Template:  SRS049995_LANL_scaffold_40118 strand: + 17878-18058 ref: 17878-18057
Variable:  SRS049995_LANL_scaffold_40118 strand: + 16468-16648 alnlen 180 mutations 31 involve-A 26 involve-T 1

17878      TCCCTGCGTCGGGGTATCGCAACTATTCCAATGGCGGGGCGAACAACGTTGGCAGCTACGGCTACTGTTGGTCGGCGGTTCCGAACAACCAGAACAACGGTCGCAACCTGAACTTCAACTCGTCGAACGTGAACCCGTTGAACAACAACAATCGGGCGTACGGGTTTGGGGTGCGTTCTT 
           ::::::::::::::: :::: ::: ::::  :::::::::::::: :::::::  :::::::  ::::::::::::::::::: ::: :::: :: ::::: ::: :::: :::::  :::::::  :::: ::::::::  : :: ::  ::::: :: :::::::::: :::::::::
16468      TCCCTGCGTCGGGGTCTCGCGACTGTTCCGGTGGCGGGGCGAACAGCGTTGGCTTCTACGGCGTCTGTTGGTCGGCGGTTCCGTACAGCCAGTACCACGGTTGCACCCTGGACTTCTCCTCGTCGTCCGTGTACCCGTTGCTCTACTACTCTCGGGTGTGCGGGTTTGGGTTGCGTTCTT