Alignment Stats
| Sequence pairs analysed in total |
34443887 |
| Paired-end alignments with a unique best hit |
19721997 |
| Pairs without alignments under any condition |
3525341 |
| Pairs that did not map uniquely |
11196549 |
| Genomic sequence context not extractable (edges of chromosomes) |
0 |
|
|
Cytosine Methylation
| Total C's analysed |
872130334 |
| Methylated C's in CpG context |
21015648 |
| Methylated C's in CHG context |
988947 |
| Methylated C's in CHH context |
4378365 |
| Methylated C's in Unknown context |
108761 |
| Unmethylated C's in CpG context |
87790656 |
| Unmethylated C's in CHG context |
148863241 |
| Unmethylated C's in CHH context |
609093477 |
| Unmethylated C's in Unknown context |
804787 |
| Percentage methylation (CpG context) |
19.3% |
| Percentage methylation (CHG context) |
0.7% |
| Percentage methylation (CHH context) |
0.7% |
| Methylated C's in Unknown context |
11.9% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
9865169 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
9856828 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
19721997 |
| Unique alignments |
18677678 |
| Duplicates removed |
1044319 |
| Duplicated alignments were found at 992987 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
611533652 |
| Methylated C's in CpG context |
14712402 |
| Methylated C's in CHG context |
668767 |
| Methylated C's in CHH context |
2977019 |
| Unmethylated C's in CpG context |
61691307 |
| Unmethylated C's in CHG context |
104354179 |
| Unmethylated C's in CHH context |
427129978 |
| Percentage methylation (CpG context) |
19.3% |
| 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 | 1575947364 | 378413849 | 34.15 | 32.06 | 4.165 |
|---|
| T | 1476569202 | 378309330 | 32.00 | 32.05 | 3.903 |
|---|
| C | 737899258 | 211781786 | 15.99 | 17.94 | 3.484 |
|---|
| G | 823796985 | 211810957 | 17.85 | 17.95 | 3.889 |
|---|
| AC | 250282490 | 68264877 | 5.46 | 5.78 | 3.666 |
|---|
| CA | 301856150 | 80836853 | 6.59 | 6.85 | 3.734 |
|---|
| TC | 232831167 | 67705770 | 5.08 | 5.74 | 3.439 |
|---|
| CT | 210354491 | 62481783 | 4.59 | 5.29 | 3.367 |
|---|
| CC | 128473709 | 42358709 | 2.80 | 3.59 | 3.033 |
|---|
| CG | 91527507 | 26104181 | 2.00 | 2.21 | 3.506 |
|---|
| GC | 120952452 | 33452245 | 2.64 | 2.83 | 3.616 |
|---|
| GG | 151009069 | 42378301 | 3.30 | 3.59 | 3.563 |
|---|
| AG | 253583532 | 62424886 | 5.54 | 5.29 | 4.062 |
|---|
| GA | 278741118 | 67679435 | 6.08 | 5.73 | 4.119 |
|---|
| TG | 321751419 | 80903356 | 7.02 | 6.85 | 3.977 |
|---|
| GT | 267050013 | 68300800 | 5.83 | 5.79 | 3.910 |
|---|
| TT | 498819364 | 128294772 | 10.89 | 10.87 | 3.888 |
|---|
| TA | 412577822 | 101400983 | 9.01 | 8.59 | 4.069 |
|---|
| AT | 490085392 | 119230832 | 10.70 | 10.10 | 4.110 |
|---|
| AA | 571163688 | 128492079 | 12.47 | 10.89 | 4.445 |
|---|
|
|
M-Bias Plot
