/Martin Hirst/mapping_coverage/PX1413_AGCATC_4_lane_gembs
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SAMPLE PX1413_AGCATC_4_lane_gembs
Read Level Counts
| Type |
#reads |
% |
#bases |
% |
| Total |
1828233042 |
100% |
253499366423 |
100% |
| Mapped |
1792535214 |
98.05 % |
248144692223 |
97.89 % |
| Passed |
439583454 |
24.04 % |
45201928223 |
17.83 % |
| NotPassed |
1352951760 |
74.00 % |
202942764000 |
80.06 % |
| |
|
|
|
|
| LowMAPQ |
884063612 |
48.36 % |
132609541800 |
52.31 % |
| MateUnmapped |
35697828 |
1.95 % |
5354674200 |
2.11 % |
| Duplicate |
49952061 |
2.73 % |
7492809150 |
2.96 % |
| BadOrientation |
0 |
0.00 % |
0 |
0.00 % |
| LargeInsertSize |
253138 |
0.01 % |
37970700 |
0.01 % |
| |
|
|
|
|
| NotCorrectlyAligned |
418682949 |
22.90 % |
62802442350 |
24.77 % |
| Unmapped |
35697828 |
1.95 % |
5354674200 |
2.11 % |
Base Level Counts
| Bases |
# |
% |
| Total |
65773216350 |
100% |
| Passed |
42244355452 |
64.23 % |
| Trimmed |
1508140470 |
2.29 % |
| Clipped |
5497518985 |
8.36 % |
| Overlapping |
15073769142 |
22.92 % |
| LowQuality |
1449432301 |
2.20 % |
Coverage and Quality
| Coverage Distribution |
Quality Distribution |
 |
 |
| GC/Coverage Heatmap |
Non-CpG Read Profile |
 |
 |