Alignment Stats
| Sequences analysed in total |
111088 |
| Single-end alignments with a unique best hit |
78636 |
| Sequences without alignments under any condition |
24467 |
| Sequences that did not map uniquely |
7985 |
| Genomic sequence context not extractable (edges of chromosomes) |
0 |
|
|
Cytosine Methylation
| Total C's analysed |
1555375 |
| Methylated C's in CpG context |
50259 |
| Methylated C's in CHG context |
9846 |
| Methylated C's in CHH context |
26942 |
| Methylated C's in Unknown context |
834 |
| Unmethylated C's in CpG context |
50887 |
| Unmethylated C's in CHG context |
400124 |
| Unmethylated C's in CHH context |
1017317 |
| Unmethylated C's in Unknown context |
6765 |
| Percentage methylation (CpG context) |
49.7% |
| Percentage methylation (CHG context) |
2.4% |
| Percentage methylation (CHH context) |
2.6% |
| Methylated C's in Unknown context |
N/A% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
16140 |
original top strand |
| CTOT |
23044 |
complementary to original top strand |
| CTOB |
23264 |
complementary to original bottom strand |
| OB |
16188 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
154836 |
| Unique alignments |
154569 |
| Duplicates removed |
267 |
| Duplicated alignments were found at 254 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
2480293 |
| Methylated C's in CpG context |
78602 |
| Methylated C's in CHG context |
12136 |
| Methylated C's in CHH context |
30025 |
| Unmethylated C's in CpG context |
75698 |
| Unmethylated C's in CHG context |
645508 |
| Unmethylated C's in CHH context |
1638324 |
| Percentage methylation (CpG context) |
50.9% |
| Percentage methylation (CHG context) |
1.8% |
| Percentage methylation (CHH context) |
1.8% |
|
|
Nucleotide Coverage
| Nucleotide Class | Counts Sample | Counts Genome | % in Sample | % in Genome | fold coverage |
|---|
| A | 2527550 | 294005666 | 28.19 | 29.12 | 0.009 |
|---|
| T | 2454008 | 294285704 | 27.37 | 29.15 | 0.008 |
|---|
| C | 1901454 | 210594019 | 21.20 | 20.86 | 0.009 |
|---|
| G | 2084476 | 210590343 | 23.24 | 20.86 | 0.010 |
|---|
| AC | 449996 | 52532529 | 5.08 | 5.20 | 0.009 |
|---|
| CA | 688889 | 77472169 | 7.77 | 7.67 | 0.009 |
|---|
| TC | 498335 | 60093701 | 5.62 | 5.95 | 0.008 |
|---|
| CT | 634691 | 73354317 | 7.16 | 7.27 | 0.009 |
|---|
| CC | 437345 | 48375161 | 4.93 | 4.79 | 0.009 |
|---|
| CG | 117268 | 11392056 | 1.32 | 1.13 | 0.010 |
|---|
| GC | 494135 | 49592331 | 5.57 | 4.91 | 0.010 |
|---|
| GG | 496217 | 48349387 | 5.60 | 4.79 | 0.010 |
|---|
| AG | 710027 | 73308184 | 8.01 | 7.26 | 0.010 |
|---|
| GA | 583552 | 60059654 | 6.58 | 5.95 | 0.010 |
|---|
| TG | 736159 | 77540413 | 8.30 | 7.68 | 0.009 |
|---|
| GT | 487766 | 52588666 | 5.50 | 5.21 | 0.009 |
|---|
| TT | 725479 | 96125962 | 8.18 | 9.52 | 0.008 |
|---|
| TA | 464452 | 60525298 | 5.24 | 6.00 | 0.008 |
|---|
| AT | 578785 | 72216445 | 6.53 | 7.15 | 0.008 |
|---|
| AA | 762177 | 95948192 | 8.60 | 9.50 | 0.008 |
|---|
|
|
M-Bias Plot
