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


DroEre_CAF1_left   TA-CTTTATAAAAAGATACTATAACAGACAT---AAGTTTTGTTGAAAATAAGCTTTGAGGGTAAAAGTATTGTATTGA-CCTAACAAAAACAACATGCACCAAAGT--AAAGTTAGCAT
DroSim_CAF1_left   AAAATACAGTAATAGTAATAAT-ACTATTAA---TAAGGAGTAATAAGTCTTGTAAAAATATTGTAATTTAAAAAAAAA-ACTGCATCTTCCACATTCCACCAATTGTTAAAGTTAACCT
DroMel_CAF1_left   TT-CATATGCGTATAATAGGTAAACTTCTTTCATGCATGTTATATTTTATACAGTAATTGACATTAGTCTTGTAAAAATTTTGTACTTTTCCACTAAGTAGTGTTAA--AAAGTTAACCT

DroEre_CAF1_left   TGAGAAGACGCT-TTCAAAG-TAGAAGATCAAAAAGGATATTTGCATCGGCCGGGAATCGAACCCGGGCCGCCCGCGTGGCAGGCGAGCATTCTACCACTGAACCACCGATGCTGTTAGT
DroSim_CAF1_left   TGAGAAAGCCGT-TATAAAC-TTAATTATCAAAAAATCTATTTGCATCGGCCGGGAATCGAACCCGGGCCGCCCGCGTGGCAGGCGAGCATTCTACCACTGAACCACCGATGCTGTTGGA
DroMel_CAF1_left   TGAGAAAGG-GGTTTTT-CCCTTAAATATCAAAAAGCTATTTTGCATCGGCCGGGAATCGAACCCGGGCCGCCCGCGTGGCAGGCGAGCATTCTACCACTGAACCACCGATGCTGTTGGA

DroEre_CAF1_left   TAAATAGATTTTTCCTGCATAAAATTTTCCTATTGGCGAAAAAGTTGGCGAACATCTTTGCAAATG---GCCAAATGATGGT-AAAACCGGCTTTCACATGAAAAAGTTATATTAGGAAC
DroSim_CAF1_left   AAAG-CTAGTTTTTCCGCATAAAATTTCCATTTTGGCAAAAAAGTTGGCAAACATCTTTGAATATG---ATCAAATGATGGTTAAAACCGGCTTCCACACGAACAAGTTACATTAGAGAA
DroMel_CAF1_left   AAAG-TTAGGTTTTCCGCATAAAATTTTCCTTTTGGCAAAAAAGTTGGCAAACATCTTTGAATATGAATATCAAATTATGGTTAAAACCGGCTTTTTTTCATATGAAGAAGTTACAT---

DroEre_CAF1_left   AGCAAACCGG
DroSim_CAF1_left   AACCAAAC-G
DroMel_CAF1_left   AAGAAAAA-A