Table 2 The descriptions of the output mapping result fields

POS

The position on reference where the read is optimally aligned.

PAL

PAL=’0’ indicates the alignment of palindrome structure.

MLength

The number of matched or mismatched characters in the alignment.

MType

M (Match), I (Insertion), D (Deletion), or S (Substitution)

MisValues

One or multiple bases in {‘A’, ‘C’, ‘G’, ‘T’, ‘N’}