Table 2.
Statistics of mapping results by BWA
| Data-set | Read type | Number of pre-processed reads | Uniquely mappeda | Uniquely & properly mappedb | Multiplec | Unmappedd |
|---|---|---|---|---|---|---|
| NIAS | SE, 36bp | 59,344,842 | 38,193,181 (64.4%) | - | 18,463,375 (31.1%) | 302,057 (0.5%) |
| [40,579,410 (68.4%)]e | ||||||
| SE, 51bp | 50,981,527 | 34,124,172 (66.9%) | - | 14,613,663 (28.7%) | 385,876 (0.8%) | |
| [35,981,988 (70.6%)] | ||||||
| CSHL | PE, 76bp | 246,779,548 | 191,891,774 (77.8%) | 185,630,272 (75.2%) | 40,901,655 (16.6%) | 13,986,119 (5.7%) |
| [190,608,407 (77.2%)] | ||||||
| Unpaired PEf, 76bp | 10,316,471 | 7,235,730 (70.1%) | - | 1,909,048 (18.5%) | 819,735 (7.9%) | |
| [7,587,688 (73.5%)] |
a Number of uniquely mapped reads on the assembled pseudomolecules.
b Number of uniquely mapped reads with proper distances between paired end reads.
c Number of reads that mapped to multiple positions on the assembled pseudomolecules with the same score.
d Number of reads that could not be mapped to the assembled pseudomolecules.
e The numbers of reads in the square brackets includes mapped reads with lower mapping quality (MAPQ <20).
f Unpaired reads for which one of the pair was discarded in the preprocessing and thus was mapped as a single-end read.