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


DroEre_CAF1_left   GTGA-ATTCTCTGTTTCGTGTGT--TTCACAATTCATGTTGGCCATT---CGTCATTCAGG-TTGTGAG-TGTTT--TTCGATTCGCGGCCTT-TGTGGGTGCATCTGATATCCG-GCGA
DroMel_CAF1_left   TTTT-CGTCTTGTCTTTTACAAT--TT----CACAATGTTGGCCATTCGTCGTCATTCATGACTGTGAG-TGTTT--TTCGATTCGCGGCCTT-TGTGGGTACATCTGAAAGCAA-CGGA
DroSec_CAF1_left   TGTT-T----CTGCTTGTGTTTCACAA-TTTCACCATCTTGGCCATT---CGTCATTCATGACTGTGAG-TGTTATTCGCGATTCGCGGCCTT-TGTGGGTGCATCTGAAAGCAG-CGGA
DroSim_CAF1_left   CTCGATGTTTCTGCTTGTATTTCACAA----TTTCATGTTGGCCATT---CGTCATTCATGACTGTGAG-TGTTT--TTCGATTCGCGGCCTT-TGTGGGTGCATCTGAAAGCAG-CGGA
DroYak_CAF1_left   AGTT-CTCTGTGTCTTCAAGACT--TTCACAATTCATGTTGGCCATT---CGTCATTCAAT-TGGTGAG-TGTTT--TTCGATTCGCGGCCCC-TGTGGATGCAACTGAAATGCG-GCGA
DroAna_CAF1_left   GAGA-TTCTCTTTCGAATT-TTG--TT-GGTTTTTTGTTATTGTTGG---TGTTATACTTA-A-AATTTAATTTG--TCCGAAAATTGTAGAATATATGAATGAGCAAAAAGTCGGGCGG

DroEre_CAF1_left   ATCTCGTAGGACCCTTTAGCGCATTGGATAGCGCGTTGGACTTCTAATCCAAAGGTGGCGGGTTCGATTCCCGCAAGGGTTGATTGCC--ATTAGCTGTGCTACT-----TTTT----TG
DroMel_CAF1_left   TTCTCGTTGGACCCTTTAGCGCATTGGATAGCGCGTTGGACTTCTAATCCAAAGGTGGCGGGTTCGATTCCCGCAAGGGTTGAAGTAC--TCCTTTTTTTGTACA-----TGCT----A-
DroSec_CAF1_left   TTCTCGTTGGACCCTTTAGCGCATTGGATAGCGCGTTGGACTTCTAATCCAAAGGTGGCGGGTTCGATTCCCGCAAGGGTTGAAGTAC--TCCTTTTTTTGT-----------T----T-
DroSim_CAF1_left   TTCTCGTTGGACCCTTTAGCGCATTGGATAGCGCGTTGGACTTCTAATCCAAAGGTGGCGGGTTCGATTCCCGCAAGGGTTGAAGTAC--TCCTTTTTTTGTACA-----TGCT----TA
DroYak_CAF1_left   TTCGCGTAGGACCCTTTAGCGCATTGGATAGCGCGTTGGACTTCTAATCCAAAGGTGGCGGGTTCGATTCCCGCAAGGGTTGATTGCC--ACTAGATGTACTACT-----TTTTTGCCTG
DroAna_CAF1_left   AAGTTGTAAGACCCTTTGGCGCAGCGGATAGCGCGTTGGACTTCTAATCCAAAGGTCGCGGGTTCGATCCCCGCAAGGGTTGAAAACACAAACT-----GTGTTACTTATATTT----AA

DroEre_CAF1_left   GCAAA----------------GGTAAGCG-AACATCAACAAATATTAAACAATTA---AAT-AGTCTTATTTTCTTCGCTTG---GCTTAGTG-AACCGTTGAGGGATTTGCCGC-CCAC
DroMel_CAF1_left   AAGA----------------ACTGAACTGGAATGCCAACAAATATTAAACAATTA---AAATAATCCTGCAAGCAGCAGTCATCATCAAAAGC---------ATTCAATACAAAATATTC
DroSec_CAF1_left   AGGA----------------ACTGAACTGGAATGCCAACAAATATTAAACAATTA---AAATAATCCTGCAAGCAGCAGTCA---TCAAAAGC---------ATCCGATAGAAAATATTC
DroSim_CAF1_left   GGGA----------------ACTGAACTGAAATGCCAACAAATATTAAACAATTA---AAATAATCCTGCAAGCAGCAGTCA---TCAAAAGC---------ATCCGATACCAAATATTC
DroYak_CAF1_left   GCAAATAAAATGCTTTGGCAACTGAACTGTAACACCAACAAATATTAAACAATTA---AGGTAATCCCGCAAGCAACAGTCA---TCAAAAGC---------ATCGAATAGAAAATAGTC
DroAna_CAF1_left   AAGAT----------------GTAACT---CTGATATACTAA---GTTGGGAAATAGAGCAGGGATTTTTTTTAAATTTATT---TTTTAAGTTATT-----TTTTTATGGATAAAAATC

DroEre_CAF1_left   TT---TTCAACCTCATTA
DroMel_CAF1_left   TA---TATTTCGGTA---
DroSec_CAF1_left   TA---TATTTCGGTACGG
DroSim_CAF1_left   TA---TATTTCGGTACGG
DroYak_CAF1_left   TA---AATTTCATTCGTT
DroAna_CAF1_left   CCTCGAACACCACCCACT