Alignment Stats
| Sequence pairs analysed in total |
35781535 |
| Paired-end alignments with a unique best hit |
24164697 |
| Pairs without alignments under any condition |
5994084 |
| Pairs that did not map uniquely |
5622754 |
| Genomic sequence context not extractable (edges of chromosomes) |
36 |
|
|
Cytosine Methylation
| Total C's analysed |
1063043883 |
| Methylated C's in CpG context |
26542479 |
| Methylated C's in CHG context |
1189012 |
| Methylated C's in CHH context |
5256881 |
| Methylated C's in Unknown context |
127994 |
| Unmethylated C's in CpG context |
103459931 |
| Unmethylated C's in CHG context |
181041766 |
| Unmethylated C's in CHH context |
745553814 |
| Unmethylated C's in Unknown context |
1102234 |
| Percentage methylation (CpG context) |
20.4% |
| Percentage methylation (CHG context) |
0.7% |
| Percentage methylation (CHH context) |
0.7% |
| Methylated C's in Unknown context |
10.4% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
12068001 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
12096660 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
24164661 |
| Unique alignments |
22671502 |
| Duplicates removed |
1493159 |
| Duplicated alignments were found at 1397476 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
776530372 |
| Methylated C's in CpG context |
19388501 |
| Methylated C's in CHG context |
751851 |
| Methylated C's in CHH context |
3359226 |
| Unmethylated C's in CpG context |
75708997 |
| Unmethylated C's in CHG context |
132323331 |
| Unmethylated C's in CHH context |
544998466 |
| Percentage methylation (CpG context) |
20.4% |
| 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 | 1911922721 | 253281200 | 34.45 | 32.09 | 7.549 |
|---|
| T | 1773020497 | 253281001 | 31.95 | 32.09 | 7.000 |
|---|
| C | 881478269 | 141394985 | 15.88 | 17.92 | 6.234 |
|---|
| G | 983389001 | 141251970 | 17.72 | 17.90 | 6.962 |
|---|
| AC | 301727327 | 45489259 | 5.48 | 5.76 | 6.633 |
|---|
| CA | 363793042 | 54159510 | 6.60 | 6.86 | 6.717 |
|---|
| TC | 278188988 | 45288269 | 5.05 | 5.74 | 6.143 |
|---|
| CT | 251631615 | 41766898 | 4.57 | 5.29 | 6.025 |
|---|
| CC | 152098947 | 28259664 | 2.76 | 3.58 | 5.382 |
|---|
| CG | 107188061 | 17208692 | 1.95 | 2.18 | 6.229 |
|---|
| GC | 143109163 | 22357630 | 2.60 | 2.83 | 6.401 |
|---|
| GG | 178613436 | 28206624 | 3.24 | 3.57 | 6.332 |
|---|
| AG | 306542051 | 41639512 | 5.56 | 5.28 | 7.362 |
|---|
| GA | 336507935 | 45250237 | 6.11 | 5.73 | 7.437 |
|---|
| TG | 384003179 | 54196921 | 6.97 | 6.87 | 7.085 |
|---|
| GT | 318141115 | 45437311 | 5.77 | 5.76 | 7.002 |
|---|
| TT | 597961648 | 86086811 | 10.85 | 10.91 | 6.946 |
|---|
| TA | 500059389 | 67706051 | 9.08 | 8.58 | 7.386 |
|---|
| AT | 592921717 | 79989139 | 10.76 | 10.14 | 7.413 |
|---|
| AA | 697541803 | 86162409 | 12.66 | 10.92 | 8.096 |
|---|
|
|
M-Bias Plot
