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


DroEre_CAF1_left   TGATCGGA--AGCCACAGACTTTCTTGTTCTATT--TAT-TTTCTG-AATTGG--ACTGATGATG-TAATAGCGT-CCATCCTATT---------TTATATTACAG-GATTTTATAGACT
DroMel_CAF1_left   GT--GGATTCCATATATATTGTTCCATATATTTCTGAA--TATTACTTTTGGA--CTGGTG-GCTGTAAAA-AGTGCGGACTTCTT---------AAACTGCAATTGTATCATTTGTATT
DroPse_CAF1_left   TGGAATAA---ATTTGGATAATATTCAGAAAAGTTTCTGAAATATTTTTTGAT--ATAGTATTTG-AATATTCGA-ATACGTATTC---------AAATTGACAAATAATTTAAGCAAAA
DroSec_CAF1_left   GA--CCGA--TGCTATAAGCGTCGGACTTATTTTATATTATAGAATTTTATAG--ACTGATGCAA-TAAAAGTTG-CGGACTTTTA---------AAACTGAAATTGTATTATTTCTATT
DroSim_CAF1_left   GA--CCGA--TGCTATAAGCGTCGGACTTATTTTATATTATAGAATTTTATAG--ACTGTTGCAA-TAAAAGTTG-CGGACTTTTA---------AAACTGAAATTGTATTATGTGTATT
DroPer_CAF1_left   A---ACA----ATCAAAGGTTTTGTATAGTGGGTGAATAAGATTT--GGTGTCATAGAAAATAAA-AAATTGT---GGCCTTAATCGAGTAATATTTAACATATGATATATGTATATAAG

DroEre_CAF1_left   ATTTAAAACA-AAAAAGTGAAA-GTCCGATCCTGCCAGGAGTCGAACCTGGAATCTTCTGATCCGTAGTCAGACGCGTTATCCATTGCGCCACAGGACCACTTAAATA-GTATAAAGAAA
DroMel_CAF1_left   TAAAATAA----AAAAATTCGA-ATACGATCCTGCCAGGAGTCGAACCTGGAATCTTCTGATCCGTAGTCAGACGCGTTATCCATTGCGCCACAGGACCACCTGAAAG-CACTCGCGACA
DroPse_CAF1_left   AAACTTAAAA-AAAAAGATACTCTTGCGATCCTGCCAGGAGTCGAACCTGGAATCTTCTGATCCGTAGTCAGACGCGTTATCCATTGCGCCACAGGACCCGCTGCTTTTGGGGCGTCTAA
DroSec_CAF1_left   TAAATTAAAA-AAAAATTTTGA-ATACGATCCTGCCAGGAGTCGAACCTGGAATCTTCTGATCCGTAGTCAGACGCGTTATCCATTGCGCCACAGGACCACTTGAAAG-CGGCCGCGAAA
DroSim_CAF1_left   TAAATTAAAA-AAAAAAATTGA-ATTCGATCCTGCCAGGAGTCGAACCTGGAATCTTCTGATCCGTAGTCAGACGCGTTATCCATTGCGCCACAGGACCACTTGAAAG-CGGCCGCGAAA
DroPer_CAF1_left   AAAATACAAATAAAAAAGATAT-CTCCGATCCTGCCAGGAGTCGAACCTGGAATCTTCTGATCCGTAGTCAGACGCGTTATCCATTGCGCCACAGGACCCGTTGCTAA-TG-GGGTGTGT

DroEre_CAF1_left   CATTTAGCTAAGAATTATAAGTCTAATAT--GCCTGATCTTGGCAGGTGGAAAGATGGATTTTTTTT-TAAAGTAGATA
DroMel_CAF1_left   CATGTTGTGAAGACCTTTTAGCTTATTAT--GCCTGATCTTAGCTGAGCTACAGCGTTCTTAAATTA-ACTTTAGTGAG
DroPse_CAF1_left   ATACTGGCTTGCGTTTTTGAGAATATATG--GAAAGGGCTTG--GGGTTAATTTTAACCCTATGGGTATATGAAATTAT
DroSec_CAF1_left   GATGTCGCCAAGACCTTTTAGTTTATTAT--GCCTGATCTTAACAGAGCTACAGCGTTCTTAAATTA-ACTTTAGTGAA
DroSim_CAF1_left   CATGTCGCCAAGACCTTTTAGTTTATTAT--GACTGATCTTAGCAGAGCTACAGAGTTCTTAAATTA-ACTTTAGTGAA
DroPer_CAF1_left   GATTACACCCATCCGATATTGAAAAGATATGGAAAGGGT-TTGGATTGAAGAAGATTAGGCAGCCAA-TGGGTTTATAT