Table 3. Binding sites detected for the FET protein family.
The number of binding sites for the FET protein family identified by the aligners BWA 2MM, BWA PSSM, BWA PARA, Bowtie 2MM and Bowite2 in combination with BMix and the hierarchical clustering of the PARA-suite. Filters were applied according to ‘PAR-CLIP read simulator and hierarchical clustering.’
| EWSR1 | FUS | TAF15 | |
|---|---|---|---|
| BWA 2MM BMix | 20,703 | 14,768 | 5,086 |
| BWA 2MM Clustering | 22,760 | 36,861 | 5,810 |
| BWA PSSM BMix | 24,639 | 19,628 | 5,238 |
| BWA PSSM Clustering | 27,550 | 51,606 | 6,130 |
| BWA PARA BMix | 25,478 | 19,006 | 5,862 |
| BWA PARA Clustering | 28,692 | 48,042 | 7,588 |
| Bowtie 2MM BMix | 19,173 | 13,902 | 4,582 |
| Bowtie 2MM Clustering | 21,082 | 35,490 | 5,254 |
| Bowtie2 BMix | 12,384 | 8,078 | 3,558 |
| Bowtie2 Clustering | 13,338 | 20,398 | 3,710 |