Alignment Stats
| Sequence pairs analysed in total |
30156298 |
| Paired-end alignments with a unique best hit |
16962777 |
| Pairs without alignments under any condition |
3690349 |
| Pairs that did not map uniquely |
9503172 |
| Genomic sequence context not extractable (edges of chromosomes) |
1 |
|
|
Cytosine Methylation
| Total C's analysed |
753070840 |
| Methylated C's in CpG context |
17826488 |
| Methylated C's in CHG context |
824009 |
| Methylated C's in CHH context |
3655167 |
| Methylated C's in Unknown context |
94369 |
| Unmethylated C's in CpG context |
74385559 |
| Unmethylated C's in CHG context |
127827103 |
| Unmethylated C's in CHH context |
528552514 |
| Unmethylated C's in Unknown context |
790427 |
| Percentage methylation (CpG context) |
19.3% |
| Percentage methylation (CHG context) |
0.6% |
| Percentage methylation (CHH context) |
0.7% |
| Methylated C's in Unknown context |
10.7% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
8491558 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
8471218 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
16962776 |
| Unique alignments |
16368715 |
| Duplicates removed |
594061 |
| Duplicated alignments were found at 570376 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
571028422 |
| Methylated C's in CpG context |
13466605 |
| Methylated C's in CHG context |
525912 |
| Methylated C's in CHH context |
2361613 |
| Unmethylated C's in CpG context |
56547846 |
| Unmethylated C's in CHG context |
96983247 |
| Unmethylated C's in CHH context |
401143199 |
| Percentage methylation (CpG context) |
19.2% |
| 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 | 1371527336 | 378413849 | 34.35 | 32.06 | 3.624 |
|---|
| T | 1274310759 | 378309330 | 31.92 | 32.05 | 3.368 |
|---|
| C | 639789879 | 211781786 | 16.02 | 17.94 | 3.021 |
|---|
| G | 706910400 | 211810957 | 17.71 | 17.95 | 3.337 |
|---|
| AC | 218320252 | 68264877 | 5.51 | 5.78 | 3.198 |
|---|
| CA | 263058837 | 80836853 | 6.64 | 6.85 | 3.254 |
|---|
| TC | 201762333 | 67705770 | 5.09 | 5.74 | 2.980 |
|---|
| CT | 182381631 | 62481783 | 4.60 | 5.29 | 2.919 |
|---|
| CC | 111441036 | 42358709 | 2.81 | 3.59 | 2.631 |
|---|
| CG | 78012585 | 26104181 | 1.97 | 2.21 | 2.989 |
|---|
| GC | 103643396 | 33452245 | 2.61 | 2.83 | 3.098 |
|---|
| GG | 128922619 | 42378301 | 3.25 | 3.59 | 3.042 |
|---|
| AG | 219955433 | 62424886 | 5.55 | 5.29 | 3.524 |
|---|
| GA | 241182905 | 67679435 | 6.08 | 5.73 | 3.564 |
|---|
| TG | 274960024 | 80903356 | 6.94 | 6.85 | 3.399 |
|---|
| GT | 228099579 | 68300800 | 5.75 | 5.79 | 3.340 |
|---|
| TT | 429657714 | 128294772 | 10.84 | 10.87 | 3.349 |
|---|
| TA | 358751056 | 101400983 | 9.05 | 8.59 | 3.538 |
|---|
| AT | 425269798 | 119230832 | 10.73 | 10.10 | 3.567 |
|---|
| AA | 498513941 | 128492079 | 12.58 | 10.89 | 3.880 |
|---|
|
|
M-Bias Plot
