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


DroEre_CAF1_left   G----CACTTGCGGATGGCAGAGTTGGGCTGTTTGGCCTCGACGCCGCTGTA-GA-GAAACAGATTAGTTTC-ATATAATACTAGCAGATCGATATAATACAAATCTGGTCAGTCACTTT
DroGri_CAF1_left   G--CTGTTTAGCTTCAACACC-ACTGCGGACAGAGAGAGTAATGCAAAAGTT-AA---AT-TTGATATGCCTCAAATTAGATATATTTGTGTAATTG-TA--TTTGGGTAAATTAAAATT
DroMel_CAF1_left   --CGGATGGCAGAGTTAGGCT-GCTTGGCCTCGACGCCGCTGTGGAGTAGAG-GA---AACCGATTAGTTTTGATATACTACTAAGAGATTAATATAATTGATATCATATCAGTCGCTTT
DroSec_CAF1_left   G-CGGATGGCAGAGTTAGGCT-GCTTGGCCTCGACGCCGCTGTGGAGCAGAG-GA---AACTGATTAGTTTTGATACATTACTAAGAGAA-AATATAATTGATATAATATCATTCGCTTT
DroSim_CAF1_left   G-CGGATGGCAGAGTTAGGCT-GTTTGGCCTCGACGCCGCTGTGGAGCAGAG-GA---AACCGATTAGTTTTGATACATTACTAAGAGAT-AATATTATTGATATCATATCATTCGCTTT
DroYak_CAF1_left   G----ATGGCAGAGTTAGGCT-GCTTGGCCTCGACGCCGCTGTGGAGAAGAG-AGAGAAACAGATTAGTTTC-ATATAATACTAGCTGGTTATTATAATACAGATCTTGTCAGTCA---C
DroMoj_CAF1_left   TGCGGATGGCAGAGTTGGGCT-GTTTGGCTTCAACACCACTGCAAACA-GAGAGA---ATGAAAATAGGTTTTAATTAGTTAGTA-AAAT-AATATGATAGCTAGCAGATGATTTTAATT
DroWil_CAF1_left   ------TGGCAGAGTTAGGCT-GTTTGGCTTCAACGCCGCTGAAAG-A--TGAAA---CAAATTTCAATTAGATGTTTTGTATGG-AGAA-GACATTTAAGTCA--ATTTGATTTTAAAA

DroEre_CAF1_left   CT-GCTGCTGGCGGCACGCTGGTCATCTCACAGTATAATCCTGTGATTTGATTTGCAAAACGAAACAAAACACAAAAATATACTGCGAGGCGTCGAGACGT-GTGATTCCCCCCAT---A
DroGri_CAF1_left   TG-GTTGTCCTTGCTGCTGGCGATAACTCACAGTATAATCCTGTGATTTGATTTTCAAAAATAAACAAAACACAAAAATATACTGCGAGACATCGA-CAGT-GGTGGGCTTAACAG---A
DroMel_CAF1_left   TC----GCTGCTGGCACGCTGGTCATCTCACAGTATAATCCTGTGATTTGGATTGCAAAACGAAACAAAACACAAAAATATACTGCGAGGCGTCGAGACGT-GTTATTAACCCCGCCATC
DroSec_CAF1_left   TT----GCTGCTGGCACGCTGGTCATCTCACAGTATAATCCTGTGATTTGAGTTGCAAAACGAAACAAAACACAAAAATATACTGCGAGGCGTCGAGACGT-GATTC--CCCCCACCATC
DroSim_CAF1_left   CT----GCTGCTGGCACGCTGGTCATCTCACAGTATAATCCTGTGATTTGAGTTGCAAAACGAAACAAAACACAAAAATATACTGCGAGGCGTCGAGACGT-GTGATTCCCCCCACCATC
DroYak_CAF1_left   TT-TCTGCTGCTGGCACGCTGGTCATCTCACAGTATAATCCTGTGATTTGAGTTGCAAAAGGAAACAAAACACAAAAATATACTGCGAGGCGTCGAGACGT-GTGATTCCCCCCAT---C
DroMoj_CAF1_left   CAATTTGTTGTTGTTTCAGCCGATAACTCACAGTATAATCCTGTGATTTGATTTT-TATAATAAACAAAACACAAAAATATACTGCGAGACATCGAA-TGTGTTCAAATAATTCA--A-A
DroWil_CAF1_left   TGGTTGCGTGGATTTCCATTTCGCAGCTCACAGTATAATCCTGTGATTTGAGTTGACAAATTGAACAAAACACAAAAATATACTGCGAGACGCAAGA-ATAGTCTGTGGTCGACGAGA-G

DroEre_CAF1_left   T--CATCC---GGACGGCGGGCAAAGCACTTTGGT-----GGGG----AGGAAGGGGTCAACCATCTGTACTTACACCTTCTCCAGGACGATTCCCTTGGCG-T---------GGGAAGC
DroGri_CAF1_left   T--CTATCTATATATGTATATCAAATTGAAAACACTTCTAAATA----ATGTATAGCTGATAGATGTCCACTTACACCTTCTCAAGGACAATGCCCTTGGCG-T---------GAGA--A
DroMel_CAF1_left   T--CATCC---GGATGGCGGGCATAGCACTTCAATGGTGGGGTCAACCACCGTGTACTTACACCTTCTCCAGG--ACGAT---TCCCTTGGCGTGGGAAGCACC------------T--C
DroSec_CAF1_left   CCCCAC-C---ACTTCTATGTTAGGGTCTGTCTACTATCTGTACTTACACCTTCTCCAGGACGATTCCCTTGGCGTGGGA---AGCACCTCCGAAGGGATTGGC---------------C
DroSim_CAF1_left   C--CAC-C---ACTTCTATGTTAGGGTCTGTCTACTAGCTGTACTTACACCTTCTCCAGGACGATTCCCTTGGCGTGGGA---AGCACCTCCGAAGGGATTGGC---------------C
DroYak_CAF1_left   T--CATCC---GGATGGCGGGCAAAGCACTTCCATAGTGAAAAG----AGGGCGGGGTTAATTAATTTTACTTACACCTTCTCCAGGACGATTCCCTTGGCG-T---------GGGA---
DroMoj_CAF1_left   T--TAAAA---TCTTAA-C--AAATTT-AGAATAAATCTGTTACTTACACCTTCTCAAGGACAATGCCTTTGGCGTGGGA---TGCACCACCGAAGGGATTG------------------
DroWil_CAF1_left   C--CTTAA---TCAGTATC--CAGCAT--GTTGGTGTTGGTAC-TTACACCTTCTCCAGCACAATACCCTTAGCGTGGGA---AGCACCACCGAAGGGATTGGCCTTCCATCTGGTACCC

DroEre_CAF1_left   ACC
DroGri_CAF1_left   GCA
DroMel_CAF1_left   CGA
DroSec_CAF1_left   --T
DroSim_CAF1_left   TTC
DroYak_CAF1_left   --A
DroMoj_CAF1_left   ---
DroWil_CAF1_left   AAA