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


DroEre_CAF1_left   GAATTCTCAATAACC----TAA---AAATTTAAAA-AAAAAATCCTAAAATAATTAATGTTTTATAAAAATCCAGAAAGTTTACTTTAGTAA----TGTATTTAGTTGATCTTTATCAGA
DroYak_CAF1_left   ACAGAATTCTTAATA----ACA---TACAAATATT-TTAAAAGCCCTAAAATAATTAATGGTGTAATAAAAACAGAAATAATATTTTTATAA----AGTATTCAGTTAATCAA-------
DroMel_CAF1_left   TAAATTGTATATAATTGTGTACACATGCAACTAAATGTGTATTCTCAATAACTTAAAAATATTTTA-AAATAAATATTTATAAAATATAACTTTTTTGTTTAAA---------AATTATA
DroSec_CAF1_left   TTTGCTTATATATTA----CATATGTGCAACTAAATGTGTATTCTCAATAACTTAAAAATATTTTA-AAATAAATATTTATAAAAATGCAAT----TTTTATTA---------TATCTAA
DroSim_CAF1_left   TTTGGCTTATATATA----CATATGTGCAACTAAATGTGTATTCTCAATAACTTAAAAATATTTAA-AAATAAATATTTATAAAAATACAAT----TTTTATTT---------TATCTAA

DroEre_CAF1_left   GCACAAAAAATGTTCTT-TGTCCACTTGGGCTCGTCCGGGAATTGAACCCGGGACCTCTCGCACCCGAAGCGAGAATCATACCTCTAGACCAACGAGCCGTGCTGAACGCCGGTTGACTA
DroYak_CAF1_left   --A-AAAAATTATTCTC-ATTCCACTTGGGCTCGTCCGGGAATTGAACCCGGGACCTCTCGCACCCGAAGCGAGAATCATACCTCTAGACCAACGAGCCGGGTTGAACGGCCGTCGACTA
DroMel_CAF1_left   CATTCCTTAGC-GCACTGGGATGACTGGGGCTCGTCCGGGAATTGAACCCGGGACCTCTCGCACCCGAAGCGAGAATCATACCTCTAGACCAACGAGCCGGTTTGAACCTCAGTCGACTA
DroSec_CAF1_left   AAATTTTACAT-TCTTC-AGCGCACTTGGGCTCGTCCGGGAATTGAACCCGGGACCTCTCGCACCCGAAGCGAGAATCATACCTCTAGACCAACGAGCCGGATTGAACCGCAGTCGACTA
DroSim_CAF1_left   AAATTT-AAAT-TCTTT-AGCGCACTTGGGCTCGTCCGGGAATTGAACCCGGGACCTCTCGCACCCGAAGCGAGAATCATACCTCTAGACCAACGAGCCGGATTGAACCGCAGTCGACTA

DroEre_CAF1_left   ATTACTCAATTTAAAGTAGGCTCAAAAAAAAAA--AAATACAAATCTTAGTCATCATTAATTAGAAGACTCTCTTATTTGCTGATCCA---GAATGAAGAAAACTAAAG-------CCAA
DroYak_CAF1_left   ATTACTCAATCTAAAGTAGGCTCAAAAAAAAAAAGAAAAATATAGCCCTTACATAAGCTTCCGCTCAAAAACTTTACCCACAAGTCGC---TCAAGATTACG--TCATC-------GTAC
DroMel_CAF1_left   ATTACGCAATCTAATGTAAAA--AAAAAACT-TACATATAGCCATT----ACAAAAGGTTCCACAAGTCA------CTTAAAATTACGTTATCTTATTCTCT--CCATATAGACAACTAA
DroSec_CAF1_left   ATTAGGCAATCTATTGTAAGCCCAAAAAACT-TCCATATAGCCA----TTCCATAAGGTTCCGCTTAAAA--TTCACCCAAAATGATG---TTATCTTCTCT--CCATTTAGCCAACCAA
DroSim_CAF1_left   ATTAGGCAATCTAGTGTAAGCCCAAAAAACT-TCCATATAGCCATA--TTCCATAAGGTTCCGCTTAAAA--GTCATCCAAAATTATG---TTATCTTCTCT--CCATATAGCCAACCAA

DroEre_CAF1_left   AAACT---TT
DroYak_CAF1_left   TCTCT---AT
DroMel_CAF1_left   TTATTAGGCT
DroSec_CAF1_left   TTATT---AG
DroSim_CAF1_left   TTA-----TT