Alignment Stats
| Sequences analysed in total |
747191 |
| Single-end alignments with a unique best hit |
516067 |
| Sequences without alignments under any condition |
159732 |
| Sequences that did not map uniquely |
71392 |
| Genomic sequence context not extractable (edges of chromosomes) |
0 |
|
|
Cytosine Methylation
| Total C's analysed |
9647281 |
| Methylated C's in CpG context |
299913 |
| Methylated C's in CHG context |
69879 |
| Methylated C's in CHH context |
186070 |
| Methylated C's in Unknown context |
5238 |
| Unmethylated C's in CpG context |
303205 |
| Unmethylated C's in CHG context |
2468093 |
| Unmethylated C's in CHH context |
6320121 |
| Unmethylated C's in Unknown context |
39723 |
| Percentage methylation (CpG context) |
49.7% |
| Percentage methylation (CHG context) |
2.8% |
| Percentage methylation (CHH context) |
2.9% |
| Methylated C's in Unknown context |
N/A% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
121671 |
original top strand |
| CTOT |
136681 |
complementary to original top strand |
| CTOB |
136958 |
complementary to original bottom strand |
| OB |
120757 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
999642 |
| Unique alignments |
994997 |
| Duplicates removed |
4645 |
| Duplicated alignments were found at 4295 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
15275967 |
| Methylated C's in CpG context |
470413 |
| Methylated C's in CHG context |
83796 |
| Methylated C's in CHH context |
199590 |
| Unmethylated C's in CpG context |
452987 |
| Unmethylated C's in CHG context |
3968574 |
| Unmethylated C's in CHH context |
10100607 |
| Percentage methylation (CpG context) |
50.9% |
| Percentage methylation (CHG context) |
2.1% |
| Percentage methylation (CHH context) |
1.9% |
|
|
Nucleotide Coverage
| Nucleotide Class | Counts Sample | Counts Genome | % in Sample | % in Genome | fold coverage |
|---|
| A | 16487713 | 294005666 | 28.28 | 29.12 | 0.056 |
|---|
| T | 16012458 | 294285704 | 27.46 | 29.15 | 0.054 |
|---|
| C | 12298492 | 210594019 | 21.09 | 20.86 | 0.058 |
|---|
| G | 13506735 | 210590343 | 23.17 | 20.86 | 0.064 |
|---|
| AC | 2915375 | 52532529 | 5.06 | 5.20 | 0.055 |
|---|
| CA | 4468567 | 77472169 | 7.75 | 7.67 | 0.058 |
|---|
| TC | 3236411 | 60093701 | 5.62 | 5.95 | 0.054 |
|---|
| CT | 4125267 | 73354317 | 7.16 | 7.27 | 0.056 |
|---|
| CC | 2817398 | 48375161 | 4.89 | 4.79 | 0.058 |
|---|
| CG | 737937 | 11392056 | 1.28 | 1.13 | 0.065 |
|---|
| GC | 3189415 | 49592331 | 5.53 | 4.91 | 0.064 |
|---|
| GG | 3211696 | 48349387 | 5.57 | 4.79 | 0.066 |
|---|
| AG | 4611855 | 73308184 | 8.00 | 7.26 | 0.063 |
|---|
| GA | 3789055 | 60059654 | 6.57 | 5.95 | 0.063 |
|---|
| TG | 4780993 | 77540413 | 8.30 | 7.68 | 0.062 |
|---|
| GT | 3163411 | 52588666 | 5.49 | 5.21 | 0.060 |
|---|
| TT | 4763723 | 96125962 | 8.27 | 9.52 | 0.050 |
|---|
| TA | 3040345 | 60525298 | 5.28 | 6.00 | 0.050 |
|---|
| AT | 3781806 | 72216445 | 6.56 | 7.15 | 0.052 |
|---|
| AA | 4999759 | 95948192 | 8.68 | 9.50 | 0.052 |
|---|
|
|
M-Bias Plot
