From: Adaptable probabilistic mapping of short reads using position specific scoring matrices
 |  | Unfiltered | Filtered |  |
---|---|---|---|---|
 | Mapper | Aligned | Aligned | Time (s) |
 |  | (fraction) | (fraction) |  |
a) Ancient DNA | ||||
 | BWA-PSSMA | 0.01000 | 0.00763 | 60.75 |
 | BWA-PSSM | 0.01000 | 0.00759 | 51.61 |
 | BWA | 0.00906 | 0.00708 | 18.63 |
 | BWA-MEM | 0.01629 | 0.01177 | 21.24 |
 | Bowtie | 0.00892 | * | 63.78 |
 | Bowtie2 | 0.01087 | 0.00691 | 16.48 |
 | GEM | 0.06106 | * | 18.69 |
b) Real PAR-CLIP | ||||
 | BWA-PSSMPC | 0.600 | 0.148 | 146.08 |
 | BWA-PSSM | 0.476 | 0.114 | 141.08 |
 | BWA | 0.483 | 0.140 | 166.99 |
 | BWA-MEM | 0.198 | 0.022 | 236.51 |
 | Bowtie | 0.463 | * | 84.81 |
 | Bowtie2 | 0.453 | 0.076 | 43.11 |
 | GEM | 0.227 | 0.227 | 280.57 |