Alignment Stats
| Sequence pairs analysed in total |
38720614 |
| Paired-end alignments with a unique best hit |
22109417 |
| Pairs without alignments under any condition |
4083326 |
| Pairs that did not map uniquely |
12527871 |
| Genomic sequence context not extractable (edges of chromosomes) |
0 |
|
|
Cytosine Methylation
| Total C's analysed |
995212631 |
| Methylated C's in CpG context |
23522222 |
| Methylated C's in CHG context |
1283779 |
| Methylated C's in CHH context |
5692971 |
| Methylated C's in Unknown context |
140927 |
| Unmethylated C's in CpG context |
100522151 |
| Unmethylated C's in CHG context |
168985307 |
| Unmethylated C's in CHH context |
695206201 |
| Unmethylated C's in Unknown context |
952800 |
| 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 |
11066603 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
11042814 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
22109417 |
| Unique alignments |
20553335 |
| Duplicates removed |
1556082 |
| Duplicated alignments were found at 1456048 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
681607898 |
| Methylated C's in CpG context |
16050161 |
| Methylated C's in CHG context |
827077 |
| Methylated C's in CHH context |
3701600 |
| Unmethylated C's in CpG context |
68978789 |
| Unmethylated C's in CHG context |
115705012 |
| Unmethylated C's in CHH context |
476345259 |
| 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 | 1715601508 | 378413849 | 33.90 | 32.06 | 4.534 |
|---|
| T | 1621005565 | 378309330 | 32.03 | 32.05 | 4.285 |
|---|
| C | 823032258 | 211781786 | 16.26 | 17.94 | 3.886 |
|---|
| G | 900538790 | 211810957 | 17.80 | 17.95 | 4.252 |
|---|
| AC | 277005264 | 68264877 | 5.51 | 5.78 | 4.058 |
|---|
| CA | 334053619 | 80836853 | 6.65 | 6.85 | 4.132 |
|---|
| TC | 260066479 | 67705770 | 5.18 | 5.74 | 3.841 |
|---|
| CT | 235044109 | 62481783 | 4.68 | 5.29 | 3.762 |
|---|
| CC | 145567099 | 42358709 | 2.90 | 3.59 | 3.437 |
|---|
| CG | 102004660 | 26104181 | 2.03 | 2.21 | 3.908 |
|---|
| GC | 134402858 | 33452245 | 2.68 | 2.83 | 4.018 |
|---|
| GG | 165856197 | 42378301 | 3.30 | 3.59 | 3.914 |
|---|
| AG | 275600145 | 62424886 | 5.49 | 5.29 | 4.415 |
|---|
| GA | 302748577 | 67679435 | 6.03 | 5.73 | 4.473 |
|---|
| TG | 350609526 | 80903356 | 6.98 | 6.85 | 4.334 |
|---|
| GT | 290946367 | 68300800 | 5.79 | 5.79 | 4.260 |
|---|
| TT | 549431016 | 128294772 | 10.94 | 10.87 | 4.283 |
|---|
| TA | 449299287 | 101400983 | 8.94 | 8.59 | 4.431 |
|---|
| AT | 534285278 | 119230832 | 10.64 | 10.10 | 4.481 |
|---|
| AA | 616914771 | 128492079 | 12.28 | 10.89 | 4.801 |
|---|
|
|
M-Bias Plot
