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


DroMel_CAF1_left   AA--CAAATGAACCCAATCTTATCAAGAG-AGTAATACATATGCACGAATTTGTTGACATCAGCATTTCTGACCTTAAAACTTATTTATAAAATCACTTTTCCGCTTGCCATCAGCAACA
DroSec_CAF1_left   AA--CAAATAAACGCAATCTTATCAAGAG-AGTAATACATATGCACGAATTTGTTCACATCACCATTTCTGGCCTTAAAACTTATTTGTGAAATCACTTTATCGCTTGCCATCAGCTACA
DroSim_CAF1_left   AA--CAAATAAACGCAATCTTATCAAGAG-AGTAATACATATGCACGAATTTGTTCACATCAGCATTTCTGGCCTTAAGACTTATTTGTAAAATCACTTTATCGCTTGCCATAAGCTACA
DroYak_CAF1_left   TA--GTAATTTAATTATACAACTAAATATAATCTTATCATATGCACGAATTTGTTCACAACAACTTTTCTTGATC-TAAACTTATATGCAACATCACTTTTCCGCTTGACATCAGCTTCA
DroEre_CAF1_left   TATACAACTAAGCCCAATCTTATCAAGTG-GGTAATACATATGCACGAATTTGGTCACGACAACTTTTTTTGCTT-TAAACTTAAATG-AAAATCACTTTTCCGCTTGACATCAGCTTCA

DroMel_CAF1_left   CTTTTTCGATGGATATTGAACCACACAAACCTCTCTAGAACCGAATTTGTCCTTAAAGCTAGTATAAAACAAATTCGGATCTACAGGGTAGACGTGGAGCAAACTGATGAGGAAC---A-
DroSec_CAF1_left   CTTTTTCGATGGATATTGAACCACACAAACCTCTCTAGAACCGAATTTGTCCTTAAAGCTAGTATAAAACAAATTCGGATCTACAGGGTAGACGTGGAGCAAACTGATGAGGAAC---A-
DroSim_CAF1_left   CTTTTTCGATGGATATTGAACCACACAAACCTCTCTAGAACCGAATTTGTCCTTAAAGCTAGTATAAAACAAATTCGGATCTACAGGGTAGACGTGGAGCAAACTGATGAGGAAC---A-
DroYak_CAF1_left   CTTTTCCGATGGATATTGAACCACACAAACCTCTCTAGAACCGAATTTGTCCTTAAAACTAGTATAAAACAAATTCGGATCTACAGGGTAGACGTGGAGCAAAGTGATGAGGAACGTCAG
DroEre_CAF1_left   CTTTTCCGATGGATATTGAACCACACAAACCTCTCTAGAACCGAATTTGTCCTTAAAGCTAGTATAAAACAAATTCGGATCTACAGGGTAGACGTAGAGCAAACTGATGAGGAAC-----

DroMel_CAF1_left   ---GTCGCTGGGGCGAAATGAAGTCCGCTAGGCAATCGCGGCTGCAAAAAAAAAAAGTGAAAATGTTAATAAACATATACAATGTGTGTGTTCAAGGCGGGGTAATTTAGGCAGCGCCGC
DroSec_CAF1_left   ---GTCGCTGGGGCGAAATGAACTCCGCTGGGCAATCGCGGCTGCAAA--AAAAAAGTGAAAATATTAATAAACATATACAATGTGTGTGTTCAAGGCGGGGTAATTTAGGCAGCGCCGC
DroSim_CAF1_left   ---GTCGCTGGGGCGAAATGAACTCCGCTGGGCAATCGCGGCTGCAAA---AAAAAGTGAAAATGTTAATAAACATATACAATGTGTGTGTTCAAGGCGGGGTAATTTAGGCAGCGCCGC
DroYak_CAF1_left   TTCGTCGCAGGGGCGAAATGAACTTCGCTGGGCAATCGTGGCTGCAA-----AAAAGTGAAAATGTTAATAAACATATACAATGTGTGTGTTCAAGGCGGGGTAATTTAGGCAGCGCCGC
DroEre_CAF1_left   ---GTCGGAGGGGCGAAATGAACTGCGCTGGGCAATCGCGACTGCAAA----AAAAGTGAAAATGTTAATAATCATATACAATGTGTGTGTTCAAGGCGGGGTAATTTAGGCAGCGCCGC

DroMel_CAF1_left   AA--T---
DroSec_CAF1_left   AATTA---
DroSim_CAF1_left   AATTAC--
DroYak_CAF1_left   AATTACAT
DroEre_CAF1_left   AATTACA-