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


DroEre_CAF1_left   TGCCC-AGCACTCTGTGATTCAGCGGCTATTTTTAAACTCCG-ATCAGAATAATCTCAAAAT-CAAACGAAACGAGCAAACAGCGATCTG-CATGCTGCGCG-ACTGAAGTTGGCTTTTG
DroMel_CAF1_left   GA-CC-AACACTACATGATTCAGCGGCTATTTATAAACGACG-ATCAGAATAATCTCCAAAATCAAAC-GAACGAGCAAAAAGCGATCTTGCACGGCGCGCG-ACTGAAGTTGGCTTTTG
DroSec_CAF1_left   A--CC-AACACTAAATGATTCAGCGGCTATTTTTAAACGACGGATCAGAATAATCTCCAAAATCAAAC-GAACGAGCAAAAAGCGATCTTGCATGGCGTGTG-ACTGAAGTTGGCTTTTG
DroYak_CAF1_left   T--CT-GACCATCCATGATTCAGAAGCTATATATAAACGTCGA-TCAGAATAATCTCAAAACTTAAACCAAACGAGCAAAAATCGATCTCGCACGCTGCGCG-AATGAAGTTGGCTTTTG
DroAna_CAF1_left   C--AGTAGC-TATAAATAGCCGTCTTTAAAAATACATATCCG-CGATCAACAAGAAAATATGCTAAGA-CATCGACCCAACATCGATCTTGTTCGGGCAGCTCTCTGAAGTTCGGAGTTG

DroEre_CAF1_left   GCGCGCCACGTTGTCATATCCCATATTGTCTAGTGGTTAGGATATCCGGCTCTCACCCGGAAGGCCCGGGTTCAATTCCCGGTATGGGAAATATGGAACAGTTTTCTTTTC-AA--TACA
DroMel_CAF1_left   GCGCGCCACGTATTCATATCCCATATTGTCTAGTGGTTAGGATATCCGGCTCTCACCCGGAAGGCCCGGGTTCAATTCCCGGTATGGGAAATATGGTTCAATTCATTTTTTGAA--TAAA
DroSec_CAF1_left   GCGCGCCACGTATTCATATCCCATATTGTCTAGTGGTTAGGATATCCGGCTCTCACCCGGAAGGCCCGGGTTCAATTCCCGGTATGGGAAATATGGTTCATACTTTTTTTTAATA-AACA
DroYak_CAF1_left   GCGTGCCACGTAGTTATATCCCATATTGTCTAGTGGTTAGGATATCCGGCTCTCACCCGGAAGGCCCGGGTTCAATTCCCGGTATGGGAAATATGGAATAGATTTTTTTTTGAA--TACA
DroAna_CAF1_left   GCGCGCCACGTCTTCAAGTCCCATATTGTCTAGTGGTTAGGATATCCGGCTCTCACCCGGAAGGCCCGGGTTCGATTCCCGGTATGGGAAACTTTTTTTGCATATTTTTTTAAAGATTTA

DroEre_CAF1_left   C-GAATATTATAATGCT-GTTGTTT-TATATTGAATAATCCT--CGAG-GT--CACCTTTCAGGA--C--TGACAGCTTTTTTATTGATTTTAAGATGAAACAACTCAGGTTATTTAATA
DroMel_CAF1_left   C-AAATAATTTGATGGT-GTTGTTTTTTTACATAAACCTTTT--GCAGCAT--TTCGACTTATTT--T-GAGATATC-GAATGAAGGAAC-TCAGATTATTCAAAATAAAGGTGAAAGTA
DroSec_CAF1_left   TTACCATATTATTGCTGTTTTGTGT-TTTCTGACATAAGCCT--TGAG-AT--ACCACTTTAGAC--T-TTTGGAGCACTTTGACCGAT--TATGAAATATCGAATGAAAGAACTC-TTA
DroYak_CAF1_left   T-AATATATTATACAACTTTTATGT-ATTATTACATAAGCCT--CGTG-GT--AACTTTTTAGAA--TTAGCACCACATTTTTATTGAT--GTTATGATATCGAATGAAAAAACTCAGGT
DroAna_CAF1_left   T-TTATATTTTAATTAT-ATAATTTATTTATAA-AAATTATTAAATTATATTTTTTT--GGGCAGAAA-ATTAAAATTCTATGAGAAAT--TTTATTAAAATTCTTTCCA---AA-AATA

DroEre_CAF1_left   TTAGGGGAACA
DroMel_CAF1_left   -TTACAAAGAT
DroSec_CAF1_left   TTATTAAAATA
DroYak_CAF1_left   TTTTTAATATT
DroAna_CAF1_left   AAAATTTAGAA