/Martin Hirst/mapping_coverage/PX0681_GCACTT_3_lane_gembs
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SAMPLE PX0681_GCACTT_3_lane_gembs
Read Level Counts
| Type |
#reads |
% |
#bases |
% |
| Total |
592570384 |
100% |
84224248742 |
100% |
| Mapped |
584131319 |
98.58 % |
82958388992 |
98.50 % |
| Passed |
149638630 |
25.25 % |
17784485642 |
21.12 % |
| NotPassed |
434492689 |
73.32 % |
65173903350 |
77.38 % |
| |
|
|
|
|
| LowMAPQ |
237608566 |
40.10 % |
35641284900 |
42.32 % |
| MateUnmapped |
8439065 |
1.42 % |
1265859750 |
1.50 % |
| Duplicate |
41206074 |
6.95 % |
6180911100 |
7.34 % |
| BadOrientation |
0 |
0.00 % |
0 |
0.00 % |
| LargeInsertSize |
2408776 |
0.41 % |
361316400 |
0.43 % |
| |
|
|
|
|
| NotCorrectlyAligned |
153269273 |
25.87 % |
22990390950 |
27.30 % |
| Unmapped |
8439065 |
1.42 % |
1265859750 |
1.50 % |
Base Level Counts
| Bases |
# |
% |
| Total |
22356549900 |
100% |
| Passed |
16535616314 |
73.96 % |
| Trimmed |
567463766 |
2.54 % |
| Clipped |
1222751930 |
5.47 % |
| Overlapping |
3349312328 |
14.98 % |
| LowQuality |
681405562 |
3.05 % |
Coverage and Quality
| Coverage Distribution |
Quality Distribution |
 |
 |
| GC/Coverage Heatmap |
Non-CpG Read Profile |
 |
 |