Alignment Stats
| Sequence pairs analysed in total |
36627727 |
| Paired-end alignments with a unique best hit |
24485685 |
| Pairs without alignments under any condition |
6281750 |
| Pairs that did not map uniquely |
5860292 |
| Genomic sequence context not extractable (edges of chromosomes) |
42 |
|
|
Cytosine Methylation
| Total C's analysed |
1064712291 |
| Methylated C's in CpG context |
28584973 |
| Methylated C's in CHG context |
1344539 |
| Methylated C's in CHH context |
6040987 |
| Methylated C's in Unknown context |
145435 |
| Unmethylated C's in CpG context |
100975134 |
| Unmethylated C's in CHG context |
179781446 |
| Unmethylated C's in CHH context |
747985212 |
| Unmethylated C's in Unknown context |
1186487 |
| Percentage methylation (CpG context) |
22.1% |
| Percentage methylation (CHG context) |
0.7% |
| Percentage methylation (CHH context) |
0.8% |
| Methylated C's in Unknown context |
10.9% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
12253768 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
12231875 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
24485643 |
| Unique alignments |
22918883 |
| Duplicates removed |
1566760 |
| Duplicated alignments were found at 1463793 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
763050358 |
| Methylated C's in CpG context |
20425426 |
| Methylated C's in CHG context |
842856 |
| Methylated C's in CHH context |
3812989 |
| Unmethylated C's in CpG context |
72530611 |
| Unmethylated C's in CHG context |
128869538 |
| Unmethylated C's in CHH context |
536568938 |
| Percentage methylation (CpG context) |
22.0% |
| 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 | 1945576021 | 253281200 | 35.02 | 32.09 | 7.681 |
|---|
| T | 1761395456 | 253281001 | 31.70 | 32.09 | 6.954 |
|---|
| C | 872429262 | 141394985 | 15.70 | 17.92 | 6.170 |
|---|
| G | 976641451 | 141251970 | 17.58 | 17.90 | 6.914 |
|---|
| AC | 301402462 | 45489259 | 5.46 | 5.76 | 6.626 |
|---|
| CA | 363981237 | 54159510 | 6.60 | 6.86 | 6.721 |
|---|
| TC | 274620747 | 45288269 | 4.98 | 5.74 | 6.064 |
|---|
| CT | 247070316 | 41766898 | 4.48 | 5.29 | 5.915 |
|---|
| CC | 149066229 | 28259664 | 2.70 | 3.58 | 5.275 |
|---|
| CG | 105597782 | 17208692 | 1.91 | 2.18 | 6.136 |
|---|
| GC | 141015940 | 22357630 | 2.56 | 2.83 | 6.307 |
|---|
| GG | 177207304 | 28206624 | 3.21 | 3.57 | 6.282 |
|---|
| AG | 308473405 | 41639512 | 5.59 | 5.28 | 7.408 |
|---|
| GA | 340185726 | 45250237 | 6.17 | 5.73 | 7.518 |
|---|
| TG | 378365505 | 54196921 | 6.86 | 6.87 | 6.981 |
|---|
| GT | 311088852 | 45437311 | 5.64 | 5.76 | 6.847 |
|---|
| TT | 594772882 | 86086811 | 10.78 | 10.91 | 6.909 |
|---|
| TA | 501055646 | 67706051 | 9.08 | 8.58 | 7.400 |
|---|
| AT | 596162215 | 79989139 | 10.81 | 10.14 | 7.453 |
|---|
| AA | 726178632 | 86162409 | 13.16 | 10.92 | 8.428 |
|---|
|
|
M-Bias Plot
