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


DroAna_CAF1_left   AA-------------AAACCCT-----ATCTCACATATATGTGTGTGTGTGTGTTTGATTTCCGGTTAACCTCCAGTAGAAAAAAAAAAAATAAAAGAAAAAGTAGAAAAAA--AAAGTT
DroWil_CAF1_left   AC-------------CACAAAA-----AAAAACCAAAAAAAAATGGAACAAAACGATTCATACCAAAAAAGAATAGAAGAGAACAACCCATTTTATATTTATGTGTGTGTTC--CTCTCT
DroEre_CAF1_left   TA-----------ACTTGAAAA-----AACTACCCATGTGATATCCGGTTAACCTCCAAGAATTGCAAAAGAAAGCAAAACCAAAAAAAAAAAGGGAAGTACGTT-GCAA-A--AAACTT
DroMel_CAF1_left   CCTATTAAAGCTAACTAGAAAA-----AACTACCCATGTGATATCCGGTTAACCTCCAAGAATTGCGAAAGAAAAAAACTA-------CAAGAAGGTTGCA-CAA----A-A--AAAATT
DroSec_CAF1_left   -------------ACTAGAAAA-----AACTACCCATGTGATATCCGGTTAACCTCCAAGAATTGCGAAAGAAAAAAAGTTGAGAATTGAAGAAGGTTGCAGCAA-AAAA-AAATTCTTT
DroSim_CAF1_left   T-----------AACTAGAAAA-----AACTACCCATGTGATATCCGGTTAACCTCCAAGAATTGCGAAAGAAAAAAAGTTGAGAATTGAAGAAGGTAGCAGCAA-AAAA-A--AACTTT
DroYak_CAF1_left   CTA----------ACTAGGAAAAAAAAAACTACCCATTTGATATCCGGTTAACCTCCAAGAATTGGGAAAGAAAAAA-------AAAACACAGGAGAAGAAGGTT-GCAAAA--AAGTTT

DroAna_CAF1_left   TCCCATACCGGGAATCGAACCCGGGCCTTCTGGGTGAAAGCCAGATATCCTAGCCACTAGACCATATGGGAGCCACAAGTGCCTAGCTCCAAATATCATACATAGATA----GTT-CTTT
DroWil_CAF1_left   TCCCATACCGGGAATCGAACCCGGGCCTTCTGGGTGAAAGCCAGATATCCTAGCCACTAGACCATATGGGAGCTATGGATAT--G-CTCCTAATATCATCATCATTCT----CAC-TATG
DroEre_CAF1_left   TCCCATACCGGGAATCGAACCCGGGCCTTCTGGGTGAAAGCCAGATATCCTAGCCACTAGACCATATGGGAGCCACGAATGGCGA-CTCACATTTTCATAGTTCGTTTTTCACTCACTTT
DroMel_CAF1_left   TCCCATACCGGGAATCGAACCCGGGCCTTCTGGGTGAAAGCCAGATATCCTAGCCACTAGACCATATGGGAGCCACAATTGGCAA-TTCCCATTTACATACTATCTTTTTCACTCACTTT
DroSec_CAF1_left   TCCCATACCGGGAATCGAACCCGGGCCTTCTGGGTGAAAGCCAGATATCCTAGCCACTAGACCATATGGGAGCCACAATTGGCAA-TTCCCATTTCCATACTATGTTTTTCACTCACTTT
DroSim_CAF1_left   TCCCATACCGGGAATCGAACCCGGGCCTTCTGGGTGAAAGCCAGATATCCTAGCCACTAGACCATATGGGAGCCACAATTGGCAA-TTCCCATTTCCATACTATGTTTTTCACTCACTTT
DroYak_CAF1_left   TCCCATACCGGGAATCGAACCCGGGCCTTCTGGGTGAAAGCCAGATATCCTAGCCACTAGACCATATGGGAGCCACAATTGGCAG-TTCACATTTTCATAGTTTGTTTTTCACTCACTTC

DroAna_CAF1_left   --CCCCTCACGAATATCAGAAGAAGAAAA--TA-ACATCTCAAGGAGGGGGAGGAATAGGAATAGGGGCCAGGCCATGGCGTACAATTTGTTCATAAATAAATTCACGC
DroWil_CAF1_left   --AAAACCGAAAAACTAATAAACAAGAAT--AA-CTCGTAAAAAGTTTCTCACCATGAG-AAGAGACACA-----AGGACTGACAAAGTGG-------A-AGGAGGAAG
DroEre_CAF1_left   TCAACATCGCAGCGGAAAAGACCCAGAAG--AGTCATCAGCATAAGAAAATAAATCATT-TTC-------------ACGCTAATATTAGGGGATGTGCAGCTGGTAGCG
DroMel_CAF1_left   TCAACATCGCAGCGGAAAAGACCCAGAAGAGAGTCATCACAATAAGAAAATAAATAATA-TTC-------------ACGCTAATATTAGGGGATGTGCAGCTGCTAC--
DroSec_CAF1_left   TCAACATCGCAGCAGAAAAGACCCAGAAG--AGTCATCACACTAAGAAAATAAATAATA-TTC-------------ACGCTAATATTAGGGGATGTGCAGCTGCTGCCG
DroSim_CAF1_left   TCAACATCTCACCGAAAAAGACCCATAAA--AGTCATCACACTAAGAAAATAAATAATA-TTC-------------ACGCTAATATTAGGGGATGTGCACCTGCTGCCG
DroYak_CAF1_left   TCAACATCGCAGCGGAAAAGACCCAGAAG--AGTCATCAGAATAAGAATATAAATAATA-TTC-------------ACGCTAATATTAGGGGATGTGCAGCTGCTGCCG