Alignment Stats
| Sequence pairs analysed in total |
39972937 |
| Paired-end alignments with a unique best hit |
27272038 |
| Pairs without alignments under any condition |
6599281 |
| Pairs that did not map uniquely |
6101618 |
| Genomic sequence context not extractable (edges of chromosomes) |
40 |
|
|
Cytosine Methylation
| Total C's analysed |
1201168210 |
| Methylated C's in CpG context |
30907476 |
| Methylated C's in CHG context |
1522014 |
| Methylated C's in CHH context |
6730872 |
| Methylated C's in Unknown context |
152149 |
| Unmethylated C's in CpG context |
117220945 |
| Unmethylated C's in CHG context |
203671781 |
| Unmethylated C's in CHH context |
841115122 |
| Unmethylated C's in Unknown context |
1239568 |
| Percentage methylation (CpG context) |
20.9% |
| Percentage methylation (CHG context) |
0.7% |
| Percentage methylation (CHH context) |
0.8% |
| Methylated C's in Unknown context |
10.9% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
13634946 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
13637052 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
27271998 |
| Unique alignments |
25909770 |
| Duplicates removed |
1362228 |
| Duplicated alignments were found at 1299699 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
873196166 |
| Methylated C's in CpG context |
22419317 |
| Methylated C's in CHG context |
983529 |
| Methylated C's in CHH context |
4378459 |
| Unmethylated C's in CpG context |
85343135 |
| Unmethylated C's in CHG context |
148044794 |
| Unmethylated C's in CHH context |
612026932 |
| Percentage methylation (CpG context) |
20.8% |
| 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 | 2195122701 | 253281200 | 34.55 | 32.09 | 8.667 |
|---|
| T | 2024558410 | 253281001 | 31.86 | 32.09 | 7.993 |
|---|
| C | 1009945053 | 141394985 | 15.90 | 17.92 | 7.143 |
|---|
| G | 1124107007 | 141251970 | 17.69 | 17.90 | 7.958 |
|---|
| AC | 345255581 | 45489259 | 5.47 | 5.76 | 7.590 |
|---|
| CA | 416639039 | 54159510 | 6.60 | 6.86 | 7.693 |
|---|
| TC | 318609357 | 45288269 | 5.05 | 5.74 | 7.035 |
|---|
| CT | 287216111 | 41766898 | 4.55 | 5.29 | 6.877 |
|---|
| CC | 174540310 | 28259664 | 2.77 | 3.58 | 6.176 |
|---|
| CG | 123734480 | 17208692 | 1.96 | 2.18 | 7.190 |
|---|
| GC | 164218753 | 22357630 | 2.60 | 2.83 | 7.345 |
|---|
| GG | 205313993 | 28206624 | 3.25 | 3.57 | 7.279 |
|---|
| AG | 350057642 | 41639512 | 5.55 | 5.28 | 8.407 |
|---|
| GA | 385574342 | 45250237 | 6.11 | 5.73 | 8.521 |
|---|
| TG | 436928680 | 54196921 | 6.93 | 6.87 | 8.062 |
|---|
| GT | 360757699 | 45437311 | 5.72 | 5.76 | 7.940 |
|---|
| TT | 684334073 | 86086811 | 10.85 | 10.91 | 7.949 |
|---|
| TA | 570278098 | 67706051 | 9.04 | 8.58 | 8.423 |
|---|
| AT | 678132430 | 79989139 | 10.75 | 10.14 | 8.478 |
|---|
| AA | 806614025 | 86162409 | 12.79 | 10.92 | 9.362 |
|---|
|
|
M-Bias Plot
