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


DroGri_CAF1_left   TTTA-GTTTTTGGTACTTGTGAAACTCTA-TACGAAAAACA-GATTC------------GCAAAAAAAATGTATATAT-ATAT-ATATATATATAT--ATTTTT----------TTTAAT
DroMoj_CAF1_left   TATT-GTAATTCGC-TTCTTATGTTTGGGGGCA-CTCGTGA-AACTC---TATATCAAAAATGA---------TATAT-GTAT-GCTCGTATATTA--AAGAAAAAAGTATA--TCAGAA
DroVir_CAF1_left   TTCT-ACCTGTTTT-TATTTGAATTTTTTGGTAGCAATTAT-TTTGC-----AATTCGGTTCTTTTGGGCACTTGTGA-AATT-CTATACACAAAA--AAAAAA----------GAGGAT
DroAna_CAF1_left   CCAT-TGTT-TG-T-CTACCTGTCTACCT-GTTTTAAGCAAAGAATTTTGGGAGGATTTTTAAA---TATGATCAAGATGCTCCATGTACTTGCTGAAACTCT-ATATTCCTCGTAGCAT
DroEre_CAF1_left   TTGATCAGTGGT-C-CTATTGTTTGCCTA-CCTGCCTACCT-GTTGATGGTATTATTTTTGAAT---CTTTATCAAGATGTTC-CTGTACTTGCTGAAACTCA-ATATTCGTGATCTTGT
DroMel_CAF1_left   TGGT-CGATGCT-C-CTATTGTTCGCCTA-CCTGCCTACCT-GTTGATGGTATTATTTGTGAAT---GTTTATCAAGATGTTCCATGTACTTGCTGAAACTCA-ATATTCGTGATCTGAT
DroSec_CAF1_left   TGGT-TGGTACT-C-CTATTGTTCGCCTA-CCTGGCTACCT-GTTGATGGTATTATTTGTGAAT---GTTTATAAAGATGTTCCCTGTACTTGCTGAAACTCA-ATATTCGTGATCTTGT
DroSim_CAF1_left   TGGT-TGGTACT-C-CTATTGTTCGCCTA-CCTGCCTACCT-GTTGATGGTATTATTTATGAAT---GTTTATCAAGATGTTCCCTGTACTTGCTGAAACTCA-ATATTCGTGATCTTGT
DroYak_CAF1_left   TGATCCTGTGCT-C-CTATTGTTTGCCTA-CCTGCCTACCT-GTTGATGGTATTAT-TTTGAGT---CTTTATCAAGATGTTCTCTGTACTTGCTGAAACTCA-ATATTCGTGATCTTGT

DroGri_CAF1_left   ATATA--TATTCTTAAACGTGTACCATAAATTGCTTGCAGGACGGGAAGGTGTCAACGTTTTGCATTTTGAATCAAACATTGCACTTGTCCCGGCCTATGAGCGGTTTGTGCATCTACAA
DroMoj_CAF1_left   CTGCA--ATAC--C-----CAAATCATAAATTGCTTGCAGGACGGGAAGGTGTCAACGTTTTACCTTTTGATTCAAACATTGCACTTGTCCCGGCCTATGAGCGGTTTATCTTACAACAA
DroVir_CAF1_left   CGACA--ATATGGC-----TTTATCACAAACTGCTTGCAGGACGGGAAGGTGTCAACGTTTTGCTTTATGAATCAAACATTGCACTTGTCCCGGCCTATGAGCGGTTTGTGCCACAACAA
DroAna_CAF1_left   TTTCCATCGAA--T-----AT-AATACAAATTTCCCGTAGGACGGGAAGGTGTCAAGGTTTTGAA-TTAAAT-TAAACATTGCACTTGTCCCGGCCTATGGGCGGTTTGTCAAA-CACAT
DroEre_CAF1_left   TTTCGGCCGAA--T-----ATGAATATGAATTTCCCGTAGGACGGGAAGGTGTCAACGTTTTGCATTTCGAA-TAAACATTGCACTTGTCCCGGCCTATGGGCGGTTTGTAATA-AACAA
DroMel_CAF1_left   TTTCAGCCGAA--T-----ATAAATATGAATTTCCCGTAGGACGGGAAGGTGTCAACGTTTTGCATTTCGAA-TAAACATTGCACTTGTCCCGGCCTATGGGCGGTTTGTAATA-AACAA
DroSec_CAF1_left   TTTCAGCCGAA--T-----AAAAATATGAATTTCCCGTAGGACGGGAAGGTGTCAACGTTTTGCATTTCGAA-TAAACATTGCACTTGTCCCGGCCTATGGGCGGTTTGTAATA-AACAA
DroSim_CAF1_left   TTTCAGCCGAA--T-----AAAAATATGAATTTCCCGTAGGACGGGAAGGTGTCAACGTTTTGCATTTCGAA-TAAACATTGCACTTGTCCCGGCCTATGGGCGGTTTGTAATA-AACAA
DroYak_CAF1_left   TTTCGTTCGAA--T-----ATGAATATGAATTTCCCGTAGGACGGGAAGGTGTCAACGTTTTGCATTTTGAA-TAAACATTGCACTTGTCCCGGCCTATGGGCGGTTTGTAATA-AACAA

DroGri_CAF1_left   CTGGTTTAAAATC----TACAGC--CT-AAAACTA-AA-TAT-GT-----ATATTACG--TCAAATCG-GAATGCCTTTGTTA-TTATTAAATATGTT-ATTACGAT--G--TATGTGCG
DroMoj_CAF1_left   TCAGGTCCAATA-----GAGTAG--AG-TATATAT-AA-ACA-CG-----TATGTATG--TAAATTTT-TCAAAACTAAACAA-GCCTTAAGTTTAAATATAAAAAATATATATAACTTA
DroVir_CAF1_left   ACGATTGAAAATA----TGAAAA--AT-ATATGTA-TA-ACT-AG-----ACATCTCT--CTTAAGCT-TAAATATAAAAAAA-TAACCCAGTATGTT-AAGTTATA--T--TAATCGTA
DroAna_CAF1_left   CGATACATATTTTTAGAAATATT--TA--AAATTTGGA-TAAATTATATTCCATAACTAACTTGTAT--TATTTCTCTTTCAGATCTCATCTACAAAAGAAAACGACTTCA-AAACACCT
DroEre_CAF1_left   CTGAAATGAATTTTATATATGTA--TA--TATTAT-TACTAA-AG-----CCATACCT--TGAATATT-TACTTATGAAATAT-TTTCTGTTGTTTCAGATCTCAAATTTG-CAATACCA
DroMel_CAF1_left   CTAAAATCT--ATAA--AATTTA--TT--TATTAT-TACTAA-AG-----TCATGTCT--CGTATTTT-TGCTTATGAAATAT-TTTCTGTTGTTTCAGATCTCGAATTCG-CAATATCA
DroSec_CAF1_left   CTAAAATCA--ATCA--AATTTA--TT--TATTAT-TACTAA-AG-----CCATGTCT--CGCATTTT-TATTTATGATATAT-TTTCTGTTGTTTCAGATCTCTAATTCG-CAATATCA
DroSim_CAF1_left   CTAAAATCA--ATAA--AATTTA--TT--TATTAT-TACTAA-AG-----CCATGTCT--CGCATTTTTTGTTTATGATATAT-TTTCTGTTGTTTCAGATCTCTAATTCG-CAATATCA
DroYak_CAF1_left   CTAAAATGCATTTTATTTATATATATTTATCGTAT-TACTAA-AG-----CCATGCCT--TGAATAGT-TACTTATGAAATAT-TTTCTGTTGTTTCAGATCTCAATTTTG-CAATACCA

DroGri_CAF1_left   -GATG-TGT-TT
DroMoj_CAF1_left   GTATGTTAA-GT
DroVir_CAF1_left   -AGAA-ATA-TT
DroAna_CAF1_left   ATTTTTTAGACG
DroEre_CAF1_left   GAACAT-----G
DroMel_CAF1_left   GAACATCTG-TG
DroSec_CAF1_left   GAACGTCTG-TG
DroSim_CAF1_left   GAACGTCT--GT
DroYak_CAF1_left   GAA---------