/Martin Hirst/mapping_coverage/PX0821_GATCAG_6_lane_gembs
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SAMPLE PX0821_GATCAG_6_lane_gembs
Read Level Counts
| Type |
#reads |
% |
#bases |
% |
| Total |
1665570730 |
100% |
230373473328 |
100% |
| Mapped |
1639109823 |
98.41 % |
226404337278 |
98.28 % |
| Passed |
623446537 |
37.43 % |
74054844378 |
32.15 % |
| NotPassed |
1015663286 |
60.98 % |
152349492900 |
66.13 % |
| |
|
|
|
|
| LowMAPQ |
715376698 |
42.95 % |
107306504700 |
46.58 % |
| MateUnmapped |
26460907 |
1.59 % |
3969136050 |
1.72 % |
| Duplicate |
57712233 |
3.47 % |
8656834950 |
3.76 % |
| BadOrientation |
0 |
0.00 % |
0 |
0.00 % |
| LargeInsertSize |
20567264 |
1.23 % |
3085089600 |
1.34 % |
| |
|
|
|
|
| NotCorrectlyAligned |
222007091 |
13.33 % |
33301063650 |
14.46 % |
| Unmapped |
26460907 |
1.59 % |
3969136050 |
1.72 % |
Base Level Counts
| Bases |
# |
% |
| Total |
93461759700 |
100% |
| Passed |
68596520381 |
73.40 % |
| Trimmed |
2410969292 |
2.58 % |
| Clipped |
3925959859 |
4.20 % |
| Overlapping |
15480955463 |
16.56 % |
| LowQuality |
3047354705 |
3.26 % |
Coverage and Quality
| Coverage Distribution |
Quality Distribution |
 |
 |
| GC/Coverage Heatmap |
Non-CpG Read Profile |
 |
 |