Template:  AMFJ01002827.1 strand: + 5523-5658 ref: 5523-5658
Variable:  AMFJ01002827.1 strand: + 5050-5185 alnlen 135 mutations 19 involve-A 18 involve-T 1

5523       AGGCTCAGTGTGGCGCAACCTCAATGGTAATCGCTATGTTGCGTATCTGAACAGGAACGATTCGAATCGTAAGCTCAACCTCAACAACTTCGACAATGACTGGAATGACCGCTGTCGCTTCGCTGCTGTTCGCAA 
           :::::::::::::::: ::::: :::::  :::::::::::::::::::  ::::  :::::::  :::::::::: :::::  :::::::: :: :::::::   : :::::::::::::::::::::::::::
5050       AGGCTCAGTGTGGCGCCACCTCGATGGTTCTCGCTATGTTGCGTATCTGCGCAGGCGCGATTCGCGTCGTAAGCTCCACCTCCGCAACTTCGGCATTGACTGGCTCGGCCGCTGTCGCTTCGCTGCTGTTCGCAA