Checks whether the stard/end pos in pattern overlaps with the start/end pos of each row in table by at least almin and returns positions in table that overlap.

Checks whether the stard/end pos in pattern overlaps with the start/end pos of each row in table by at least almin and returns positions in table that overlap.

isOverlapping(pattern, table, aln.size = 7)

Arguments

pattern

IR query pattern sequence positions.

table

IR reference table positions to check for overlap with pattern.

aln.size

Minimum allowable overlap considered valid.

Value

Positions in table that overlap.