I am doing some experiment using BowTie and WHAM which are short read aligners that aligns short DNA sequences (reads) to the human genome like BLAST. In WHAM, it is specified that for 75 bps reads, it is biologically required to allow matching with two errors and if the read length increases, allowed error should increase. Now, I want to experiment with those two tools on 150 bps. Can anybody help me what should be the allowed matching errors for 150 bps or where can I find information about it ?
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