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


DroSec_CAF1_left   GA---CACAAA---AGTAACTCGAATAT--ATATAGCTTCTA------GTTCTTCACTAAAATATTACATATTTTTCAAAAAAATTTAATATTTTCTGTTTCATCTCCCAAAAAAAATCT
DroSim_CAF1_left   AAA--AGTAAC--TCGAATAACATGAACTG---TAACTCCTA------GTTCTTCACTTAAATATTACATATTTAAAAAAAAAAATTAATATTTTCTGTTTCATCTCCCATA-AAAATTT
DroYak_CAF1_left   TTAGTTTCTTA--CAGCATTGCTAAAAACAATGAAGATTAAA-----CGCTAAACGCTTCTAGTTTATATAATATATAACATATTTTAGGCAAATATTTCCCAAAA--AGGAAAACACCT
DroEre_CAF1_left   CAT--CACAAATGCAACTCGAATATTAG-----CTATTCTAGCTACTAGTTTATTACTCAGATATAACATATTTTTGGTGAATCTTTCAATGATCATCTCCCAAAA---AAA-AGTATCT
DroMel_CAF1_left   AAG--AAGTGCCGATAGAAAATGCCACA-----AAAGTCATTCGATTAATAT-TA-ATTATAGCTTCTAGTTATTAACAATACACAATTTTTTAAAAATCTCCCAA---AAA-ATGATAT

DroSec_CAF1_left   AAGCACATAGCAGAGCAAGGTTTCGATCCTCGGACCTCTGGGTTATGGGCCCAGCACGCTTCCACTGCGCCACTCTGCTTGCATGTGAAGTTGCGTCATGTTCGATGTGCAACAACTAAA
DroSim_CAF1_left   AAGCACATAGCAGAGCAAGGTTTCGATCCTCGGACCTCTGGGTTATGGGCCCAGCACGCTTCCACTGCGCCACTTTGCTTGCATGTGAAGTTGCGTCATGTTCGTCATGT-TCGATGTGC
DroYak_CAF1_left   AAGCACATAGCAGAGCAAGGTTTCGATCCTCGGACCTCTGGGTTATGGGCCCAGCACGCTTCCACTGCGCCACTCTGCTTGCATGAAAATCTGTGCCAAGTTCGCTGTGCAACAACGAGA
DroEre_CAF1_left   CAGCACATAGCAGAGCAAGGTTTCGATCCTCGGACCTCTGGGTTATGGGCCCAGCACGCTTCCACTGCGCCACTCTGCTTGCGTCGAAAGATGCGCCAATTTCACTGTGCAACAAAGAGG
DroMel_CAF1_left   AAGCACATAGCAGAGCAAGGTTTCGATCCTCGGACCTCTGGGTTATGGGCCCAGCACGCTTCCACTGCGCCACTCTGCTTGCATACAAAGTTGCGTCATGTTCAATGTGCAACTAAAGTG

DroSec_CAF1_left   -T-CAAGGTTAA--TA----------GGGCATACCTTTGGTATAT--------AATTATTAAACAATGCCTCTATATATAACACCATTG-ATTT
DroSim_CAF1_left   AA--CAACTAAA--TCAAGGTTAATAGGGCATACCTTTGTTACAT--------CATTATTAAATAATGCCT----------CCTTATTACTTAT
DroYak_CAF1_left   AA-TTAGTGCAC--TT----------TAAATTTGCATTTGTTTGG--------GTATATTGATAAAT-TGGTATACCTCTATCAAACAA-TGCT
DroEre_CAF1_left   CA-GAAGTGCAA--TA----------AAAATTCCTTCTGGCTTGCATTAATTTAATAGTTACCCTATT--------AAACAATGCA-TT-CTTA
DroMel_CAF1_left   AACTTCTAGCTTATAT----------TATGATATTATATACATTTGGTATATCATTATTAA-A-CAAT--------GC-CTCCTAA-CA-CCTT