Alignment Stats
| Sequence pairs analysed in total |
34443887 |
| Paired-end alignments with a unique best hit |
23165102 |
| Pairs without alignments under any condition |
5608285 |
| Pairs that did not map uniquely |
5670500 |
| Genomic sequence context not extractable (edges of chromosomes) |
29 |
|
|
Cytosine Methylation
| Total C's analysed |
1024091158 |
| Methylated C's in CpG context |
25053330 |
| Methylated C's in CHG context |
1172495 |
| Methylated C's in CHH context |
5176140 |
| Methylated C's in Unknown context |
129154 |
| Unmethylated C's in CpG context |
102258341 |
| Unmethylated C's in CHG context |
174805730 |
| Unmethylated C's in CHH context |
715625122 |
| Unmethylated C's in Unknown context |
1089453 |
| Percentage methylation (CpG context) |
19.7% |
| Percentage methylation (CHG context) |
0.7% |
| Percentage methylation (CHH context) |
0.7% |
| Methylated C's in Unknown context |
10.6% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
11570694 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
11594379 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
23165073 |
| Unique alignments |
21937330 |
| Duplicates removed |
1227743 |
| Duplicated alignments were found at 1166280 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
716264236 |
| Methylated C's in CpG context |
17508037 |
| Methylated C's in CHG context |
793316 |
| Methylated C's in CHH context |
3523238 |
| Unmethylated C's in CpG context |
71667955 |
| Unmethylated C's in CHG context |
122194817 |
| Unmethylated C's in CHH context |
500576873 |
| Percentage methylation (CpG context) |
19.6% |
| 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 | 1821884647 | 253281200 | 34.15 | 32.09 | 7.193 |
|---|
| T | 1707554343 | 253281001 | 32.00 | 32.09 | 6.742 |
|---|
| C | 854437589 | 141394985 | 16.01 | 17.92 | 6.043 |
|---|
| G | 951428496 | 141251970 | 17.83 | 17.90 | 6.736 |
|---|
| AC | 289727826 | 45489259 | 5.47 | 5.76 | 6.369 |
|---|
| CA | 349888660 | 54159510 | 6.61 | 6.86 | 6.460 |
|---|
| TC | 269865339 | 45288269 | 5.09 | 5.74 | 5.959 |
|---|
| CT | 243820889 | 41766898 | 4.60 | 5.29 | 5.838 |
|---|
| CC | 148560046 | 28259664 | 2.80 | 3.58 | 5.257 |
|---|
| CG | 105579656 | 17208692 | 1.99 | 2.18 | 6.135 |
|---|
| GC | 140078235 | 22357630 | 2.64 | 2.83 | 6.265 |
|---|
| GG | 174345144 | 28206624 | 3.29 | 3.57 | 6.181 |
|---|
| AG | 292707617 | 41639512 | 5.53 | 5.28 | 7.030 |
|---|
| GA | 321776359 | 45250237 | 6.07 | 5.73 | 7.111 |
|---|
| TG | 371954588 | 54196921 | 7.02 | 6.87 | 6.863 |
|---|
| GT | 308248388 | 45437311 | 5.82 | 5.76 | 6.784 |
|---|
| TT | 577132930 | 86086811 | 10.90 | 10.91 | 6.704 |
|---|
| TA | 476349979 | 67706051 | 8.99 | 8.58 | 7.036 |
|---|
| AT | 566483528 | 79989139 | 10.69 | 10.14 | 7.082 |
|---|
| AA | 660442974 | 86162409 | 12.47 | 10.92 | 7.665 |
|---|
|
|
M-Bias Plot
