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


DroEre_CAF1_left   ATCCTGGCTTCCCTGTCCACCTTCCAGCAGATGTGGATCTCCAAGGAGGAGTACGACGAGTCCGGCCCTGGCATCGTCCACCGCAAGTGCTTCTAAGCAGTTGCAGTTGCCTAGCACCAC
DroMel_CAF1_left   ATCCTGGCCTCTCTGTCCACCTTCCAGCAGATGTGGATCTCCAAGGAGGAGTACGACGAGTCCGGCCCTGGCATCGTCCACCGCAAGTGCTTCTAAGCAGTTGCAGTTGCCTAGCACCAA
DroSec_CAF1_left   NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGGAGGAGTACGACGAGTCCGGCCCTGGCATCGTCCACCGCAAGTGCTTCTAAGCAGTTGCAGTTGCCTAGCACCAA
DroSim_CAF1_left   ATCCTGGCCTCTCTGTCCACCTTCCAGCAGATGTGGATCTCCAAGGAGGAGTACGACGAGTCCGGCCCTGGCATCGTCCACCGCAAGTGCTTCTAAGCAGTTGCAGTTGCCTAGCACCAA
DroYak_CAF1_left   ATCCTGGCTTCCCTGTCCACCTTCCAGCAGATGTGGATCTCCAAGGAGGAGTACGACGAGTCCGGCCCTGGCATCGTCCACCGCAAGTGCTTCTAAGCAGTTGCTGTTGCCTAGCACCAC
DroPer_CAF1_left   ATCCTGGCTTCCCTGTCTACCTTCCAGCAGATGTGGATCTCCAAGGAGGAATACGACGAGTCCGGCCCCGGCATTGTCCACCGCAAGTGCTTCTAAGCAGTTGC------CCAACACCCC
DroPse_CAF1_left   ATCCTGGCTTCCCTGTCTACCTTCCAGCAGATGTGGATCTCCAAGGAGGAATACGACGAGTCCGGCCCCGGCATTGTCCACCGCAAGTGCTTCTAAGCAGTTGC------CCAACACCCC

DroEre_CAF1_left   CACTAGCACCACCCGGTCTAGTCACCTGCCTCCTGCTCATCTGGTCCTGCTATTCG-TGGTGGTTCTGGGTTTGTGGGCGGCTGGT-GCTCCACCGGC---------AAAAACAACAAA-
DroMel_CAF1_left   CACTAGCACCACCCGGTCTACTCACCTGTCTCCTGCTCATCTGGTCCTGCTATTTG-TGGTGGTTCTGGGTGTGTGGGCGGCTGGT-GCTCCACCGGC---------AAAAACAACAAA-
DroSec_CAF1_left   CACTAGCACCACCCGGTCTAGTCACCTGTCTCCTGCTCATCTGGTCCTACTATTCG-TGGTGGTTCTGGGTCTGTGGGCGGCGGGT-GCTCCACCGGC---------AAAAACAACAAA-
DroSim_CAF1_left   CACTAGCACCACCCGGTCTAGTCACCTGTCTCCTGCTCATCTGGTCCTACTATTCG-TGGTGGTTCTGGGTCTGTGGGCGGCGGGT-GCTCCACCGGC---------AAAAACAACAAA-
DroYak_CAF1_left   CACTAGCACCAACCGGTCTAGTCACCTGTCTCCTGCTCATCTGGTCCTGCTACTCG-TGGTGGTACTGGGTGTGTGGGTGGCTGGTGGCTTCACCGGCAAACAAAAAGAAAACAAAACAC
DroPer_CAF1_left   CC----CACATCTCAACCCTCGGCGCCTGCCTCACCATAGCCTTT-GGCTACTTCTTGTGGTTCTTTGGCT-ATGTGGCGCAGGTGC-T-ACACCACC---------AACGCCATCAGA-
DroPse_CAF1_left   CC----CACATCTCAACCCTCGGCGCCTGCCTCACCATAGCCTTT-GGCTGCTTCTTGTGGTTCTTTGGCT-GTGTGGCGCAGGTGC-T-ACACCACC---------AACGCCATCAGA-

DroEre_CAF1_left   CACCACCACCATACAACCATTTGTTTTTGAATGTCATT-ATTTACCAACGTGTCATCCTTGGTTCGAGAATACTCTTTTGTACTGACTGAACA-CAAC-----ACCATC
DroMel_CAF1_left   CACCACCACCATCCAACCATTTGTTTTTGAATGTCATT-ATTTACCAACGTGTCATCCTTGGTTCGAGAATACTCTTTTGTACTGACTGAACA-CAAC-----ACCATC
DroSec_CAF1_left   CACCACCACCATCCAACCATTTGTTTTTGAATGTCATT-ATTTACCAACGTGTCATCCTTGGTTCGAGAATACTCTTTTGTACTGACTGAACA-CAAC-----ACCATC
DroSim_CAF1_left   CACCACCACCATCCAACCATTTGTTTTTGAATGTCATT-ATTTACCAACGTGTCATCCTTGGTTCGAGAATACTCTTTTGTACTGACTGAACA-CAAC-----ACCATC
DroYak_CAF1_left   CACCACCACCATACAACCATTTGTTTTTGAATGTCATT-ATCTACCAACGTGTCATCCTTGGTTCGAGAATACTCTTTTGTACTGACTGAACA-CAAC-----ACCATC
DroPer_CAF1_left   GATGCCTAC-------CCATTTGTTTTTGAATGTCATTAGTTTACCAATGTGTCATCCTTGGTTCCAGAATACTCTTTTGTACTGACTGAACAACATCAATCAATCAAT
DroPse_CAF1_left   GATGCCTAC-------CCATTTGTTTTTGAATGTCATTAGTTTACCAATGTGTCATCCTTGGTTCCAGAATACTCTTTTGTACTGACTGAACAACATCAATCAATCAAT