Alignment Stats
| Sequences analysed in total |
688201 |
| Single-end alignments with a unique best hit |
469193 |
| Sequences without alignments under any condition |
153894 |
| Sequences that did not map uniquely |
65114 |
| Genomic sequence context not extractable (edges of chromosomes) |
0 |
|
|
Cytosine Methylation
| Total C's analysed |
8773125 |
| Methylated C's in CpG context |
276379 |
| Methylated C's in CHG context |
131737 |
| Methylated C's in CHH context |
314454 |
| Methylated C's in Unknown context |
5399 |
| Unmethylated C's in CpG context |
267674 |
| Unmethylated C's in CHG context |
2175342 |
| Unmethylated C's in CHH context |
5607539 |
| Unmethylated C's in Unknown context |
38268 |
| Percentage methylation (CpG context) |
50.8% |
| Percentage methylation (CHG context) |
5.7% |
| Percentage methylation (CHH context) |
5.3% |
| Methylated C's in Unknown context |
N/A% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
109806 |
original top strand |
| CTOT |
125009 |
complementary to original top strand |
| CTOB |
124440 |
complementary to original bottom strand |
| OB |
109938 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
916633 |
| Unique alignments |
913259 |
| Duplicates removed |
3374 |
| Duplicated alignments were found at 3083 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
13252062 |
| Methylated C's in CpG context |
411087 |
| Methylated C's in CHG context |
154374 |
| Methylated C's in CHH context |
355585 |
| Unmethylated C's in CpG context |
380297 |
| Unmethylated C's in CHG context |
3345527 |
| Unmethylated C's in CHH context |
8605192 |
| Percentage methylation (CpG context) |
51.9% |
| Percentage methylation (CHG context) |
4.4% |
| Percentage methylation (CHH context) |
4.0% |
|
|
Nucleotide Coverage
| Nucleotide Class | Counts Sample | Counts Genome | % in Sample | % in Genome | fold coverage |
|---|
| A | 14420985 | 294005666 | 28.38 | 29.12 | 0.049 |
|---|
| T | 14017891 | 294285704 | 27.58 | 29.15 | 0.048 |
|---|
| C | 10662116 | 210594019 | 20.98 | 20.86 | 0.051 |
|---|
| G | 11717860 | 210590343 | 23.06 | 20.86 | 0.056 |
|---|
| AC | 2547555 | 52532529 | 5.07 | 5.20 | 0.048 |
|---|
| CA | 3880397 | 77472169 | 7.73 | 7.67 | 0.050 |
|---|
| TC | 2832056 | 60093701 | 5.64 | 5.95 | 0.047 |
|---|
| CT | 3588884 | 73354317 | 7.15 | 7.27 | 0.049 |
|---|
| CC | 2430003 | 48375161 | 4.84 | 4.79 | 0.050 |
|---|
| CG | 633155 | 11392056 | 1.26 | 1.13 | 0.056 |
|---|
| GC | 2729711 | 49592331 | 5.43 | 4.91 | 0.055 |
|---|
| GG | 2780594 | 48349387 | 5.54 | 4.79 | 0.058 |
|---|
| AG | 4000201 | 73308184 | 7.96 | 7.26 | 0.055 |
|---|
| GA | 3307755 | 60059654 | 6.59 | 5.95 | 0.055 |
|---|
| TG | 4162373 | 77540413 | 8.29 | 7.68 | 0.054 |
|---|
| GT | 2765738 | 52588666 | 5.51 | 5.21 | 0.053 |
|---|
| TT | 4181682 | 96125962 | 8.33 | 9.52 | 0.044 |
|---|
| TA | 2673237 | 60525298 | 5.32 | 6.00 | 0.044 |
|---|
| AT | 3322143 | 72216445 | 6.61 | 7.15 | 0.046 |
|---|
| AA | 4393425 | 95948192 | 8.75 | 9.50 | 0.046 |
|---|
|
|
M-Bias Plot
