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


DroAna_CAF1_left   ATATTATAAAAAACCTAT-CAAAAGT-TTGTTTTTTGTAAGTTATTGTTTAGTTGG-AGACTCATA---GGATCTTTTAAT-TATATC--CTTGCATCCCTTATAAATT-ATA--AAAAA
DroEre_CAF1_left   TTTAATTTTTTATTTCCTCCTATCAAAAGTATAT-TGATTTTTACG-C---TGGAA-AGATTATAA---ATAT--AATTTA-TATCGCT-AGAAATAAAATAAGGATATAATT--AAAAA
DroMel_CAF1_left   TATTGCTTTCGTTTAAACAAAAGTATATTGATTTTAACCCTAGAAA-A---GATTA-GAAATGTAA---TTAACATGGAGA-CCAATAAAATAAATTAAGGATAAAATTAAAAAGAAAAA
DroPer_CAF1_left   TTATCTTGTTGGGAGATCAAATAACTGATTTAAAGCAAATTTTTGT-----TATCC-CATTAAATT---AAATCAGGGATA-CTTTTTTGCACTTTTATCAATGTCGAT-TAA--AAAAA
DroPse_CAF1_left   TTATCTTGTTGGGAGATCAAATAACTGATTTAAAGCACATTTTCGT-----TTTCC-TATTAAATT---AATTCAGGGATA-CTTTTTTGCACTATTATCAATGTCGAT-TAA--AAAAA
DroSec_CAF1_left   NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-NNNNNNNNNNN-N---NNNNN-NNNNNNNNNNNNNNNNNNNGCCCATTAAAATAAATTTAAGGTTTAAATTAGA-AAG--AAAAA
DroWil_CAF1_left   ACTATAAATTGTGTAGACTTATAAGTCTATTAAT-TTTTTAATCG--C---TGGTACCAATTAAAG---TGTAGATACACC-CAAAAATATATATCATAAAATAAATAT-TAG--GAAAA
DroYak_CAF1_left   TATCCTTTTTATTTATTTTTTTTATTCTTTTAC--AGTTTTATATT-T---TGCTT-TTAACCTAA---CAAA--AGTATA-TTGAGTTTATCACTAAAAGANNNNNNN-NNN--AAAAA
DroSim_CAF1_left   NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-----NNNNN-NNNNNNNNNN--NNNNNNNNNNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

DroAna_CAF1_left   AAAAACCTTCCGACGAGGATGGGATTCGAA-CCC-ACGCGTGCAAAGCACATTGGATTAGCAGTCCAACGCCT-TAACC-TCTCGGCCACCTCGTCATATAAAAATAATCCTTTTCTAAA
DroEre_CAF1_left   AGGAT---TTCGACGAGGATGGGATTCGAA-CCC-ACGCGTGCAGAGCACATTGGATTAGCAGTCCAACGCCT-TAACC-TCTCGGCCACCTCGTCAACTTGGATTTCGCTGTTTTAGAT
DroMel_CAF1_left   --AAGACAACCGACGAGGATGGGATTCGAA-CCC-ACGCGTGCAGAGCACATTGGATTAGCAGTCCAACGCCT-TAACC-TCTCGGCCACCTCGTCTTATTGGAATTCGCTGTTTTAGAT
DroPer_CAF1_left   AGGACTCTCCCGACGAGGATGGGATTCGAA-CCC-ACGCGTGCAGAGCACATTGGATTAGCAGTCCAACGCCT-TAACC-TCTCGGCCACCTCGTCATATAGGATGTACCTTTTTTGGAT
DroPse_CAF1_left   AGGACTCTCCCGACGAGGATGGGATTCGAA-CCC-ACGCGTGCAGAGCACATTGGATTAGCAGTCCAACGCCT-TAACC-TCTCGGCCACCTCGTCATATAGGATATACCTTTTTTGGAT
DroSec_CAF1_left   ATAGTTCAACCGACGAGGATGGGATTCGAACCCC-ACGCGTGCAGAGCACATTGGATTAGCAGTCCAACGCCTTTAACC-TCTCGGCCACCTCGTTCATCTGGAATTCGATGTTTTAGAT
DroWil_CAF1_left   AAAAAATCCTCGACGAGGATGGGATTCGAA-CCC-ACGCGTGCAGAGCACATTGGATTAGCAGTCCAACGCCT-TAACC-TCTCGGCCACCTCGTCGTTGTGTGCCGGCTGAGCAG--AA
DroYak_CAF1_left   AATTAACTCTCGACGAGGATGGGATTCGAA-CCC-ACGCGTGCAGAGCACATTGGATTAGCAGTCCAACGCCT-TAACC-TCTCGGCCACCTCGTCAACTTGGAATTCGCTGTTTTAGAT
DroSim_CAF1_left   NNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

DroAna_CAF1_left   CATTTTT---TGAATTAAGAAC-TTAAGAA----ATAATGTTATATAATAACAAAATATAATGTGCA------ATATTTAAAGTTTTAAAAT
DroEre_CAF1_left   CGTTTTT---TCAAAGAATGTA-TGCAAATTTTTT--GCATA-ATACACTATACGAAATATGTCCTT-AAT--TAACATATG----TTTACC
DroMel_CAF1_left   CGTTTTT---TCAAAGAG-GTA-TGAAAATATTTT--GCATTAATAGAC--TGCGAATTATGTCCTT-AATTTACATACATA----CCATAC
DroPer_CAF1_left   CATTTTT---TGAAAGAACGAA-TATACGTAATCGAGTCATAAAATTACCTTGAGTGGTAATTATTG------AATTATAAA----AGCCAA
DroPse_CAF1_left   CATTTTT---TGAAAGAACGAA-TATACGTAATCGAGTCATAAAATTACCATGAGTGGTAATTATTG------AATTATGAA----AAGCCA
DroSec_CAF1_left   CGTTTTT---TCAAAGAAAGTA-TGCAAATATTTT--GCATTAATAGACTATGCGAATTATGTCCTT-AAT--TTACATAGA----CT-TAC
DroWil_CAF1_left   CTCATCCTAGTTATA-TG--TATGT-TTTTCACA----CTGTTATCGACGACAAGCAGTTAAAGCAGTGCCCAAATAAACAT----AAGAAC
DroYak_CAF1_left   CGTTTTT---TCAAAGGGGGTA-TGCTAATTTTTT--GCATTAATACACTATGCGTAATATGTCCTT-AT---ATGTATATA----TTTATC
DroSim_CAF1_left   NNNNNNN---NNNNNNNNNNNN-NNNNNNNNNNNN--NNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-NN---NNNNNNNNN----NNNNNN