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


DroEre_CAF1_left   AAGTTGTA-AGCAGGAAATTACTGCAGATACATATGTTGCATTCAGATTACTAAAGACGTCGTCACCATGGCAAATA-----GC---TTGGACCTAA-----GTGGCTCCTGGGTCGACA
DroMel_CAF1_left   ATAAAAGCAAGGTAG-GGTCTGAAATTTCCAATATGTTGCGCTCAGATTACTAAAGACGTCGTCACCATGACAAACA-----GC---TTAGACCTAA-----CTGGCTCCTGGGTCGACA
DroMoj_CAF1_left   AATT----TGGTGCA--TTCATTTACTAGG-AGCAGCAGCACTCAGATTACTAAAGACGTCATCAATGTGGCAACAACGTCTGCCTTGGCCACTGCT-----GTGT--TTTGGGGCGACA
DroSec_CAF1_left   TGAA-AGCAAGTTATAGAGCTGGAATTCTCTATATGTTGCGCTCAGATTACTAAAGACGTCGTCACCACGGCATATA-----GC---TTAGACCTAA-----GTGGCTCCTGGGTCGACA
DroSim_CAF1_left   TGAA-AGCAAGTTATAAAGCTGGAATTTTCTATATGTTGCGCTCAGATTACTAAAGACGTCGTCACCACGGCATATA-----GC---TTAGACCTAA-----GTGGCTCCTGGGTCGACA
DroVir_CAF1_left   ATT-----TTAAATA--CAAATATTTGGCA-TGGATGAGCACTCAGATTACTAAAGACGTCGTCAATGTGGCAACAAAACCTGCCTCAGCTACTGCT-----GTGT-GTTTTGGGCGACA
DroYak_CAF1_left   GGCA-GGCCGTAAAGCAGAAAATTACTACATATAGGTTGCATTCAGATTACTAAAGACGTCGTCACCATGGCAAATA-----GC---TTAGCCCTAA-----GTAGCTCCTGGGTCAACA
DroGri_CAF1_left   TACA-TA---TATATAA-AGA-TAATTAGCATAGTTGAGCACTCAGATTACTAAAGACGTCGTCAATGTGGCAACAA-----CA---CCTGCCTCGATAACTACTGTGCATGGGGCGACA

DroEre_CAF1_left   ATAGTGCG-T--GTTTCATTTCTAGTTGGGTGTTCTGTAAGCCAGAAACTAAACTATCTGTCTAGGACTTAA-GGACAGATAATAG----TCTTGATACC-TG---GCATGTGGTGTCCC
DroMel_CAF1_left   AAAGCGCG-T--GTTTCATTTCCATTTGGGTGTTCTGTAAACCAGAGACTAAACTATCTGTCTAGGACTCAA-TGACAGATAATAG----TCTTGATCCC-TG---GCTGTTGGTGTCCC
DroMoj_CAF1_left   ATAGCACTAT--GTTTCATTG-ATTAGTTAAAATTG-TGCGCCCACGCCTAAATCATCTGCCTTG-ACTCGA-TGGCAAACAACAG----TCTAGCGTTAAAT---GGCATTGCTGTTCC
DroSec_CAF1_left   ATAGCGCG-T--GTTTCATTT-CATTTGGGTGTTCTGTAAGACAGAGACTAAACTACCTGTCTAGAACTTAA-GGACAGATAATAG----TCTTGATCCC-TG---GCTATTGGTGTCCC
DroSim_CAF1_left   ATAGCGCG-T--GTTTCATTT-CTTTTGGGTGTTCTGTAAGCCAGAGACTAAACTATCTGTCTAGGACTTAA-GGACAGATAATAG----TCTTGATCCC-TG---GCTGTTGGTGTCCC
DroVir_CAF1_left   ATAGCACT----GTTTCAATA-AAAAATAAAGATTG-TACGCCCAAGCCTAAATCATTTGTCTTG-ACTTAA-TGACAAATAACAG----TCTAGCATTAAAT---GGCATTGCTGTTCC
DroYak_CAF1_left   AAAGTGCG-T--GTTTCATTTTTATTTTGGTGTTCTGTAAGCCAGAAACTAAACTATCTGTCTAGGACTTAA-GGACAGACAATAG----TCTTGATACC-TG---GCTTTTGGTGTTCC
DroGri_CAF1_left   ATAGCACCTAGCGTTTCATTT-AAAATAAGATAATTGTGAGCCCACGCCTAAATTATTTGGCTTTAGCTTGAGCGACAAACAACAGTCTAGCGT-AAAAA-TGGCAGCGTTTGTTGTTCC

DroEre_CAF1_left   GCTGGCCTTACGGCTACTGCCA-ATTCTGGAGTGCAGCAGCAAAGATTACAACGGATGAAACTAAATTTGCTAAAGTCTGAGCCTTAGGTCCGGTCGCCAATGCG-----CAAACTCCGA
DroMel_CAF1_left   GCTGGCCTTACGGCCACTGCAA-ATTCTGGAGTGCAGCAGCAAAGATTACAACGGATGAAACTAGATTTGCTAGAGTCTGAGCCTTAGGTCTTGTCGCCAATGCG-----CAAACTCCGA
DroMoj_CAF1_left   GTTGGCCTTACAGCAACCGCCGCATACTCCGAGGCGGCCGCTAAGATTACAGCGGACGAAACCT--TGTGCTATTATCTGTGAGTGAGTCTCGGGTA--ACAGCAGTGGCCTCGAGCAGC
DroSec_CAF1_left   GCTGGCCTTACGGCCACTGCAA-AGTCTGGAGTGCAGCAGCAAAGATTACAACGGATGAAACTAGATTTGCTAGAGTCTGAGCCTTAGGCCTGGTCGCAAATGCG-----CAAACTCCGA
DroSim_CAF1_left   GCTGGCCTTACGGCCACTGCAA-ATTCTGGAGTGCAGCAGCAAAGATTACAACGGATGAAACTAGATTTGCTAAAGTCTGAGCCTTAGGTCTGGTCGCAAATGCG-----CAAACTCCGA
DroVir_CAF1_left   GTTGGCCTTACAGCAACCGCTACATGCTCTGAGCCAGCCGCTAAGATTACAACGAACGAAACTG--TGTGCTATTGTCTGTGAGTGAGTCTCTGGTTACACAACAGTCGCCTCGAGCAGC
DroYak_CAF1_left   GCTGGCCTTACGGCCACTGCCA-ATTCTGGAGGGCAGCAGCAAAGATTACAACGGATGAAACAAAATTTGCTGGAGTCTGAGCCTTAGGTCCGGTCGCAAATGCG-----CAAACTCCGA
DroGri_CAF1_left   GCTGGCCTTACAGCGACCGCCGCATGCTCCGAGACGGCCGCTAAGATTACAACGGACGAAACTG--TGTGCTTTTGTCTATTGAGTCGTTGA-CACGGCAGTTA-----CCTCAAGCAGC

DroEre_CAF1_left   TGTCGAATATGTCATCATGGGCAAAAGGGTG-TTTGT-ACAA-CATAGCTACACACTTACT-CTG
DroMel_CAF1_left   TGTCGAATATTTCATCATGGGCAAAAGGGCTGTTTGT-ACGAACAAATCGCTTCAC--ACT-CAC
DroMoj_CAF1_left   AGACGTGTGCACTTGCTACGCCCATTGGTC-GTAGCT-TCG--GTTGTCGAATATG--TCA-TCA
DroSec_CAF1_left   TGTCGAATATTTCATCATGGGCAAAGGGGCTGTTTGA-ACGAAGAAATCGCTTCAC--ACT-CAC
DroSim_CAF1_left   TGTCGAATATTTCATCATGGGCAAAAGGGCTGTTTGT-ACAAAGAAATCGCTTGAC--ACT-CAC
DroVir_CAF1_left   AGGAGTGTGCGCTTGCCGCGCTCATT-GGC-GCAGCT-TCG--GTTGTCGAATATG--TC--ATC
DroYak_CAF1_left   TGTCGAATATGTCATCATGGGCAAAAGGGGTGTTTGT-ACGG-CAAAGCTTTATAC--TTACTCT
DroGri_CAF1_left   AGGTGTCTGCGCTGGCTGCACCCTTGGTGCAGCTTCGGTTGTCGAATAT-TTCATC--ACAGTTG