Alignment Stats
| Sequence pairs analysed in total |
38376265 |
| Paired-end alignments with a unique best hit |
25215539 |
| Pairs without alignments under any condition |
7224831 |
| Pairs that did not map uniquely |
5935895 |
| Genomic sequence context not extractable (edges of chromosomes) |
26 |
|
|
Cytosine Methylation
| Total C's analysed |
1113730350 |
| Methylated C's in CpG context |
26808085 |
| Methylated C's in CHG context |
1147267 |
| Methylated C's in CHH context |
5078298 |
| Methylated C's in Unknown context |
135397 |
| Unmethylated C's in CpG context |
108154648 |
| Unmethylated C's in CHG context |
188916924 |
| Unmethylated C's in CHH context |
783625128 |
| Unmethylated C's in Unknown context |
1338728 |
| Percentage methylation (CpG context) |
19.9% |
| Percentage methylation (CHG context) |
0.6% |
| Percentage methylation (CHH context) |
0.6% |
| Methylated C's in Unknown context |
9.2% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
12588381 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
12627132 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
25215513 |
| Unique alignments |
23447231 |
| Duplicates removed |
1768282 |
| Duplicated alignments were found at 1641860 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
827325367 |
| Methylated C's in CpG context |
19871818 |
| Methylated C's in CHG context |
696228 |
| Methylated C's in CHH context |
3123844 |
| Unmethylated C's in CpG context |
80574743 |
| Unmethylated C's in CHG context |
140416628 |
| Unmethylated C's in CHH context |
582642106 |
| Percentage methylation (CpG context) |
19.8% |
| 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 | 1938589483 | 253281200 | 34.51 | 32.09 | 7.654 |
|---|
| T | 1791141379 | 253281001 | 31.88 | 32.09 | 7.072 |
|---|
| C | 896586028 | 141394985 | 15.96 | 17.92 | 6.341 |
|---|
| G | 991709676 | 141251970 | 17.65 | 17.90 | 7.021 |
|---|
| AC | 307259049 | 45489259 | 5.51 | 5.76 | 6.755 |
|---|
| CA | 370680477 | 54159510 | 6.65 | 6.86 | 6.844 |
|---|
| TC | 282860617 | 45288269 | 5.07 | 5.74 | 6.246 |
|---|
| CT | 255722229 | 41766898 | 4.58 | 5.29 | 6.123 |
|---|
| CC | 155158605 | 28259664 | 2.78 | 3.58 | 5.490 |
|---|
| CG | 108186515 | 17208692 | 1.94 | 2.18 | 6.287 |
|---|
| GC | 144841286 | 22357630 | 2.60 | 2.83 | 6.478 |
|---|
| GG | 180237119 | 28206624 | 3.23 | 3.57 | 6.390 |
|---|
| AG | 310148757 | 41639512 | 5.56 | 5.28 | 7.448 |
|---|
| GA | 339962857 | 45250237 | 6.09 | 5.73 | 7.513 |
|---|
| TG | 386047836 | 54196921 | 6.92 | 6.87 | 7.123 |
|---|
| GT | 319617119 | 45437311 | 5.73 | 5.76 | 7.034 |
|---|
| TT | 603172334 | 86086811 | 10.81 | 10.91 | 7.007 |
|---|
| TA | 506122612 | 67706051 | 9.07 | 8.58 | 7.475 |
|---|
| AT | 600107629 | 79989139 | 10.76 | 10.14 | 7.502 |
|---|
| AA | 707671573 | 86162409 | 12.69 | 10.92 | 8.213 |
|---|
|
|
M-Bias Plot
