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


DroEre_CAF1_left   CCCAGCAATACCATAAAGGCTTACAATAATAAAG--TAAAATATGT-GTT-CGTATATGCTAT------ATATAACGAAAAAATAAATTCTTGTTAAATTCAGTTTTT-TAAA-ATTC-T
DroMel_CAF1_left   TGTGGGATTTAAGGTACTT-TTACTCCACCCAGCTTTAC--AATAACGAA-TTAAAAT-ATGT------GTTTGACGAAGAAATAAATTCCTAATTAAGTTTTTTTTT-TTTT-AATT-T
DroMoj_CAF1_left   ATCAACTGTTGTCCATGCCAATTGAAAACATAGC--CCACAAAATG-CCT-ATAAAATATAAA------ATAAAATTTAAAAGTACAATTTAAATAATAAAAAATCTTTAAAT-CAAC-A
DroSec_CAF1_left   GATTTACCCA--AGCCAGCTTTACAATAACGATT--TAAAATATGTGGTT-TGGACATGCTTT------ATCTAACGAAGAAATGATTTCTTAATTAACTAAGTTTTT-TTTA-GGTT-C
DroSim_CAF1_left   AAGGGGCTTTTACC-CCAACCAGCTTTACTATAA--CGATTTAAAA-TATGTGGTTTATGTGG------TTTAAACAAAGAAATAAATTCTTAATTAACAAAGTTTTT-TTAG-ATT--C
DroYak_CAF1_left   CGGCTTTTTACCCCACCCAAATATAAAATAAAAG--TGAAACATGT-GTT-CGCACATGCTTC------ATACAACGAAAAAATAAATTCCTAGTGGATTCAATTATT-TGAA-ATTC-T
DroGri_CAF1_left   TTGTTGTATAT---AAATTAAATCTTTAGCTACA--TTAATTGCGA-AAA-CT-TTGCACATAAAACCAAGCGAACAAAATAAATATGCTCATAAAAAGAAATATGTA-AAAAAAAACTG

DroEre_CAF1_left   AAAA-AATAATTGTCAGAAGTGGGATTCGAACCCACGCCTACAGAGTAGACTGCGACCTGAACGCAGCGCCTTAGACCACTCGGCCATCCTGACTTGCAAGCAT-CGG--TTGTCAAAAC
DroMel_CAF1_left   CAAAAAGA-ATTGTCAGAAGTGGGATTCGAACCCACGCCTACAGAGTAGACTGCGACCTGAACGCAGCGCCTTAGACCACTCGGCCATCCTGACCTGCAAAAAT-CGG--GTGACAAAAT
DroMoj_CAF1_left   AAAATAAT-CTTGTCAGAAGTGGGATTCGAACCCACGCCTACAGAGTAGACTGCGACCTGAACGCAGCGCCTTAGACCACTCGGCCATCCTGACTGTTGTTGGC--TCGCTGGCAAAAGC
DroSec_CAF1_left   CAAAAAGGAT-TGTCAGAAGTGGGATTCGAACCCACGCCTACAGAGTAGACTGCGACCTGAACGCAGCGCCTTAGACCACTCGGCCATCCTGACCTGCGAGAAT-CGG--GTGTCAAAAT
DroSim_CAF1_left   CAAAAAGG-ATTGTCAGAAGTGGGATTCGAACCCACGCCTACAGAGTAGACTGCGACCTGAACGCAGCGCCTTAGACCACTCGGCCATCCTGACCTGCAAGAAT-CGG--TTGTCAAAAT
DroYak_CAF1_left   AAAAAAAGGTTTGTCAGAAGTGGGATTCGAACCCACGCCTACAGAGTAGACTGCGACCTGAACGCAGCGCCTTAGACCACTCGGCCATCCTGACTTGTAAAAAT-CAC--TTGTCAAAAC
DroGri_CAF1_left   CAAAAAGT-CTTGTCAGAAGTGGGATTCGAACCCACGCCTACAGAGTAGACTGCGACCTGAACGCAGCGCCTTAGACCACTCGGCCATCCTGACTGCTACGACCACTG--GGTCCAAAGT

DroEre_CAF1_left   ATCTTCGACCGAAAATAA-ATTTTTTT--ACCACGAATAAATAAAATAAAAAATA---AACGCA-A-TTTGTTTGCCAACAAAT-CCCATGTT
DroMel_CAF1_left   ATCTTTCGCCGAAAAGGA-AATCTTTT--ACCACAAATAAATAAAAAAAAAACGC---AATTTG-TATTGTCATGACTGTCAA--ATAAATTT
DroMoj_CAF1_left   AGCATA--GAAAGTAGCCGTGGCTGCC--ACTGCTATCGGACAGTTGAACATTTCATTTCCATATCAATAAATATTTATTTAT--TTTTTTGC
DroSec_CAF1_left   ATCTTTCGCCGAAAAGAA-AATCTTTT--ACCACAAATAAATAAAT-AAAAAATA---AACGCA-A-TTTGTATTGCCATGGCTCTCAAATAA
DroSim_CAF1_left   ATCTTTCGCCGAAAAGAA-AATCTTTT--ACCACAAAAAAATAAATAAAAAATAA---ATTTGT-A-TTGCCATGCCTATAAAA-TAAATTTA
DroYak_CAF1_left   ATCTTCGCACGAAACGGA-AATCTTTT--ACCACAAATAAATAAAATAAAAAATA---AACGCA-A-TTTGTATTCCCATGTTT-GTATAATC
DroGri_CAF1_left   GTTATACAAGCAAAAGGG-AAGCGCACAGTGAGCAAATATTCACATTTCGGGAGC---AGTGCT-G-ATGGGAATAATTG-AAT-TGTATTTG