCTACAACACAGACAGCCTCCCATATGGTCTAGTGGCTAGGATATCTGGCTTTCACCCAGAAGGCCCGGGTTCGATTCCCGGTATGGGAA
DroMel_CAF1_left   -TGTTGG-----CGAACAAAACGAGTCTTTGCTACAACACAGATAGCCTCCCATATGGTCTAGTGGCTAGGATATCTGGCTTTCACCCAGAAGGCCCGGGTTCGATTCCCGGTATGGGAA

DroAna_CAF1_left   GTACATTTTTTTGT-TTTTAATTTATTTTACTTTAT-TTTATTTGCGTTATTTAT-TTATTCTA-TTTATATTTTGTAGCTTAGTCTGT----GTAAACTAGAGAAAAAGAGACTGCCTG
DroPer_CAF1_left   GAACACTTTTTTTA-TTCTCTTTTTATTTATTTCTTAAATA-G-ATAGATTTCAC-AGACGAGAATCTAGTTGCAACAATGAGTATTGC----CAATTATTGCGCTGTATTTTTCCGCTT
DroPse_CAF1_left   GAACACTTTTTTCA-TTCTCTTTTTATTTATTTCTTAAATA-G-ATAGATTTCAC-AGACGAGAATCTAGTTGCAACAATGAGTATTGC----CAATTATTGCGCTGTATTTTTCCGCTT
DroSim_CAF1_left   GAGTGCTTTTTTTT-TACTGCTTCAAATTGGCGTTCAGCCC-G-GGAAAATAATTGAAAATTGATTTTCCACATATATTGAGCAGTCTA----TTGCAATCGGTA-ATTGCTGTATTTAT
DroMel_CAF1_left   GAGTACTTTTTTTTTACTGCTTAAAATAATTGATAATTGAT-T-TTCCACATATA-TTGAGCAGTCTTCAAGTCTATT---GCTTTCGGTAATTGT-ATGTATTT-ATGTTTGTTTTTGC

DroAna_CAF1_left   AGC
DroPer_CAF1_left   TTG
DroPse_CAF1_left   TTG
DroSim_CAF1_left   GTT
DroMel_CAF1_left   TTT