Alignment Stats
| Sequences analysed in total |
688201 |
| Single-end alignments with a unique best hit |
5913 |
| Sequences without alignments under any condition |
670909 |
| Sequences that did not map uniquely |
11379 |
| Genomic sequence context not extractable (edges of chromosomes) |
0 |
|
|
Cytosine Methylation
| Total C's analysed |
72538 |
| Methylated C's in CpG context |
3747 |
| Methylated C's in CHG context |
4488 |
| Methylated C's in CHH context |
9583 |
| Methylated C's in Unknown context |
31 |
| Unmethylated C's in CpG context |
13589 |
| Unmethylated C's in CHG context |
13912 |
| Unmethylated C's in CHH context |
27219 |
| Unmethylated C's in Unknown context |
166 |
| Percentage methylation (CpG context) |
21.6% |
| Percentage methylation (CHG context) |
24.4% |
| Percentage methylation (CHH context) |
26.0% |
| Methylated C's in Unknown context |
N/A% |
|
|
Alignment to Individual Bisulfite Strands
| OT |
1391 |
original top strand |
| CTOT |
1588 |
complementary to original top strand |
| CTOB |
1490 |
complementary to original bottom strand |
| OB |
1444 |
original bottom strand |
|
|
Deduplication
| Alignments analysed |
9861 |
| Unique alignments |
8665 |
| Duplicates removed |
1196 |
| Duplicated alignments were found at 914 different positions |
|
|
Cytosine Methylation after Extraction
| Total C's analysed |
68161 |
| Methylated C's in CpG context |
3403 |
| Methylated C's in CHG context |
3734 |
| Methylated C's in CHH context |
6286 |
| Unmethylated C's in CpG context |
14054 |
| Unmethylated C's in CHG context |
14377 |
| Unmethylated C's in CHH context |
26307 |
| Percentage methylation (CpG context) |
19.5% |
| Percentage methylation (CHG context) |
20.6% |
| Percentage methylation (CHH context) |
19.3% |
|
|
Nucleotide Coverage
| Nucleotide Class | Counts Sample | Counts Genome | % in Sample | % in Genome | fold coverage |
|---|
| A | 59359 | 12334 | 24.84 | 25.43 | 4.813 |
|---|
| T | 61966 | 11986 | 25.93 | 24.71 | 5.170 |
|---|
| C | 59197 | 11362 | 24.77 | 23.43 | 5.210 |
|---|
| G | 58446 | 12820 | 24.46 | 26.43 | 4.559 |
|---|
| AC | 12944 | 2573 | 5.52 | 5.31 | 5.031 |
|---|
| CA | 16150 | 3216 | 6.89 | 6.63 | 5.022 |
|---|
| TC | 14831 | 2677 | 6.33 | 5.52 | 5.540 |
|---|
| CT | 13074 | 2536 | 5.58 | 5.23 | 5.155 |
|---|
| CC | 14048 | 2497 | 5.99 | 5.15 | 5.626 |
|---|
| CG | 14728 | 3113 | 6.28 | 6.42 | 4.731 |
|---|
| GC | 16309 | 3615 | 6.96 | 7.45 | 4.511 |
|---|
| GG | 13717 | 3180 | 5.85 | 6.56 | 4.314 |
|---|
| AG | 12222 | 2732 | 5.21 | 5.63 | 4.474 |
|---|
| GA | 14504 | 3256 | 6.19 | 6.71 | 4.455 |
|---|
| TG | 16862 | 3794 | 7.19 | 7.82 | 4.444 |
|---|
| GT | 13038 | 2768 | 5.56 | 5.71 | 4.710 |
|---|
| TT | 18309 | 3345 | 7.81 | 6.90 | 5.474 |
|---|
| TA | 10617 | 2170 | 4.53 | 4.47 | 4.893 |
|---|
| AT | 16228 | 3337 | 6.92 | 6.88 | 4.863 |
|---|
| AA | 16876 | 3692 | 7.20 | 7.61 | 4.571 |
|---|
|
|
M-Bias Plot
