Table 6. Alignment statistics for all RNA-seq datasets in source alignment with STAR and after recovery of reads with Scavenger.
The datasets are divided into three sections: 1. Datasets from selected non-reference mouse strain, 2. Normal (bulk) RNA-seq dataset from either human (†) or mouse (§), and 3. Single-cell RNA-seq dataset from mouse.
| Accession
ID |
Read
length (bp) |
Total
reads |
Source
aligned reads |
Source
unaligned reads |
Source
mappability (%) |
Rescue
aligned reads |
Rescue
unaligned reads |
Rescue
mappability (%) |
Rescued
reads |
Unaligned
reads rescued (%) |
|---|---|---|---|---|---|---|---|---|---|---|
| SRP039411 | 97 | 47,077,051 | 44,052,994 | 3,024,056 | 93.6 | 44,162,052 | 2,915,000 | 93.8 | 109,057 | 3.61 |
| ERP000614 | 73 | 30,406,321 | 29,529,186 | 877,136 | 97.1 | 29,571,416 | 834,905 | 97.3 | 42,230 | 4.72 |
| SRP020636 | 93 | 10,695,056 | 10,023,946 | 671,110 | 93.8 | 10,053,119 | 641,937 | 94 | 29,173 | 4.43 |
| SRP068123 | 89 | 36,237,495 | 29,132,806 | 7,104,689 | 82.2 | 29,342,165 | 6,895,330 | 82.7 | 209,360 | 2.9 |
| SRP013610 | 54 | 21,039,752 | 20,514,308 | 525,444 | 97.5 | 20,531,454 | 508,298 | 97.6 | 17,146 | 3.19 |
| SRP076218 | 86 | 20,183,248 | 19,802,286 | 380,962 | 98.1 | 19,822,443 | 360,805 | 98.2 | 20,157 | 5.49 |
| SRP045630 | 99 | 15,931,928 | 15,550,706 | 381,221 | 97.6 | 15,578,309 | 353,618 | 97.8 | 27,603 | 7.24 |
| SRP016501 | 48 | 85,677,826 | 82,218,772 | 3,459,055 | 96.2 | 82,614,984 | 3,062,842 | 96.6 | 396,213 | 8.86 |
| SRP075605 † | 51 | 30,851,404 | 29,278,793 | 1,572,611 | 95 | 29,356,220 | 1,495,184 | 95.2 | 77,427 | 5.26 |
| SRP122535 † | 50 | 15,658,933 | 15,121,371 | 537,562 | 96.6 | 15,133,718 | 525,214 | 96.7 | 12,347 | 2.58 |
| SRP013027 § | 100 | 28,031,517 | 26,043,731 | 1,987,786 | 92.9 | 26,092,526 | 1,938,992 | 93.1 | 48,794 | 2.49 |
| SRP045452 | 51 | 2,286,199 | 1,307,716 | 978,483 | 57.3 | 1,313,084 | 973,116 | 57.5 | 5,368 | 0.621 |
The result shown is an average of all samples per accession ID.