Alignment Stats
| Sequence pairs analysed in total |
33149345 |
| Paired-end alignments with a unique best hit |
18928762 |
| Pairs without alignments under any condition |
3495122 |
| Pairs that did not map uniquely |
10725461 |
| Genomic sequence context not extractable (edges of chromosomes) |
0 |
|
|
Cytosine Methylation
| Total C's analysed |
852023413 |
| Methylated C's in CpG context |
20141665 |
| Methylated C's in CHG context |
1098706 |
| Methylated C's in CHH context |
4873801 |
| Methylated C's in Unknown context |
120864 |
| Unmethylated C's in CpG context |
86065434 |
| Unmethylated C's in CHG context |
144666332 |
| Unmethylated C's in CHH context |
595177475 |
| Unmethylated C's in Unknown context |
816182 |
| Percentage methylation (CpG context) |
19.0% |
| Percentage methylation (CHG context) |
0.8% |
| Percentage methylation (CHH context) |
0.8% |
| Methylated C's in Unknown context |
12.9% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
9473641 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
9455121 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
18928762 |
| Unique alignments |
17777774 |
| Duplicates removed |
1150988 |
| Duplicated alignments were found at 1086763 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
589998557 |
| Methylated C's in CpG context |
13893470 |
| Methylated C's in CHG context |
714439 |
| Methylated C's in CHH context |
3197326 |
| Unmethylated C's in CpG context |
59716158 |
| Unmethylated C's in CHG context |
100153256 |
| Unmethylated C's in CHH context |
412323908 |
| Percentage methylation (CpG context) |
18.9% |
| 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 | 1484166149 | 378413849 | 33.90 | 32.06 | 3.922 |
|---|
| T | 1402342993 | 378309330 | 32.03 | 32.05 | 3.707 |
|---|
| C | 711997298 | 211781786 | 16.26 | 17.94 | 3.362 |
|---|
| G | 779027640 | 211810957 | 17.80 | 17.95 | 3.678 |
|---|
| AC | 239639936 | 68264877 | 5.51 | 5.78 | 3.510 |
|---|
| CA | 288995345 | 80836853 | 6.65 | 6.85 | 3.575 |
|---|
| TC | 224977324 | 67705770 | 5.18 | 5.74 | 3.323 |
|---|
| CT | 203321099 | 62481783 | 4.68 | 5.29 | 3.254 |
|---|
| CC | 125922893 | 42358709 | 2.90 | 3.59 | 2.973 |
|---|
| CG | 88254101 | 26104181 | 2.03 | 2.21 | 3.381 |
|---|
| GC | 116274393 | 33452245 | 2.68 | 2.83 | 3.476 |
|---|
| GG | 143469169 | 42378301 | 3.30 | 3.59 | 3.385 |
|---|
| AG | 238408159 | 62424886 | 5.49 | 5.29 | 3.819 |
|---|
| GA | 261882212 | 67679435 | 6.03 | 5.73 | 3.869 |
|---|
| TG | 303300481 | 80903356 | 6.98 | 6.85 | 3.749 |
|---|
| GT | 251705104 | 68300800 | 5.79 | 5.79 | 3.685 |
|---|
| TT | 475340428 | 128294772 | 10.94 | 10.87 | 3.705 |
|---|
| TA | 388690839 | 101400983 | 8.94 | 8.59 | 3.833 |
|---|
| AT | 462203269 | 119230832 | 10.63 | 10.10 | 3.877 |
|---|
| AA | 533710559 | 128492079 | 12.28 | 10.89 | 4.154 |
|---|
|
|
M-Bias Plot
