Alignment Stats
| Sequence pairs analysed in total |
35781535 |
| Paired-end alignments with a unique best hit |
20539818 |
| Pairs without alignments under any condition |
3792872 |
| Pairs that did not map uniquely |
11448845 |
| Genomic sequence context not extractable (edges of chromosomes) |
1 |
|
|
Cytosine Methylation
| Total C's analysed |
904231222 |
| Methylated C's in CpG context |
22323430 |
| Methylated C's in CHG context |
1000266 |
| Methylated C's in CHH context |
4438950 |
| Methylated C's in Unknown context |
107244 |
| Unmethylated C's in CpG context |
88628993 |
| Unmethylated C's in CHG context |
154020375 |
| Unmethylated C's in CHH context |
633819208 |
| Unmethylated C's in Unknown context |
800475 |
| Percentage methylation (CpG context) |
20.1% |
| Percentage methylation (CHG context) |
0.6% |
| Percentage methylation (CHH context) |
0.7% |
| Methylated C's in Unknown context |
11.8% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
10281444 |
original top strand |
| CTOT |
0 |
complementary to original top strand |
| CTOB |
0 |
complementary to original bottom strand |
| OB |
10258373 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
20539817 |
| Unique alignments |
19268973 |
| Duplicates removed |
1270844 |
| Duplicated alignments were found at 1190263 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
662136143 |
| Methylated C's in CpG context |
16330862 |
| Methylated C's in CHG context |
631489 |
| Methylated C's in CHH context |
2832146 |
| Unmethylated C's in CpG context |
65024234 |
| Unmethylated C's in CHG context |
112875718 |
| Unmethylated C's in CHH context |
464441694 |
| Percentage methylation (CpG context) |
20.1% |
| 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 | 1653352934 | 378413849 | 34.47 | 32.06 | 4.369 |
|---|
| T | 1531878113 | 378309330 | 31.93 | 32.05 | 4.049 |
|---|
| C | 761122448 | 211781786 | 15.87 | 17.94 | 3.594 |
|---|
| G | 850526912 | 211810957 | 17.73 | 17.95 | 4.016 |
|---|
| AC | 260655564 | 68264877 | 5.47 | 5.78 | 3.818 |
|---|
| CA | 313825087 | 80836853 | 6.59 | 6.85 | 3.882 |
|---|
| TC | 239929340 | 67705770 | 5.04 | 5.74 | 3.544 |
|---|
| CT | 217075710 | 62481783 | 4.56 | 5.29 | 3.474 |
|---|
| CC | 131484125 | 42358709 | 2.76 | 3.59 | 3.104 |
|---|
| CG | 92897514 | 26104181 | 1.95 | 2.21 | 3.559 |
|---|
| GC | 123568235 | 33452245 | 2.59 | 2.83 | 3.694 |
|---|
| GG | 154728375 | 42378301 | 3.25 | 3.59 | 3.651 |
|---|
| AG | 265337076 | 62424886 | 5.57 | 5.29 | 4.251 |
|---|
| GA | 291379030 | 67679435 | 6.12 | 5.73 | 4.305 |
|---|
| TG | 331471971 | 80903356 | 6.96 | 6.85 | 4.097 |
|---|
| GT | 274778878 | 68300800 | 5.77 | 5.79 | 4.023 |
|---|
| TT | 516711949 | 128294772 | 10.85 | 10.87 | 4.028 |
|---|
| TA | 432702413 | 101400983 | 9.09 | 8.59 | 4.267 |
|---|
| AT | 512628658 | 119230832 | 10.76 | 10.10 | 4.299 |
|---|
| AA | 603329008 | 128492079 | 12.67 | 10.89 | 4.695 |
|---|
|
|
M-Bias Plot
