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Base Quality Distribution
Mean Base Quality
31
29
27
25 0
25
50
Position in read RG
ERR992655
75
100
Base Content Distribution ERR992655
Base Content Fraction
0.3
0.2
0.1
0.0 0
25
50
75
Position in read Base
A
C
G
N
T
100
Read Length Distribution
Fraction of reads
0.8
0.6
0.4
0.2
0.0 0
25
50
Read length RG
ERR992655
75
100
Mapping Quality Distribution
Fraction of reads
0.75
0.50
0.25
0.00 0
20
40
Mapping Quality RG
ERR992655
60
Coverage Distribution HG00513
Count
750,000,000
500,000,000
250,000,000
0 0
1
2
3
Coverage RG
ERR992655
4
5
Insert Size Distribution Insert size > 8166 (4.33%) Insert size < 2575 (0.97%) ERR992655 12,000
Layout HG00513
6,000
F− F+ R− R+
3,000
InsertSize
0 00 8,
0 00 6,
00
0
0
4,
Count
9,000
Sample Library #QCFail QCFailFraction #DuplicateMarked DuplicateFraction #Unmapped UnmappedFraction #Mapped MappedFraction #MappedRead1 #MappedRead2 RatioMapped2vsMapped1 #SecondaryAlignments SecondaryAlignmentFraction #SupplementaryAlignments SupplementaryAlignmentFraction #Pairs #MappedPairs MappedFraction #MappedSameChr MappedSameChrFraction #ReferenceBp #ReferenceNs #AlignedBases #MatchedBases MatchRate #MismatchedBases MismatchRate #DeletionsCigarD DeletionRate #InsertionsCigarI InsertionRate #SoftClippedBases SoftClipRate #HardClippedBases HardClipRate ErrorRate MedianReadLength DefaultLibraryLayout MedianInsertSize MedianCoverage SDCoverage MedianMAPQ
HG00513 ERR992655 0 0 565499 0.0144855 155603 0.00398584 38317868 0.981529 19207951 19109917 0.994896 175564 0.00458178 1445051 0.0377122 20326703 20166855 0.992136 18920808 0.930835 3216011937 173893355 3420663700 3405602459 0.995597 15061241 0.00440302 362844 0.000106074 311083 9.09423e−05 3564155 0.00104195 0 0 0.00564198 101 3 6624 1 0.306449 60
Base Quality Distribution - GitHub
ERR992655. 0. 25. 50. 75. 100. 0.0. 0.1. 0.2. 0.3. Position in read. Base Content Fraction. Base. A.
C
. G. N. T. Base Content
Distribution
...
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