Figure 2.

Reads assembly. A(i).fastq and B(i).fastq were one-paired-end reads. The color lines were low quality parts (20 bp). Purple wireframe was the assembled reads part. Solid triangle was the locus which was not consistent in two reads. Paired-end reads were reverse compliment reads. To assemble the two reads, reverse compliment sequence should be calculated by one of them and the other one should be kept. The entire mismatch locus would be set as “N.”