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


DroMel_CAF1_left   AAGGTTGGTGGTTCGAGTCCACCCGGGGGCGAAATACGTTTTTTAATTTTGATTTTTTCCTTTAATTATTTTCATT--TCATTATCAAAACAAATGATTTAACTAATATAAAAATATAAC
DroPer_CAF1_left   TGCAGCGCCGTTGTAACTGCACTCGGATCAAATTCATGAC-ACGATTGCCAAGGCCAACTGATAAGAAAGAGGAGG--GCAAACTGAGCCAAAAGTTAAATGACCAACGAAAAAGATATT
DroPse_CAF1_left   C--AGCGCCGTTGTAACTGCACTCGGATCAAATTCATGAC-ACGATTGCCAAGGCCAGCTGATAAGAAAGAGGAGGAGGCAAACTGAGCCAAAACTAAAATGACCGACGAAAAAGATATT
DroSec_CAF1_left   NNNNNNNNNNNNNNNNNNNNNNN--NNNNNNNNNNN-NNN-NNN-NNNNN-NNNNNNNN-NNNN-NNNNNNNNNN---NNN-N--NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

DroMel_CAF1_left   ACGCCCAACGTGGGGCTCGAACCCACGACCCTGAGATTAAGAGTCTCATGCTCTACCGACTGAGCTAGCCGGGCCTCTTGGTGTGGTAAAAACTGCCACACCCACATTTTTAATATTTTT
DroPer_CAF1_left   TCGCCCAACGTGGGGCTCGAACCCACGACCCTGAGATTAAGAGTCTCATGCTCTACCGACTGAGCTAGCCGGGCAATATAGCCAGGGTTGGCCAATAGATCTTGCTGAAATTCTAGGGGT
DroPse_CAF1_left   TCGCCCAACGTGGGGCTCGAACCCACGACCCTGAGATTAAGAGTCTCATGCTCTACCGACTGAGCTAGCCGGGCAATGTAGCCAGGGCTGGCCAATAGATCTTGCTGAAATTCTAGGGGT
DroSec_CAF1_left   NNGCCCAACGTGGGGCTCGAACCCACGACCCTGAGATTATGAGTCTCATGCTTTATCGACTGAGCTAGCCGGGCCACTTAGTGTGCTAAAAACTGCCAGACACACATTTTTGAAATATGT

DroMel_CAF1_left   TTGGATATTTTTTTTGGAATTTTATTAGTCTTCTAAATTTCTATCGATTTCTTAAA---AAAAC
DroPer_CAF1_left   GAAGATTCAGAAAAT---GATCGAACAGTTCAACATCTCTATTTTTGAATTTAAATTATATTTT
DroPse_CAF1_left   GAAGATTCAGAAGATTCAGATCGAACAGTTCAACATCTCTATTTTTGAATTTAAAT---TATAT
DroSec_CAF1_left   TTGAATATTTTTTTCAGAATTTTATTAGTTGTTTAAATTTCTATCGATATACCAAA---AAACT