Alignment Stats
| Sequences analysed in total |
770211 |
| Single-end alignments with a unique best hit |
516097 |
| Sequences without alignments under any condition |
229519 |
| Sequences that did not map uniquely |
24595 |
| Genomic sequence context not extractable (edges of chromosomes) |
0 |
|
|
Cytosine Methylation
| Total C's analysed |
12746781 |
| Methylated C's in CpG context |
389705 |
| Methylated C's in CHG context |
79449 |
| Methylated C's in CHH context |
221542 |
| Methylated C's in Unknown context |
7461 |
| Unmethylated C's in CpG context |
334284 |
| Unmethylated C's in CHG context |
3149252 |
| Unmethylated C's in CHH context |
8572549 |
| Unmethylated C's in Unknown context |
53798 |
| Percentage methylation (CpG context) |
53.8% |
| Percentage methylation (CHG context) |
2.5% |
| Percentage methylation (CHH context) |
2.5% |
| Methylated C's in Unknown context |
N/A% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
101964 |
original top strand |
| CTOT |
156164 |
complementary to original top strand |
| CTOB |
155752 |
complementary to original bottom strand |
| OB |
102217 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
1023127 |
| Unique alignments |
872697 |
| Duplicates removed |
150430 |
| Duplicated alignments were found at 128360 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
18009161 |
| Methylated C's in CpG context |
539239 |
| Methylated C's in CHG context |
80949 |
| Methylated C's in CHH context |
204548 |
| Unmethylated C's in CpG context |
432326 |
| Unmethylated C's in CHG context |
4485652 |
| Unmethylated C's in CHH context |
12266447 |
| Percentage methylation (CpG context) |
55.5% |
| Percentage methylation (CHG context) |
1.8% |
| Percentage methylation (CHH context) |
1.6% |
|
|
Nucleotide Coverage
| Nucleotide Class | Counts Sample | Counts Genome | % in Sample | % in Genome | fold coverage |
|---|
| A | 18169029 | 294005666 | 28.85 | 29.12 | 0.062 |
|---|
| T | 17687726 | 294285704 | 28.08 | 29.15 | 0.060 |
|---|
| C | 13223429 | 210594019 | 21.00 | 20.86 | 0.063 |
|---|
| G | 13902491 | 210590343 | 22.07 | 20.86 | 0.066 |
|---|
| AC | 3245269 | 52532529 | 5.20 | 5.20 | 0.062 |
|---|
| CA | 4898937 | 77472169 | 7.85 | 7.67 | 0.063 |
|---|
| TC | 3590016 | 60093701 | 5.75 | 5.95 | 0.060 |
|---|
| CT | 4489676 | 73354317 | 7.19 | 7.27 | 0.061 |
|---|
| CC | 3000024 | 48375161 | 4.80 | 4.79 | 0.062 |
|---|
| CG | 712724 | 11392056 | 1.14 | 1.13 | 0.063 |
|---|
| GC | 3274868 | 49592331 | 5.25 | 4.91 | 0.066 |
|---|
| GG | 3231791 | 48349387 | 5.18 | 4.79 | 0.067 |
|---|
| AG | 4828630 | 73308184 | 7.73 | 7.26 | 0.066 |
|---|
| GA | 3935896 | 60059654 | 6.30 | 5.95 | 0.066 |
|---|
| TG | 5004680 | 77540413 | 8.02 | 7.68 | 0.065 |
|---|
| GT | 3342519 | 52588666 | 5.35 | 5.21 | 0.064 |
|---|
| TT | 5415400 | 96125962 | 8.67 | 9.52 | 0.056 |
|---|
| TA | 3517368 | 60525298 | 5.63 | 6.00 | 0.058 |
|---|
| AT | 4289048 | 72216445 | 6.87 | 7.15 | 0.059 |
|---|
| AA | 5659293 | 95948192 | 9.06 | 9.50 | 0.059 |
|---|
|
|
M-Bias Plot
