Alignment Stats
| Sequence pairs analysed in total |
32773197 |
| Paired-end alignments with a unique best hit |
22237509 |
| Pairs without alignments under any condition |
5282829 |
| Pairs that did not map uniquely |
5252859 |
| Genomic sequence context not extractable (edges of chromosomes) |
23 |
|
|
Cytosine Methylation
| Total C's analysed |
956064247 |
| Methylated C's in CpG context |
25216741 |
| Methylated C's in CHG context |
1257894 |
| Methylated C's in CHH context |
5590161 |
| Methylated C's in Unknown context |
132032 |
| Unmethylated C's in CpG context |
92238862 |
| Unmethylated C's in CHG context |
163235206 |
| Unmethylated C's in CHH context |
668525383 |
| Unmethylated C's in Unknown context |
1004797 |
| Percentage methylation (CpG context) |
21.5% |
| Percentage methylation (CHG context) |
0.8% |
| Percentage methylation (CHH context) |
0.8% |
| Methylated C's in Unknown context |
11.6% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
11120189 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
11117297 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
22237486 |
| Unique alignments |
21168216 |
| Duplicates removed |
1069270 |
| Duplicated alignments were found at 1019486 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
673982762 |
| Methylated C's in CpG context |
17767405 |
| Methylated C's in CHG context |
834636 |
| Methylated C's in CHH context |
3732506 |
| Unmethylated C's in CpG context |
65040051 |
| Unmethylated C's in CHG context |
114986620 |
| Unmethylated C's in CHH context |
471621544 |
| Percentage methylation (CpG context) |
21.5% |
| 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 | 1797300308 | 253281200 | 34.85 | 32.09 | 7.096 |
|---|
| T | 1641712273 | 253281001 | 31.84 | 32.09 | 6.482 |
|---|
| C | 803214791 | 141394985 | 15.58 | 17.92 | 5.681 |
|---|
| G | 914687842 | 141251970 | 17.74 | 17.90 | 6.476 |
|---|
| AC | 277670428 | 45489259 | 5.42 | 5.76 | 6.104 |
|---|
| CA | 334438136 | 54159510 | 6.53 | 6.86 | 6.175 |
|---|
| TC | 253039340 | 45288269 | 4.94 | 5.74 | 5.587 |
|---|
| CT | 228345692 | 41766898 | 4.46 | 5.29 | 5.467 |
|---|
| CC | 136190806 | 28259664 | 2.66 | 3.58 | 4.819 |
|---|
| CG | 98014972 | 17208692 | 1.91 | 2.18 | 5.696 |
|---|
| GC | 130480650 | 22357630 | 2.55 | 2.83 | 5.836 |
|---|
| GG | 165240323 | 28206624 | 3.23 | 3.57 | 5.858 |
|---|
| AG | 288239682 | 41639512 | 5.63 | 5.28 | 6.922 |
|---|
| GA | 316840247 | 45250237 | 6.19 | 5.73 | 7.002 |
|---|
| TG | 356603731 | 54196921 | 6.97 | 6.87 | 6.580 |
|---|
| GT | 295312642 | 45437311 | 5.77 | 5.76 | 6.499 |
|---|
| TT | 552671082 | 86086811 | 10.79 | 10.91 | 6.420 |
|---|
| TA | 467652122 | 67706051 | 9.13 | 8.58 | 6.907 |
|---|
| AT | 553970209 | 79989139 | 10.82 | 10.14 | 6.926 |
|---|
| AA | 665143643 | 86162409 | 12.99 | 10.92 | 7.720 |
|---|
|
|
M-Bias Plot
