Alignment Stats
| Sequence pairs analysed in total |
36627727 |
| Paired-end alignments with a unique best hit |
20881563 |
| Pairs without alignments under any condition |
4060145 |
| Pairs that did not map uniquely |
11686019 |
| Genomic sequence context not extractable (edges of chromosomes) |
3 |
|
|
Cytosine Methylation
| Total C's analysed |
908365821 |
| Methylated C's in CpG context |
24045384 |
| Methylated C's in CHG context |
1137125 |
| Methylated C's in CHH context |
5126664 |
| Methylated C's in Unknown context |
122314 |
| Unmethylated C's in CpG context |
86907051 |
| Unmethylated C's in CHG context |
153351251 |
| Unmethylated C's in CHH context |
637798346 |
| Unmethylated C's in Unknown context |
882366 |
| Percentage methylation (CpG context) |
21.7% |
| Percentage methylation (CHG context) |
0.7% |
| Percentage methylation (CHH context) |
0.8% |
| Methylated C's in Unknown context |
12.2% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
10451564 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
10429996 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
20881560 |
| Unique alignments |
19548927 |
| Duplicates removed |
1332633 |
| Duplicated alignments were found at 1247176 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
652716162 |
| Methylated C's in CpG context |
17211203 |
| Methylated C's in CHG context |
711608 |
| Methylated C's in CHH context |
3232875 |
| Unmethylated C's in CpG context |
62588126 |
| Unmethylated C's in CHG context |
110234401 |
| Unmethylated C's in CHH context |
458737949 |
| Percentage methylation (CpG context) |
21.6% |
| 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 | 1686788794 | 378413849 | 35.04 | 32.06 | 4.458 |
|---|
| T | 1525689253 | 378309330 | 31.69 | 32.05 | 4.033 |
|---|
| C | 755001257 | 211781786 | 15.68 | 17.94 | 3.565 |
|---|
| G | 846774739 | 211810957 | 17.59 | 17.95 | 3.998 |
|---|
| AC | 260917260 | 68264877 | 5.46 | 5.78 | 3.822 |
|---|
| CA | 314644870 | 80836853 | 6.58 | 6.85 | 3.892 |
|---|
| TC | 237453211 | 67705770 | 4.97 | 5.74 | 3.507 |
|---|
| CT | 213627892 | 62481783 | 4.47 | 5.29 | 3.419 |
|---|
| CC | 129171109 | 42358709 | 2.70 | 3.59 | 3.049 |
|---|
| CG | 91747724 | 26104181 | 1.92 | 2.21 | 3.515 |
|---|
| GC | 121985285 | 33452245 | 2.55 | 2.83 | 3.647 |
|---|
| GG | 153849671 | 42378301 | 3.22 | 3.59 | 3.630 |
|---|
| AG | 267809811 | 62424886 | 5.60 | 5.29 | 4.290 |
|---|
| GA | 295404434 | 67679435 | 6.18 | 5.73 | 4.365 |
|---|
| TG | 327300526 | 80903356 | 6.85 | 6.85 | 4.046 |
|---|
| GT | 269338958 | 68300800 | 5.63 | 5.79 | 3.943 |
|---|
| TT | 515288160 | 128294772 | 10.78 | 10.87 | 4.016 |
|---|
| TA | 434755824 | 101400983 | 9.10 | 8.59 | 4.287 |
|---|
| AT | 516781766 | 119230832 | 10.81 | 10.10 | 4.334 |
|---|
| AA | 629699818 | 128492079 | 13.17 | 10.89 | 4.901 |
|---|
|
|
M-Bias Plot
