Alignment Stats
| Sequence pairs analysed in total |
38720614 |
| Paired-end alignments with a unique best hit |
26013001 |
| Pairs without alignments under any condition |
6408804 |
| Pairs that did not map uniquely |
6298809 |
| Genomic sequence context not extractable (edges of chromosomes) |
41 |
|
|
Cytosine Methylation
| Total C's analysed |
1170109245 |
| Methylated C's in CpG context |
28057300 |
| Methylated C's in CHG context |
1524001 |
| Methylated C's in CHH context |
6732122 |
| Methylated C's in Unknown context |
167127 |
| Unmethylated C's in CpG context |
117409166 |
| Unmethylated C's in CHG context |
198747677 |
| Unmethylated C's in CHH context |
817638979 |
| Unmethylated C's in Unknown context |
1285272 |
| Percentage methylation (CpG context) |
19.3% |
| Percentage methylation (CHG context) |
0.8% |
| Percentage methylation (CHH context) |
0.8% |
| Methylated C's in Unknown context |
11.5% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
13004180 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
13008780 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
26012960 |
| Unique alignments |
24188775 |
| Duplicates removed |
1824185 |
| Duplicated alignments were found at 1707203 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
799475338 |
| Methylated C's in CpG context |
19116900 |
| Methylated C's in CHG context |
982532 |
| Methylated C's in CHH context |
4381161 |
| Unmethylated C's in CpG context |
80358495 |
| Unmethylated C's in CHG context |
135711621 |
| Unmethylated C's in CHH context |
558924629 |
| Percentage methylation (CpG context) |
19.2% |
| Percentage methylation (CHG context) |
N/A% |
| Percentage methylation (CHH context) |
N/A% |
|
|
Nucleotide Coverage
| Nucleotide Class | Counts Sample | Counts Genome | % in Sample | % in Genome | fold coverage |
|---|
| A | 1986675842 | 253281200 | 33.89 | 32.09 | 7.844 |
|---|
| T | 1877755732 | 253281001 | 32.04 | 32.09 | 7.414 |
|---|
| C | 954336584 | 141394985 | 16.28 | 17.92 | 6.749 |
|---|
| G | 1042619345 | 141251970 | 17.79 | 17.90 | 7.381 |
|---|
| AC | 321131181 | 45489259 | 5.52 | 5.76 | 7.059 |
|---|
| CA | 387711660 | 54159510 | 6.66 | 6.86 | 7.159 |
|---|
| TC | 301762564 | 45288269 | 5.19 | 5.74 | 6.663 |
|---|
| CT | 272728237 | 41766898 | 4.69 | 5.29 | 6.530 |
|---|
| CC | 168579745 | 28259664 | 2.90 | 3.58 | 5.965 |
|---|
| CG | 117937237 | 17208692 | 2.03 | 2.18 | 6.853 |
|---|
| GC | 155916153 | 22357630 | 2.68 | 2.83 | 6.974 |
|---|
| GG | 191901770 | 28206624 | 3.30 | 3.57 | 6.803 |
|---|
| AG | 318906127 | 41639512 | 5.48 | 5.28 | 7.659 |
|---|
| GA | 350356754 | 45250237 | 6.02 | 5.73 | 7.743 |
|---|
| TG | 406386315 | 54196921 | 6.98 | 6.87 | 7.498 |
|---|
| GT | 336821419 | 45437311 | 5.79 | 5.76 | 7.413 |
|---|
| TT | 636503661 | 86086811 | 10.94 | 10.91 | 7.394 |
|---|
| TA | 519661439 | 67706051 | 8.93 | 8.58 | 7.675 |
|---|
| AT | 618609418 | 79989139 | 10.63 | 10.14 | 7.734 |
|---|
| AA | 714367821 | 86162409 | 12.28 | 10.92 | 8.291 |
|---|
|
|
M-Bias Plot
