Figure 1
Blocking strategy with initial offset. As shown in part A and B, seq1 and seq2 are divided into 5 blocks containing 4 bps each. The gap error caused by missing of character C at 7th position in seq1 made it fail to match with seq2. However, as show in part C with additional reading frame for seq1 with 1 bp shift left. We could collect enough matching blocks (highlighted with dark background) to deduce the hit relationship.