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


DroMel_CAF1_left   TATTTC-ATAATTAAATAATAATCAATAATAATATT----TCGTAGTTTATAAATGACTATACTTGTCCTTTTATCATTAACT-----TTAATA--TTAAACACACTGTTCTACGTTCAA
DroMoj_CAF1_left   ATGATG-AGTTTATTTGAAGCCACATCTGAA---AA----ACGGAA-TAAAAA-CTACAAATTGCTTAATTATTTTACGCCTTTATTTATATTA--AACTTCACATATTTTTA----CAA
DroPer_CAF1_left   CTAAATATGATCTATTTT-TTTTGGAAGTCCGAAACAATTTCCCAGACAAAATACTTCGATTTCTTTCAACTTTCCAACAAAT-----CCTCCA--GAGTATTCGAAGAAAAAAGAGGGT
DroPse_CAF1_left   TAAA-TATGATCTATTTTTTTTTGGAAGTCCGAAACACTTTCCCAGACAAAATACTTCGATTTCTTTCAACTTTCCAACAAAT-----CCTCCA--GAGTATTCGAAGAAAAAAGAGG-G
DroSec_CAF1_left   AATTGA-AATCGATTATTTGGTAATTTAATAATATT----TCGTAATTTATAAATGACAATCTTTGTCCTTTTATCATTAACT-----TTAATA--TTAAACACATTGTTCTATGTTCAA
DroSim_CAF1_left   NNNNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNN----NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-----NNNNNN--NNNNNNNNNNNNNNNNNNNNNNNN
DroYak_CAF1_left   GTTTTG-TTATTCTATATTGTCAATA-AATTATTAT----ATATTTTCTTTTATCATTA-ACTGCAAAAATAAAACAATAATA-----AAAAAAAAACAATTAAATTTTTCTAA-ATCAT
DroAna_CAF1_left   CTTTTT-TTTCGAACAAAAAATAT--TTATCGCAACAAA-----AGACT-----TTTTCTTCTTTAAAAATACTTGTTTTTG-TTAATTTAAAA--TAAATAATGTAAATTGA-----TA

DroMel_CAF1_left   TGCCCAAATAAAA-----AAGATAG--TTCACTATCGAGACTTGGAGATGCGGGGCATCGATCCCCGTACCTCTCACATGCTAAGCGAGCGCTCTACCATCTGAGCTACATCCCCGAGTG
DroMoj_CAF1_left   ACGTA--AGACAT-----TGA-GAAAAAAAATTGTTCCTCGTTGGAGATGCGGGGCATCGATCCCCGTACCTCTCACATGCTAAGCGAGCGCTCTACCATCTGAGCTACATCCCCGGGTA
DroPer_CAF1_left   GGT---GTGTCCTCCTCATGACTAAGGATCACACTTTCCGGATGGAGATGCGGGGCATCGATCCCCGTACCTCTCACATGCTAAGCGAGCGCTCTACCATCTGAGCTACATCCCCACATG
DroPse_CAF1_left   TGT---GTGTCCT-----GGACAGAGGATCACACGTTCCGAATGGAGATGCGGGGCATCGATCCCCGTACCTCTCACATGCTAAGCGAGCGCTCTACCATCTGAGCTACATCCCCACATG
DroSec_CAF1_left   TACCCAAATAAAA-----AAAAAGTATATAGACTTCAAGACTTGGAGATGCGGGGCATCGATCCCCGTACCTCTCACATGCTAAGCGAGCGCTCTACCATCTGAGCTACATCCCCGAGTG
DroSim_CAF1_left   NNNNNNNNNNNNN-----NNNNNNNNNNNNNNNNNNNNNNNTTGGAGATGCGGGGCATCGATCCCCGTACCTCTCACATGCTAAGCGAGCGCTCTACCATCTGAGCTACATCCCCGAGTG
DroYak_CAF1_left   TATTG-TACTACA-----TAATTAAAAAAGTTCAAGAAGACTTGGAGATGCGGGGCATCGATCCCCGTACCTCTCACATGCTAAGCGAGCGCTCTACCATCTGAGCTACATCCCCGAGTG
DroAna_CAF1_left   AAAAT-TATAAAA-----TAATAAAAAATAATAATTCCAAATTGGAGATGCGGGGTATCGATCCCCGTACCTCTCACATGCTAAGCGAGCGCTCTACCATCTGAGCTACATCCCCTGGTG

DroMel_CAF1_left   ATCG-CGATTTGCCAAACACACTTGTGATT-CTTCGA-CACT-AAAACTAA-ATCACTACCT-GAAACGAT-TTGGGATGGACTACTAGAGA-TGCGTTGCCCGCAATAAGAGCCACCC
DroMoj_CAF1_left   TCGT-CCGCGGTCCAAATTATGGCTCATGT-CGCAGG-CTTG-TTCACTGTGTACAATTCTG-TCGCTGCTTACCTTTGGAACGATCTGGAATGGAGCAGCCCACAAA---ATTT-GCC
DroPer_CAF1_left   ACGGGGCGCAGGCCAGAAGCGA--TTGATA-ATGGCA-CAGC-GTTACCAG-ACGGTAAACAAGAAATCCGTGCAGAAACGATCTGGAAAGAAGCAGAAACACAGCCCATCAACCAT-A
DroPse_CAF1_left   ACGAGGGGCAGGCCAGAAGCGA--TTGATA-ATGGCA-CAGC-GTTACCAG-ACGATAAACAAGAAATCAGTGCAGAAACGATCTGGAAAGAGGCAAATAGACAGCCCATCAACCAT-A
DroSec_CAF1_left   ATCG-CGACTTGCCAAAAACACTTGTGATT-CTTCGA-CACT-AAAACGAA-ATCACTAACT-GAAACGAT-TTGGGATTGACTACTAGAGA-TGTGTTGCCCGCAATAACAGCCACCC
DroSim_CAF1_left   ATCG-CGGTTTGCCAAAAACACTTGTGATT-CTTCGA-CACT-AAAACGAA-ATCACTAACT-GAAACGAT-TTGGGATTGACTACTAGAGA-TGCGTTGCCCGCAATAACAGCCACCC
DroYak_CAF1_left   ATCG-AGTTTCGCCGAAAACACTTCTGATT-CTTCGA-CATTGGTAATGAA-ATCAATGCCT-GGAACGAT-TCGGGATGGACTACTAGAGA-TGCGTTGCCCGCAATGACAGCCAC-C
DroAna_CAF1_left   ATCG-TGGCTGGCTAAAATCACTTCTGACGGCGCAGGGCACT-C-AAAGGG-ATCGATATCG-AAAGCGAA-ATGAAATTCAAAAACCCAACATCACCATTAAG--ACAACACAATTAT