Alignment Stats
| Sequence pairs analysed in total |
32773197 |
| Paired-end alignments with a unique best hit |
18899959 |
| Pairs without alignments under any condition |
3236569 |
| Pairs that did not map uniquely |
10636669 |
| Genomic sequence context not extractable (edges of chromosomes) |
1 |
|
|
Cytosine Methylation
| Total C's analysed |
812546697 |
| Methylated C's in CpG context |
21140644 |
| Methylated C's in CHG context |
1060119 |
| Methylated C's in CHH context |
4725922 |
| Methylated C's in Unknown context |
110287 |
| Unmethylated C's in CpG context |
78943618 |
| Unmethylated C's in CHG context |
138793392 |
| Unmethylated C's in CHH context |
567883002 |
| Unmethylated C's in Unknown context |
734798 |
| Percentage methylation (CpG context) |
21.1% |
| Percentage methylation (CHG context) |
0.8% |
| Percentage methylation (CHH context) |
0.8% |
| Methylated C's in Unknown context |
13.1% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
9466165 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
9433793 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
18899958 |
| Unique alignments |
17988679 |
| Duplicates removed |
911279 |
| Duplicated alignments were found at 868882 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
574283093 |
| Methylated C's in CpG context |
14921059 |
| Methylated C's in CHG context |
702581 |
| Methylated C's in CHH context |
3153569 |
| Unmethylated C's in CpG context |
55813274 |
| Unmethylated C's in CHG context |
98062004 |
| Unmethylated C's in CHH context |
401630606 |
| Percentage methylation (CpG context) |
21.1% |
| 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 | 1552793255 | 378413849 | 34.87 | 32.06 | 4.103 |
|---|
| T | 1417104824 | 378309330 | 31.82 | 32.05 | 3.746 |
|---|
| C | 692334333 | 211781786 | 15.55 | 17.94 | 3.269 |
|---|
| G | 790613100 | 211810957 | 17.76 | 17.95 | 3.733 |
|---|
| AC | 239460017 | 68264877 | 5.42 | 5.78 | 3.508 |
|---|
| CA | 288054842 | 80836853 | 6.52 | 6.85 | 3.563 |
|---|
| TC | 217929537 | 67705770 | 4.93 | 5.74 | 3.219 |
|---|
| CT | 196692415 | 62481783 | 4.45 | 5.29 | 3.148 |
|---|
| CC | 117487083 | 42358709 | 2.66 | 3.59 | 2.774 |
|---|
| CG | 84731804 | 26104181 | 1.92 | 2.21 | 3.246 |
|---|
| GC | 112432341 | 33452245 | 2.54 | 2.83 | 3.361 |
|---|
| GG | 142880245 | 42378301 | 3.23 | 3.59 | 3.372 |
|---|
| AG | 249570050 | 62424886 | 5.65 | 5.29 | 3.998 |
|---|
| GA | 274326602 | 67679435 | 6.21 | 5.73 | 4.053 |
|---|
| TG | 307733769 | 80903356 | 6.96 | 6.85 | 3.804 |
|---|
| GT | 255083532 | 68300800 | 5.77 | 5.79 | 3.735 |
|---|
| TT | 477002813 | 128294772 | 10.79 | 10.87 | 3.718 |
|---|
| TA | 404304667 | 101400983 | 9.15 | 8.59 | 3.987 |
|---|
| AT | 478479024 | 119230832 | 10.82 | 10.10 | 4.013 |
|---|
| AA | 574682254 | 128492079 | 13.00 | 10.89 | 4.473 |
|---|
|
|
M-Bias Plot
