Name: de2670_08232016_bwamem filtered haplotype snpindel
Variants: 16159
Novel Variants: 1445 (Not in latest DbSNP Build)

Type Total Variants
Total SNVs 16159 5465 0/1 10639 1/1 55 1/2
Total Gene-associated SNVs 16159 5465 0/1 10639 1/1 55 1/2

Type Total Variants
51
CODON_CHANGE_PLUS_CODON_DELETION6
CODON_CHANGE_PLUS_CODON_INSERTION4
CODON_DELETION2
MOTIF[MA0003.1:Ap2alpha]1
MOTIF[MA0062.2:Gabp]2
MOTIF[MA0065.2:PPARG]1
MOTIF[MA0079.2:SP1]3
MOTIF[MA0080.2:PU1]1
MOTIF[MA0093.1:USF1]4
MOTIF[MA0138.2:Nrsf]1
MOTIF[MA0139.1:CTCF]5
MOTIF[MA0154.1:EBF]1
MOTIF[MA0162.1:Egr1]1
NON_SYNONYMOUS_CODING226
NON_SYNONYMOUS_CODING+SPLICE_SITE_REGION4
PROTEIN_STRUCTURAL_INTERACTION_LOCUS4
SPLICE_SITE_REGION+SYNONYMOUS_CODING4
START_GAINED5
START_LOST1
STOP_GAINED3
SYNONYMOUS_CODING261
SYNONYMOUS_STOP1
None0

Type Total Variants
92
MISSENSE231
NONSENSE3
SILENT266
None0

Type Total Variants
HIGH8
LOW281
MODERATE242
MODIFIER61
None0

Type Total Variants
LowCoverage1702
LowCoverage;LowQual1069
LowCoverage;LowQual;SnpCluster3
LowCoverage;LowQual;SnpCluster;VeryLowQual71
LowCoverage;LowQual;VeryLowQual4212
LowCoverage;SnpCluster237
LowQD32
LowQD;LowQual20
LowQD;LowQual;SnpCluster2
LowQD;LowQual;SnpCluster;VeryLowQual13
LowQD;LowQual;VeryLowQual93
LowQD;SnpCluster1
LowQual272
LowQual;SnpCluster34
LowQual;SnpCluster;VeryLowQual5
LowQual;VeryLowQual220
PASS7797
SnpCluster376

Quality Value
Min10.15
Average786.021904820759
Max196801.77

Read Depth Value
Min0
Average0.0
Max0

Type Total Variants
None0

Chromossome Total Variants
11529
101034
11858
12832
13412
14419
15466
16546
17687
18412
19516
21379
20351
21262
22276
31039
4756
51052
6638
7958
8594
9767
M51
X250
Y75