Date : 01/01/2016 File : /Users/MitoSuite/preview.mapped_markdup.bam
Basic Profile
Summary Table
Depth of Coverage
Zoom In: Dragging-area / Zoom Out: Right-clicking
| Average | Median | Std. | Q1 | Q3 | Max | Min | >10× | >20× | >30× | >40× | >50× |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 92.619 | 96.0 | 20.431 | 81.0 | 107.0 | 139.0 | 2.0 | 0.999 | 0.997 | 0.992 | 0.987 | 0.968 |
Depth table
Summary Statistics
Distribution Plot
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* Mapping Quality (BinSize=5), Read Length (BinSize=5), GC-contents (BinSize=0.2)
Summary table
| Avg. |
Std. |
Median | Min | Max | Q1 | Q3 | |
|---|---|---|---|---|---|---|---|
| MapQ | 36.821 | 1.472 | 37.0 | 0.0 | 37.0 | 37.0 | 37.0 |
| Length | 70.333 | 20.323 | 71.0 | 30.0 | 94.0 | 52.0 | 93.0 |
| GC(%) | 44.575 | 6.637 | 44.595 | 22.892 | 73.333 | 40.0 | 48.936 |
Phred Score
Box Plot
* The blue box represents the interquantile range (IQR). The upper and lower whiskers show 1.5X IQR. The pink line represents the mean value.
Phred Score table
* Q1: 25th percentile, Q3: 75th percentile
ATGC Frequency
Line plot
Haplogroup Analysis
Estimated Haplogroups (PhyloTree Build 17)
Consensus Sequence
Sequence Support for assembly
The percentage of concordance across mitochondrial genome
| Avg. |
>0.5 |
>0.6 |
>0.7 | >0.8 | >0.9 | =1.0 |
|---|---|---|---|---|---|---|
| 0.993 | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | 0.632 |
*The percentage of concordance represents consistent base per site of an assembled consensus sequence. Please see the support page for more information.
consensus.fasta | * Unmapped sites , Phred Score <20 , and Concordance rate ≤0.5 are assigned to 'N' .Substitutions vs. consensus sequence [Option : Detection of Heteroplasmic sites (MAF :0.05)]
Proportion of substitutions
*Substitution on all sites for an assembled consensus sequence.
Optinal Analysis
Disease-association Analysis (β)
Reports of Disease-Associations in MITOMAP(Oct 02, 2015 version).
*Position column shows a reference sequence position (rCRS).Mutation column means that of Allele in MITOMAP.Please check more detail information at MITOMAP.
Ancient DNA checker (β)
The percentage of mismatch bases on diagnostic sites
| Avg.[%] |
Std. |
Median | Min | Max | C.I.(95%) |
|---|---|---|---|---|---|
| 1.08 | 1.394 | 0.877 | 0.0 | 5.31 | 0.71-1.45 |
*The percentage is based on inconsistent bases with polymorphic sites of an estimated haplogroup.
Deamination Check
