Alignment Stats
| Sequence pairs analysed in total |
41519830 |
| Paired-end alignments with a unique best hit |
28437067 |
| Pairs without alignments under any condition |
6806531 |
| Pairs that did not map uniquely |
6276232 |
| Genomic sequence context not extractable (edges of chromosomes) |
42 |
|
|
Cytosine Methylation
| Total C's analysed |
1251628692 |
| Methylated C's in CpG context |
31868450 |
| Methylated C's in CHG context |
1372759 |
| Methylated C's in CHH context |
6112017 |
| Methylated C's in Unknown context |
145721 |
| Unmethylated C's in CpG context |
122279115 |
| Unmethylated C's in CHG context |
212348896 |
| Unmethylated C's in CHH context |
877647455 |
| Unmethylated C's in Unknown context |
1257553 |
| Percentage methylation (CpG context) |
20.7% |
| Percentage methylation (CHG context) |
0.6% |
| Percentage methylation (CHH context) |
0.7% |
| Methylated C's in Unknown context |
10.4% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
14215864 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
14221161 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
28437025 |
| Unique alignments |
26616534 |
| Duplicates removed |
1820491 |
| Duplicated alignments were found at 1705094 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
920971231 |
| Methylated C's in CpG context |
23422881 |
| Methylated C's in CHG context |
850478 |
| Methylated C's in CHH context |
3822332 |
| Unmethylated C's in CpG context |
90190962 |
| Unmethylated C's in CHG context |
156291480 |
| Unmethylated C's in CHH context |
646393098 |
| Percentage methylation (CpG context) |
20.6% |
| 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 | 2267064723 | 253281200 | 34.59 | 32.09 | 8.951 |
|---|
| T | 2086894941 | 253281001 | 31.84 | 32.09 | 8.239 |
|---|
| C | 1039464175 | 141394985 | 15.86 | 17.92 | 7.351 |
|---|
| G | 1160115787 | 141251970 | 17.70 | 17.90 | 8.213 |
|---|
| AC | 356224256 | 45489259 | 5.47 | 5.76 | 7.831 |
|---|
| CA | 429765155 | 54159510 | 6.61 | 6.86 | 7.935 |
|---|
| TC | 327491165 | 45288269 | 5.03 | 5.74 | 7.231 |
|---|
| CT | 295165774 | 41766898 | 4.54 | 5.29 | 7.067 |
|---|
| CC | 179311867 | 28259664 | 2.76 | 3.58 | 6.345 |
|---|
| CG | 127216228 | 17208692 | 1.96 | 2.18 | 7.393 |
|---|
| GC | 168932882 | 22357630 | 2.60 | 2.83 | 7.556 |
|---|
| GG | 211347280 | 28206624 | 3.25 | 3.57 | 7.493 |
|---|
| AG | 362565049 | 41639512 | 5.57 | 5.28 | 8.707 |
|---|
| GA | 398648394 | 45250237 | 6.13 | 5.73 | 8.810 |
|---|
| TG | 450676854 | 54196921 | 6.93 | 6.87 | 8.316 |
|---|
| GT | 372666010 | 45437311 | 5.73 | 5.76 | 8.202 |
|---|
| TT | 703877720 | 86086811 | 10.82 | 10.91 | 8.176 |
|---|
| TA | 590009613 | 67706051 | 9.07 | 8.58 | 8.714 |
|---|
| AT | 700608823 | 79989139 | 10.77 | 10.14 | 8.759 |
|---|
| AA | 832122516 | 86162409 | 12.79 | 10.92 | 9.658 |
|---|
|
|
M-Bias Plot
