Alignment Stats
| Sequence pairs analysed in total |
38376265 |
| Paired-end alignments with a unique best hit |
21477991 |
| Pairs without alignments under any condition |
4914963 |
| Pairs that did not map uniquely |
11983311 |
| Genomic sequence context not extractable (edges of chromosomes) |
2 |
|
|
Cytosine Methylation
| Total C's analysed |
948818982 |
| Methylated C's in CpG context |
22484422 |
| Methylated C's in CHG context |
971336 |
| Methylated C's in CHH context |
4305046 |
| Methylated C's in Unknown context |
113840 |
| Unmethylated C's in CpG context |
92964364 |
| Unmethylated C's in CHG context |
161021580 |
| Unmethylated C's in CHH context |
667072234 |
| Unmethylated C's in Unknown context |
1026275 |
| 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 |
10752897 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
10725092 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
21477989 |
| Unique alignments |
19975663 |
| Duplicates removed |
1502326 |
| Duplicated alignments were found at 1396857 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
706674834 |
| Methylated C's in CpG context |
16692933 |
| Methylated C's in CHG context |
588226 |
| Methylated C's in CHH context |
2643226 |
| Unmethylated C's in CpG context |
69440998 |
| Unmethylated C's in CHG context |
120026487 |
| Unmethylated C's in CHH context |
497282964 |
| 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 | 1674607836 | 378413849 | 34.52 | 32.06 | 4.425 |
|---|
| T | 1546279595 | 378309330 | 31.87 | 32.05 | 4.087 |
|---|
| C | 773107031 | 211781786 | 15.94 | 17.94 | 3.650 |
|---|
| G | 857417613 | 211810957 | 17.67 | 17.95 | 4.048 |
|---|
| AC | 265183944 | 68264877 | 5.51 | 5.78 | 3.885 |
|---|
| CA | 319409004 | 80836853 | 6.63 | 6.85 | 3.951 |
|---|
| TC | 243608146 | 67705770 | 5.06 | 5.74 | 3.598 |
|---|
| CT | 220227904 | 62481783 | 4.57 | 5.29 | 3.525 |
|---|
| CC | 133887397 | 42358709 | 2.78 | 3.59 | 3.161 |
|---|
| CG | 93687800 | 26104181 | 1.95 | 2.21 | 3.589 |
|---|
| GC | 124855008 | 33452245 | 2.59 | 2.83 | 3.732 |
|---|
| GG | 155806851 | 42378301 | 3.23 | 3.59 | 3.677 |
|---|
| AG | 268436666 | 62424886 | 5.57 | 5.29 | 4.300 |
|---|
| GA | 294125852 | 67679435 | 6.11 | 5.73 | 4.346 |
|---|
| TG | 333355306 | 80903356 | 6.92 | 6.85 | 4.120 |
|---|
| GT | 276531524 | 68300800 | 5.74 | 5.79 | 4.049 |
|---|
| TT | 520293596 | 128294772 | 10.80 | 10.87 | 4.055 |
|---|
| TA | 437856512 | 101400983 | 9.09 | 8.59 | 4.318 |
|---|
| AT | 518414203 | 119230832 | 10.76 | 10.10 | 4.348 |
|---|
| AA | 610997778 | 128492079 | 12.69 | 10.89 | 4.755 |
|---|
|
|
M-Bias Plot
