Alignment Stats
| Sequences analysed in total |
6275 |
| Single-end alignments with a unique best hit |
2796 |
| Sequences without alignments under any condition |
2781 |
| Sequences that did not map uniquely |
698 |
| Genomic sequence context not extractable (edges of chromosomes) |
0 |
|
|
Cytosine Methylation
| Total C's analysed |
50530 |
| Methylated C's in CpG context |
1677 |
| Methylated C's in CHG context |
151 |
| Methylated C's in CHH context |
1220 |
| Methylated C's in Unknown context |
38 |
| Unmethylated C's in CpG context |
885 |
| Unmethylated C's in CHG context |
11845 |
| Unmethylated C's in CHH context |
34752 |
| Unmethylated C's in Unknown context |
172 |
| Percentage methylation (CpG context) |
65.5% |
| Percentage methylation (CHG context) |
1.3% |
| Percentage methylation (CHH context) |
3.4% |
| Methylated C's in Unknown context |
N/A% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
579 |
original top strand |
| CTOT |
811 |
complementary to original top strand |
| CTOB |
809 |
complementary to original bottom strand |
| OB |
597 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
5377 |
| Unique alignments |
5331 |
| Duplicates removed |
46 |
| Duplicated alignments were found at 45 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
81323 |
| Methylated C's in CpG context |
2729 |
| Methylated C's in CHG context |
172 |
| Methylated C's in CHH context |
570 |
| Unmethylated C's in CpG context |
1368 |
| Unmethylated C's in CHG context |
19645 |
| Unmethylated C's in CHH context |
56839 |
| Percentage methylation (CpG context) |
66.6% |
| Percentage methylation (CHG context) |
0.9% |
| Percentage methylation (CHH context) |
1.0% |
|
|
Nucleotide Coverage
| Nucleotide Class | Counts Sample | Counts Genome | % in Sample | % in Genome | fold coverage |
|---|
| A | 80996 | 294005666 | 28.21 | 29.12 | 0.000 |
|---|
| T | 84594 | 294285704 | 29.47 | 29.15 | 0.000 |
|---|
| C | 62183 | 210594019 | 21.66 | 20.86 | 0.000 |
|---|
| G | 59299 | 210590343 | 20.66 | 20.86 | 0.000 |
|---|
| AC | 15116 | 52532529 | 5.33 | 5.20 | 0.000 |
|---|
| CA | 22254 | 77472169 | 7.85 | 7.67 | 0.000 |
|---|
| TC | 17176 | 60093701 | 6.06 | 5.95 | 0.000 |
|---|
| CT | 21485 | 73354317 | 7.58 | 7.27 | 0.000 |
|---|
| CC | 14441 | 48375161 | 5.09 | 4.79 | 0.000 |
|---|
| CG | 3169 | 11392056 | 1.12 | 1.13 | 0.000 |
|---|
| GC | 14653 | 49592331 | 5.17 | 4.91 | 0.000 |
|---|
| GG | 12248 | 48349387 | 4.32 | 4.79 | 0.000 |
|---|
| AG | 20306 | 73308184 | 7.16 | 7.26 | 0.000 |
|---|
| GA | 16482 | 60059654 | 5.81 | 5.95 | 0.000 |
|---|
| TG | 22814 | 77540413 | 8.05 | 7.68 | 0.000 |
|---|
| GT | 15228 | 52588666 | 5.37 | 5.21 | 0.000 |
|---|
| TT | 26777 | 96125962 | 9.44 | 9.52 | 0.000 |
|---|
| TA | 16718 | 60525298 | 5.90 | 6.00 | 0.000 |
|---|
| AT | 20090 | 72216445 | 7.08 | 7.15 | 0.000 |
|---|
| AA | 24608 | 95948192 | 8.68 | 9.50 | 0.000 |
|---|
|
|
M-Bias Plot
