diff --git a/src/interface/parse_args.hpp b/src/interface/parse_args.hpp index cdc7bede..9bf51c83 100644 --- a/src/interface/parse_args.hpp +++ b/src/interface/parse_args.hpp @@ -419,8 +419,8 @@ void parse_args(int argc, map_parameters.chain_gap = l; align_parameters.chain_gap = l; } else { - map_parameters.chain_gap = 20000; - align_parameters.chain_gap = 20000; + map_parameters.chain_gap = 4*map_parameters.segLength; + align_parameters.chain_gap = 4*map_parameters.segLength; } if (drop_low_map_pct_identity) {