Alignment Stats
| Sequence pairs analysed in total |
41446330 |
| Paired-end alignments with a unique best hit |
27932618 |
| Pairs without alignments under any condition |
6885441 |
| Pairs that did not map uniquely |
6628271 |
| Genomic sequence context not extractable (edges of chromosomes) |
50 |
|
|
Cytosine Methylation
| Total C's analysed |
1228796229 |
| Methylated C's in CpG context |
31320139 |
| Methylated C's in CHG context |
1472409 |
| Methylated C's in CHH context |
6646960 |
| Methylated C's in Unknown context |
180265 |
| Unmethylated C's in CpG context |
118110417 |
| Unmethylated C's in CHG context |
207151122 |
| Unmethylated C's in CHH context |
864095182 |
| Unmethylated C's in Unknown context |
1355576 |
| Percentage methylation (CpG context) |
21.0% |
| Percentage methylation (CHG context) |
0.7% |
| Percentage methylation (CHH context) |
0.8% |
| Methylated C's in Unknown context |
11.7% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
13978126 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
13954442 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
27932568 |
| Unique alignments |
25944767 |
| Duplicates removed |
1987801 |
| Duplicated alignments were found at 1850915 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
866461299 |
| Methylated C's in CpG context |
22027251 |
| Methylated C's in CHG context |
912847 |
| Methylated C's in CHH context |
4163561 |
| Unmethylated C's in CpG context |
83537757 |
| Unmethylated C's in CHG context |
146091620 |
| Unmethylated C's in CHH context |
609728263 |
| Percentage methylation (CpG context) |
20.9% |
| 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 | 2180931225 | 253281200 | 34.68 | 32.09 | 8.611 |
|---|
| T | 2003541542 | 253281001 | 31.86 | 32.09 | 7.910 |
|---|
| C | 999970322 | 141394985 | 15.90 | 17.92 | 7.072 |
|---|
| G | 1104868408 | 141251970 | 17.57 | 17.90 | 7.822 |
|---|
| AC | 342891232 | 45489259 | 5.49 | 5.76 | 7.538 |
|---|
| CA | 414194053 | 54159510 | 6.63 | 6.86 | 7.648 |
|---|
| TC | 315514425 | 45288269 | 5.05 | 5.74 | 6.967 |
|---|
| CT | 284324612 | 41766898 | 4.55 | 5.29 | 6.807 |
|---|
| CC | 172775424 | 28259664 | 2.77 | 3.58 | 6.114 |
|---|
| CG | 120960347 | 17208692 | 1.94 | 2.18 | 7.029 |
|---|
| GC | 161527754 | 22357630 | 2.59 | 2.83 | 7.225 |
|---|
| GG | 201336933 | 28206624 | 3.22 | 3.57 | 7.138 |
|---|
| AG | 345561078 | 41639512 | 5.53 | 5.28 | 8.299 |
|---|
| GA | 380523774 | 45250237 | 6.09 | 5.73 | 8.409 |
|---|
| TG | 429083766 | 54196921 | 6.87 | 6.87 | 7.917 |
|---|
| GT | 353393100 | 45437311 | 5.66 | 5.76 | 7.778 |
|---|
| TT | 678353309 | 86086811 | 10.86 | 10.91 | 7.880 |
|---|
| TA | 566246968 | 67706051 | 9.07 | 8.58 | 8.363 |
|---|
| AT | 673470607 | 79989139 | 10.79 | 10.14 | 8.420 |
|---|
| AA | 804034936 | 86162409 | 12.88 | 10.92 | 9.332 |
|---|
|
|
M-Bias Plot
