Alignment Stats
| Sequence pairs analysed in total |
41519830 |
| Paired-end alignments with a unique best hit |
24269988 |
| Pairs without alignments under any condition |
4258394 |
| Pairs that did not map uniquely |
12991448 |
| Genomic sequence context not extractable (edges of chromosomes) |
4 |
|
|
Cytosine Methylation
| Total C's analysed |
1068568056 |
| Methylated C's in CpG context |
26858866 |
| Methylated C's in CHG context |
1160832 |
| Methylated C's in CHH context |
5188825 |
| Methylated C's in Unknown context |
122325 |
| Unmethylated C's in CpG context |
105035830 |
| Unmethylated C's in CHG context |
181367885 |
| Unmethylated C's in CHH context |
748955818 |
| Unmethylated C's in Unknown context |
925619 |
| Percentage methylation (CpG context) |
20.4% |
| Percentage methylation (CHG context) |
0.6% |
| Percentage methylation (CHH context) |
0.7% |
| Methylated C's in Unknown context |
11.7% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
12151917 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
12118067 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
24269984 |
| Unique alignments |
22712055 |
| Duplicates removed |
1557929 |
| Duplicated alignments were found at 1458773 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
788031280 |
| Methylated C's in CpG context |
19766719 |
| Methylated C's in CHG context |
717410 |
| Methylated C's in CHH context |
3239835 |
| Unmethylated C's in CpG context |
77664625 |
| Unmethylated C's in CHG context |
133828701 |
| Unmethylated C's in CHH context |
552813990 |
| Percentage methylation (CpG context) |
20.3% |
| Percentage methylation (CHG context) |
N/A% |
| Percentage methylation (CHH context) |
N/A% |
|
|
Nucleotide Coverage
| Nucleotide Class | Counts Sample | Counts Genome | % in Sample | % in Genome | fold coverage |
|---|
| A | 1964858940 | 378413849 | 34.61 | 32.06 | 5.192 |
|---|
| T | 1807626457 | 378309330 | 31.84 | 32.05 | 4.778 |
|---|
| C | 899417779 | 211781786 | 15.84 | 17.94 | 4.247 |
|---|
| G | 1005823459 | 211810957 | 17.72 | 17.95 | 4.749 |
|---|
| AC | 308426380 | 68264877 | 5.47 | 5.78 | 4.518 |
|---|
| CA | 371588549 | 80836853 | 6.59 | 6.85 | 4.597 |
|---|
| TC | 283113855 | 67705770 | 5.02 | 5.74 | 4.182 |
|---|
| CT | 255242345 | 62481783 | 4.53 | 5.29 | 4.085 |
|---|
| CC | 155287244 | 42358709 | 2.75 | 3.59 | 3.666 |
|---|
| CG | 110372694 | 26104181 | 1.96 | 2.21 | 4.228 |
|---|
| GC | 146096135 | 33452245 | 2.59 | 2.83 | 4.367 |
|---|
| GG | 183321392 | 42378301 | 3.25 | 3.59 | 4.326 |
|---|
| AG | 314656753 | 62424886 | 5.58 | 5.29 | 5.041 |
|---|
| GA | 345968801 | 67679435 | 6.14 | 5.73 | 5.112 |
|---|
| TG | 390265390 | 80903356 | 6.92 | 6.85 | 4.824 |
|---|
| GT | 323048980 | 68300800 | 5.73 | 5.79 | 4.730 |
|---|
| TT | 609518353 | 128294772 | 10.81 | 10.87 | 4.751 |
|---|
| TA | 511879054 | 101400983 | 9.08 | 8.59 | 5.048 |
|---|
| AT | 607192019 | 119230832 | 10.77 | 10.10 | 5.093 |
|---|
| AA | 721114760 | 128492079 | 12.79 | 10.89 | 5.612 |
|---|
|
|
M-Bias Plot
