Summary of sequence read alignments to the UMD 3.1 reference genome and gene.

Total reads: total number of sequencing reads. Total base pairs: total number of base pairs. Total mapped reads: the reads that can aligned to reference sequence and the ratio of it. We not only classified statistic by mismatch number but also classified by uniqueness of alignment postion, following 4 ranks are result of classified statistic, perfect match: in total mapped reads, no mismatch; ≤3 bp mismatch: in total mapped reads, mismatch number less than 3 bp; unique match: in total mapped reads, reads aligned to only one postion; multi-position match: in total mapped reads, reads aligned to two or more places. Total unmapped reads: reads that don't aligned to reference sequence.