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


DroEre_CAF1_left   TGGGTG--ACATTTCCCTTTTAGCTTTCC-CTTTTAGCTTAGTTGGCTAACAAGGCCCTTAATCTGTGGGCTG-CTTTGAGAAATGATATGTGCTCATATGAAGAAATAT-GATGCAAAA
DroMel_CAF1_left   TTTGTG--GGTGACATTTCCCTTTTGGCC-TTGCGATTTTACTTGGTTAACAAGGTCTTTAATCTGTGGACTG-CTTTCGGAAATTATATATGTCCATATAAAGAAACAG--ATGCAAAA
DroSec_CAF1_left   TTTTTGTGGGTGACATTTCCCTTTTGGCTTTTGCGATTTCAGTTGGTTAACAAGATCTTTTAACTGCTTTTGG-AAAT---TATATATGTATGTCCATATAAAGAAACA--GATGCAAAA
DroSim_CAF1_left   TTGTG---GGTGACATTTCCCTTTTGGCTTTTGCGATTTCAGTTGGTTAACAAGATCTTTAAACTGTGTACTG-CTTTTGGAAGTTATATATGTCCATATAAAGAAACACATGCACAAAA
DroYak_CAF1_left   TTTCG---GGTGACATTTCGCTTTTAGCTTTTGCGCCTTCAGTTGGTTAACAAGGCCCTTAATCTGTGGACTG-CTTTTAGAAGTTATATGTACACATACAATGAAATAG-TATGCAAAA
DroVir_CAF1_left   AATAAA---TTGGTTCGGCGAAAAATGGA-TAATACGCGCAGTT--ACAATATTTACGTTAGGCACTTT-CAACAGTTAAGAAAATAATATTAATAATTATAATAAGAAT-AACATTAAA

DroEre_CAF1_left   AGTTGAATCCC-ATTCGATGCCTCCTGTGAGGATTGAACTCACGACCCCTGGTTTACAAGACCAGTGCTCTGCCACTGAGCTAAAGAGGCTCACATGAACGACTTGAAA--GAAAACCAA
DroMel_CAF1_left   AGTTGAATCTCAATTCGTTGCCTCCTGTGAGGATTGAACTCACGACCCCTGGTTTACAAGACCAGTGCTCTGCCACTGAGCTAAAGAGGCTCACATGAACGTCTTGAAA--AATAACTAA
DroSec_CAF1_left   AGTTGAATCTCAATTCGATGCCTCCTGTGAGGATTGAACTCACGACCCCTGGTTTACAAGACCAGTGCTCTACCACTGAGCTAAAGAGGCTCACATGAACTTCTGGAAA--AATAACTAA
DroSim_CAF1_left   AGTTGAATCTCAATTCAATGCCTCCTGTGAGGATTGAACTCACGACCCCTGGTTTACAAGACCAGTGCTCTACCACTGAGCTAAAGAGGCTCACATGAACTACTTGAAA--AATAACTAA
DroYak_CAF1_left   AGTTGAATCTC-CTTCGATGCCTCCTGTGAGGATTGAACTCACGACCCCTGGTTTACAAGACCAGTGCTCTGCCACTGAGCTAAAGAGGCTCACATGAACGACTTGAAA--AATAACCAA
DroVir_CAF1_left   ATATCTTTTTA-CTTGACTGCCTCCTGTGAGGATTGAACTCACGACCCCTGGTTTACAAGACCAGTGCTCTGCCACTGAGCTAAAGAGGCGTACGCTAAAAATGCAGCCCGATAG--C--

DroEre_CAF1_left   AATATTAGTTACGTTTCGA-------GCTCCAGTGGCAAGTTCCAGAAGTCAGAAT-TCTTAAAGATCTTTTCATCTTATCGGCGCAGTTGCC-ATATCATAGTT-----CCCCGATAAA
DroMel_CAF1_left   AATATTAGTTACGTTTCGA-------GCTGCAGTGGCAAGCTTCAGTAGTTAGAAG-TCTTAAAGATCTTTCCATCTTATCAGCGCAGTTTCCGATATCATAGCAAGGCTCCCAGATAAA
DroSec_CAF1_left   AATATTAGTTACGTTTCGA-------GCTGCAGTGGCAAGTTACAGTAGTGGGAAG-TCTTAAAGATCTTTCCATCTTATCAGCGCAGTTTCCGATATCATAGCAAGGCTCCCAGATA--
DroSim_CAF1_left   AATATTAGTTACGTTTCGA-------GCTGCAGTGGCAAGTTACAGTAGTTGGAAG-TCTTAAAGATCTTTCCATCTTATCAGCGCAGTTTCCGATATCATAGCAAGGCTCCCAGATAAA
DroYak_CAF1_left   AATATTAGTTACGTATCGA-------GCATCAGTGGCAAGTTCCAGTAGTCAGAAT-TCTTAAAGATCTTTTCATCTTATCAGCGCAGTTGCC-ATATCATAGCACGATTCCCAGATAAA
DroVir_CAF1_left   ---C--AG-CACAAGTTGAAGAATTGGCGACAGTTGAA------T-TTGTATCTATCAG-TACGCTAGTAGATAACAATAGGATGTATCTAAT-TATTTTG---AGTGCAGCTTGGCAAT

DroEre_CAF1_left   ATCTTTTCGAATCTTATCTAGATACGTTTACAAG--AGTTCAATC
DroMel_CAF1_left   ATCTATTCGAATCTTATCAAGACACGTTTACAGC--AG------T
DroSec_CAF1_left   -TCTATTCGAATCTTATCAAGATACGTTTACAGC--AGTTC---A
DroSim_CAF1_left   ATCTATTCGAATCTTATCAAGATACGTTTACAGC--AG------T
DroYak_CAF1_left   ATCCATTCGAACCTTATCAAGATATGTTCACAACC-AT------T
DroVir_CAF1_left   ACT-TGGTTCTTATCAAAGATAAAAAC--TGTGCAACC------T