Alignment Stats
| Sequence pairs analysed in total |
32017056 |
| Paired-end alignments with a unique best hit |
17918749 |
| Pairs without alignments under any condition |
4101413 |
| Pairs that did not map uniquely |
9996894 |
| Genomic sequence context not extractable (edges of chromosomes) |
2 |
|
|
Cytosine Methylation
| Total C's analysed |
791587296 |
| Methylated C's in CpG context |
18757275 |
| Methylated C's in CHG context |
810304 |
| Methylated C's in CHH context |
3592465 |
| Methylated C's in Unknown context |
94984 |
| Unmethylated C's in CpG context |
77563134 |
| Unmethylated C's in CHG context |
134340963 |
| Unmethylated C's in CHH context |
556523155 |
| Unmethylated C's in Unknown context |
856576 |
| Percentage methylation (CpG context) |
19.5% |
| Percentage methylation (CHG context) |
0.6% |
| Percentage methylation (CHH context) |
0.6% |
| Methylated C's in Unknown context |
10.0% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
8969977 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
8948770 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
17918747 |
| Unique alignments |
16861298 |
| Duplicates removed |
1057449 |
| Duplicated alignments were found at 994488 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
597033542 |
| Methylated C's in CpG context |
14101137 |
| Methylated C's in CHG context |
495721 |
| Methylated C's in CHH context |
2227424 |
| Unmethylated C's in CpG context |
58675537 |
| Unmethylated C's in CHG context |
101406343 |
| Unmethylated C's in CHH context |
420127380 |
| Percentage methylation (CpG context) |
19.4% |
| 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 | 1413814473 | 378413849 | 34.52 | 32.06 | 3.736 |
|---|
| T | 1305460343 | 378309330 | 31.87 | 32.05 | 3.451 |
|---|
| C | 652692942 | 211781786 | 15.94 | 17.94 | 3.082 |
|---|
| G | 723864021 | 211810957 | 17.67 | 17.95 | 3.418 |
|---|
| AC | 223879777 | 68264877 | 5.51 | 5.78 | 3.280 |
|---|
| CA | 269663888 | 80836853 | 6.63 | 6.85 | 3.336 |
|---|
| TC | 205664204 | 67705770 | 5.06 | 5.74 | 3.038 |
|---|
| CT | 185919878 | 62481783 | 4.57 | 5.29 | 2.976 |
|---|
| CC | 113030177 | 42358709 | 2.78 | 3.59 | 2.668 |
|---|
| CG | 79102086 | 26104181 | 1.95 | 2.21 | 3.030 |
|---|
| GC | 105415575 | 33452245 | 2.59 | 2.83 | 3.151 |
|---|
| GG | 131526402 | 42378301 | 3.23 | 3.59 | 3.104 |
|---|
| AG | 226629717 | 62424886 | 5.57 | 5.29 | 3.630 |
|---|
| GA | 248322598 | 67679435 | 6.11 | 5.73 | 3.669 |
|---|
| TG | 281428537 | 80903356 | 6.92 | 6.85 | 3.479 |
|---|
| GT | 233452393 | 68300800 | 5.74 | 5.79 | 3.418 |
|---|
| TT | 439275639 | 128294772 | 10.80 | 10.87 | 3.424 |
|---|
| TA | 369664460 | 101400983 | 9.09 | 8.59 | 3.646 |
|---|
| AT | 437684125 | 119230832 | 10.76 | 10.10 | 3.671 |
|---|
| AA | 515848819 | 128492079 | 12.69 | 10.89 | 4.015 |
|---|
|
|
M-Bias Plot
