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


DroAna_CAF1_left   TTTACT---CATTAC-AGCTAGTT-TTGGGTGAAGTAAGT-TTGTG-CTTGAACTT--CGCTTTTAGTTTAGTAAAATTTATTATTTAGGTGGGCCGAAATCCCGGCGGTACTGCAATAC
DroEre_CAF1_left   GCAAGACCCAAGCGTGACTGG-CT-ATCTACTATCTATCA-CTGAA-CTTGAAT--TTAGTGG---GAAATTTCAAATTTATATTTCAGTTGGGCCGAAATCCCGGCGGTACTGCAATAC
DroMel_CAF1_left   TTGCATT--GTATT--GATTC-ATCGCTTCTAAATAAATA-AATATATAAAAAAAAAGTAGGA---AATATTTTAAATTTATTATTCAGTTGGGCCGAAATCCCGGCGGTACTGCAATAC
DroPer_CAF1_left   TGCGAGC--AATAA--AGTGC-AATTGAGCAAGACTCAAG-CTAGTCGTAACCTAATTTTTCT---ACTGTGTGAAATGTATTTATCAGTTGGGCCGAAATCCCGGCGGTACTGCAATAC
DroPse_CAF1_left   GT-GCGA--GCAATAAAGTGC-AA--TTGAGCAAGACTCAGCTAGTCGTAACCTAATTTTTCT---ACTGTGTGAAATTTATTTATCAGTTGGGCCGAAATCCCGGCGGTACTGCAATAC
DroSim_CAF1_left   AAATGCG--GTGCAATTGAGC-AA-GATCCCAAACTATCT-TTGAA-CTTGAATTTAGTGGGA---AATAGTTTAAATTTATTATTCAGTTGGGCCGAAATCCCGGCGGTACTGCAATAC
DroWil_CAF1_left   ATTCACC--TCTTT--CTAAC-AAATAGACAGGGGGATCA-AAAGTTACTAACAACTACATTT---TAATTTTCAAATTTATTATTCAGTTGGGCCGAAATCCCGGCGGTACTGCAATAC
DroSec_CAF1_left   GTGGAGT--A-GCAAATGCGG-TG--CAATTGAGCAAGATCCGAAACTATCTTTGAACTTGGA---AATATTTTAAATTTATTATTCAGTTGGGCCGAAATCCCGGCGGTACTGCAATAC

DroAna_CAF1_left   CGGGCCAACCCGCGACAGAGGTGGAGCAAGCCCCTAGCACTCCGTCTAATTCCAAAAATCAGTTTAACATTTGTTGTCCTCC-AATGGAGGAACTATCAGATGTTAAGCTGATAAGAACA
DroEre_CAF1_left   CGGGCCAACCCGCGACAGAGGTGGAGCAAGCTCCTAGCACTCCGTCTGATTCCAAAAATCAGTTTAACATTTGTTGTCCTCC-AATGGAGGAACTATCAGATGTTAAGCTGATAAGAACA
DroMel_CAF1_left   CGGGCCAACCCGCGACAGAGGTGGAGCAAGCTCCTAGCACTCCGTCTGATTCCAAAAATCAGTTTAACATTTGTTGTCCTCC-AATGGAGGAACTATCAGATGTTAAGCTGATAAGAACA
DroPer_CAF1_left   CGGGCCAACCCGCGACAGAGGTGGAGCAAGCCCCTAGCACTCCGTCTGATTCCAAAAATCAGTTTAACATTTGTTGTTCTCC-AATGGAGAAACTATCAGATGTTAAGCTGATAAGAACA
DroPse_CAF1_left   CGGGCCAACCCGCGACAGAGGTGGAGCAAGCCCCTAGCACTCCGTCTGATTCCAAAAATCAGTTTAACATTTGTTGTTCTCCCAATGGAGAAACTATCAGATGTTAAGCTGATAAGAACA
DroSim_CAF1_left   CGGGCCAACCCGCGACAGAGGTGGAGCAAGCTCCTAGCACTCCGTCTGATTCCAAAAATCAGTTTAACATTTGTTGTCCTCC-AATGGAGGAACTATCAGATGTTAAGCTGATAAGAACA
DroWil_CAF1_left   CGGGCCAACCCGCGACAGAGGTGGAGCAAGCCCCTAGCACTCCGTCTGTTTCCAAAAATCAGTTTAACATTTGTTGTTCTCC-AATGGAGAAACTATCAGATGTTAAGCTGATAAGAACA
DroSec_CAF1_left   CGGGCCAACCCGCGACAGAGGTGGAGCAAGCTCCTAGCACTCCGTCTGATTCCAAAAATCAGTTTAACATTTGTTGTCCTCC-AATGGAGGAACTATCAGATGTTAAGCTGATAAGAACA

DroAna_CAF1_left   GATACTACACTTTGATCTTAGCCATAAGGCCGAGAAGCGATAACTTGGCTAAGTAAAC-ACTTGGCTCTCAATGAAAGAATTACCAAAACCGATTGGGAATTCTAAGAA-AGAAAGT
DroEre_CAF1_left   GATACTACACTTTGATCTTAGCCATAAGGCCGAGAAGCGATAACTTGAAACGGAAAACGAACAGGGTCTCCATAAGCAAACCGCTTGAACCAGATGGGAATTATAAATG-TG-AAAG
DroMel_CAF1_left   GATACTACACTTTGATCTTAGCCATAAGGCCGAGAAGCGATAACTTGAAACGGAAAACGAAAAGGGTCTCGATGGGCAAACGGCCAGAACCATTTGGGAATTATAAATG-TG-AAAG
DroPer_CAF1_left   GATACTACACTTTGATCTTAGCCATAAGGCCGAGAAGCGATAACTGGACACGGAAAAC-AACCGCCTGGCCACAGGTGCTCAGCCAGAACCACTTGGGAATTATAGGGACAC-AGAA
DroPse_CAF1_left   GATACTACACTTTGATCTTAGCCATAAGGCCGAGAAGCGATAACTGGACATAGCAAAACCACTGAAAGAGCATAAGCGCGCTGCCGGAACCAGTTGGGAATTATATCGT-AC-AAAC
DroSim_CAF1_left   GATACTACACTTTGATCTTAGCCATAAGGCCGAGAAGCGATAACTTGAAACGGAAAACGAACAGGGTCTCCATGAGCAAACGGCCAGAACCATTTGGGAATTACAAATG-TG-AAAG
DroWil_CAF1_left   GATACTACACTTTGATCTTAGCCATAAGGCCGAGAAGCGATAACTAGCAACAGCCAATGACTTGCATCTCCATGAAGGAAATGCTAGAACCAGTTGAGAATTATAAATG-AC-CTAG
DroSec_CAF1_left   GATACTACACTTTGATCTTAGCCATAAGGCCGAGAAGCGATAACTTGAAAAAGGAAACGAACTGGCTCTCCATGAGCAAACGGCCAGAACCATTTGGGAATCATCAATG-TG-AAAG