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


DroEre_CAF1_left   GCT-TCGGTATTCTTACAAAGTTACACTAAAATTCTAGCAAGAACCCATTCA--AAAA--TT---CTTTTAAGGGATTTACTATGAAATATTTTATTTTCAAATTT-TTTTTT-TTTACT
DroPer_CAF1_left   TCTCCGG-GCAT-TAACTACTTTCCAAAGAAAGGCAACTAGGGGATTTACCC--AGTT-CTTTTCAGATTTTTCTTTGTAGTTAGCTTT-GTTCATAA-TTTACTA-GAATTT-TACGAT
DroPse_CAF1_left   TTC-CGG-GCAT-TAACTACTTTCCAAAGAAAGGCAACTAGGGGATTTACCC--AGTT-CTTTTCAGATTTTTCTTTGTAGTTAGCTTT-CTTTATAAGTTTACTA-GAATTT-TACGAT
DroMel_CAF1_left   AAC-CAA-TTGC---GCCACGGA--GGCTTCGAATTTTTTTTATAAAGTTAGATTAAAATTTGAAAATTGTTTTAAGGTATTTATTATT-AAATATTTTCAAACTTATAATTTTTTTGTG

DroEre_CAF1_left   TATTTAAGGGCCTCCGTGGCGCAATTGATTAGCGTGTTCGACTGTTAACCAACATTTTGGTGGTTCCAGTCCACCCGGGGGCGCG----TATCAATTTCGGGGTTTT-TTTCGAATTTTT
DroPer_CAF1_left   GTTTCAGAGGCCTCCGTGGCGCAATTGGTTAGCGCGTTCGGCTGTTAACCGAAAGGTTGGTGGTTCGAGTCCACCCGGGGGCGTA----ACAACTTTTTTGTATTCT-CTTTTCTCATTT
DroPse_CAF1_left   GTTTCAGAGGCCTCCGTGGCGCAATTGGTTAGCGCGTTCGGCTGTTAACCGAAAGGTTGGTGGTTCGAGTCCACCCGGGGGCGTT----ATAACTTTTTTGTATTCT-CTTTTCTCATTT
DroMel_CAF1_left   TGCTTAACTGCCTCCGTGGCGCAATTGGTTAGCGCGTTCGGCTGTTAACCGAAAGGTTGGTGGTTCGAGTCCACCCGGGGGCGCATACGAAATCAAAATTTTTGCTATGCGTTCTCCTTA

DroEre_CAF1_left   TTGACTTAA--ATTTAATGGAAACGATCTCCATAAAT----ATTAAATAAGTTTTGTCAAATTGTAATAATATGATTGG-TTTTTTCAGATAATTTCA
DroPer_CAF1_left   TTCACACGA-TTAAAAAAACCAACAAATATAAAGGAGCT--AATGAAATATATAGTGAGATTTGTATTTAGTTTTCTN--NNNNNNNNNNNNNNNNNN
DroPse_CAF1_left   TTCACACGA-TTAAAAAAACCAACAAATATAAAGGAGCT--AATGAAAGATATAGTGAGATTTGTATTTTTTTCTAAT--TTTTCACAAGATTAAAAA
DroMel_CAF1_left   TTTAAACTACCATCATATGGTATCTATTTTAATTCAGCTTTAATGGAAGCGATCGTTTCAAATATTACTCAACTATGTTTTATCAAATTTTTAACAAA