Table 2.
Percentage of input reads alignment from each bodily fluid
| Bodily Fluid | Blood | Leukocytes | Plasma | Serum | Saliva | Cell-Free Saliva | Urine | Cell-Free Urine | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Ave | SDEV | Ave | SDEV | Ave | SDEV | Ave | SDEV | Ave | SDEV | Ave | SDEV | Ave | SDEV | Ave | SDEV | |
| aInput (million reads) | 15.7 | 2.3 | 12.5 | 1.0 | 12.4 | 6.7 | 9.5 | 1.5 | 10.4 | 1.1 | 10.9 | 1.4 | 14.1 | 2.6 | 15.1 | 4.2 |
| Successfully clipped | 94.4 | 0.7 | 63.4 | 4.6 | 78.7 | 20.7 | 80.7 | 5.3 | 82.1 | 12.2 | 78.3 | 2.1 | 83.2 | 9.4 | 82.1 | 8.8 |
| Failed quality filter | 0.2 | 0.0 | 0.1 | 0.0 | 0.1 | 0.0 | 0.1 | 0.0 | 0.2 | 0.0 | 0.2 | 0.0 | 0.1 | 0.0 | 0.1 | 0.0 |
| Failed homopolymer filter | 0.0 | 0.0 | 0.2 | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.1 | 0.0 | 0.1 | 0.0 | 0.1 | 0.0 | 0.0 | 0.0 |
| UniVec contaminants | 0.4 | 0.0 | 0.7 | 0.3 | 0.8 | 0.9 | 0.5 | 0.2 | 0.6 | 0.4 | 0.6 | 0.2 | 0.5 | 0.3 | 0.6 | 0.4 |
| rRNA | 9.1 | 1.4 | 36.0 | 1.5 | 2.0 | 0.9 | 7.0 | 3.4 | 16.6 | 7.5 | 13.0 | 6.2 | 5.3 | 4.4 | 2.1 | 1.3 |
| Reads used for alignment | 84.7 | 2.2 | 26.4 | 2.8 | 75.8 | 21.0 | 73.1 | 7.6 | 64.6 | 19.5 | 64.5 | 7.2 | 77.2 | 14.0 | 79.3 | 9.8 |
| Genome | 82.2 | 1.9 | 22.7 | 2.3 | 69.0 | 26.7 | 58.0 | 9.5 | 15.7 | 5.3 | 14.2 | 3.3 | 56.1 | 31.7 | 53.7 | 33.6 |
| miRNA sense | 70.5 | 3.1 | 6.1 | 0.9 | 11.6 | 7.7 | 10.2 | 3.4 | 1.4 | 0.9 | 2.7 | 0.7 | 3.2 | 1.9 | 4.4 | 2.8 |
| miRNAprecursor sense | 0.2 | 0.0 | 0.1 | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 |
| tRNA sense | 1.7 | 0.3 | 3.8 | 1.0 | 8.9 | 11.1 | 22.0 | 6.1 | 5.4 | 4.1 | 4.6 | 1.3 | 47.4 | 37.6 | 44.5 | 40.0 |
| piRNA sense | 1.5 | 0.5 | 1.2 | 0.2 | 4.9 | 3.3 | 1.1 | 0.4 | 0.1 | 0.0 | 0.1 | 0.0 | 0.1 | 0.1 | 0.1 | 0.1 |
| Gencode sense | 7.9 | 0.7 | 9.6 | 1.1 | 42.7 | 28.1 | 23.0 | 3.7 | 5.1 | 2.7 | 4.1 | 2.5 | 1.9 | 1.5 | 1.1 | 1.0 |
| Not mapped to genome or transcriptome | 2.5 | 0.2 | 3.8 | 0.5 | 6.7 | 5.8 | 15.1 | 5.3 | 48.9 | 19.7 | 50.3 | 10.1 | 21.2 | 17.8 | 25.6 | 23.9 |
aNumber of million input reads obtained from sequencing of each sample and used in the alignment