Alignment
| Sequence pairs analysed in total |
29,483,218 |
| Paired-end alignments with a unique best hit |
14,200,416 |
| Pairs without alignments under any condition |
9,943,053 |
| Pairs that did not map uniquely |
5,339,749 |
| Genomic sequence context not extractable (edges of chromosomes) |
11 |
Cytosine Methylation
| Total C's analysed |
362,392,795 |
| Methylated C's in CpG context |
29,294,128 |
| Methylated C's in CHG context |
2,164,397 |
| Methylated C's in CHH context |
13,260,103 |
| Methylated C's in Unknown context |
1,218,115 |
| Unmethylated C's in CpG context |
14,337,861 |
| Unmethylated C's in CHG context |
75,732,890 |
| Unmethylated C's in CHH context |
227,603,416 |
| Unmethylated C's in Unknown context |
4,698,419 |
| Percentage methylation (CpG context) |
67.1% |
| Percentage methylation (CHG context) |
2.8% |
| Percentage methylation (CHH context) |
5.5% |
| Methylated C's in Unknown context |
N/A% |
Alignment to Individual Bisulfite Strands
| OT |
3,629,946 |
original top strand |
| CTOT |
3,487,296 |
complementary to original top strand |
| CTOB |
3,468,647 |
complementary to original bottom strand |
| OB |
3,614,516 |
original bottom strand |
Deduplication
| Alignments analysed |
14,200,405 |
| Unique alignments |
13,452,841 |
| Duplicates removed |
747,564 |
| Duplicated alignments were found at 527675 different positions |
Cytosine Methylation after Extraction
| Total C's analysed |
228,933,398 |
| Methylated C's in CpG context |
18,154,221 |
| Methylated C's in CHG context |
1,361,580 |
| Methylated C's in CHH context |
7,326,787 |
| Unmethylated C's in CpG context |
9,182,606 |
| Unmethylated C's in CHG context |
47,670,865 |
| Unmethylated C's in CHH context |
145,237,339 |
| Percentage methylation (CpG context) |
66.4% |
| Percentage methylation (CHG context) |
2.8% |
| Percentage methylation (CHH context) |
4.8% |
Nucleotide Coverage
| Nucleotide Class | Counts Sample | Counts Genome | % in Sample | % in Genome | fold coverage |
|---|
| A | {{nuc_A_counts_obs}} | {{nuc_A_counts_exp}} | {{nuc_A_p_obs}} | {{nuc_A_p_exp}} | {{nuc_A_coverage}} |
|---|
| T | {{nuc_T_counts_obs}} | {{nuc_T_counts_exp}} | {{nuc_T_p_obs}} | {{nuc_T_p_exp}} | {{nuc_T_coverage}} |
|---|
| C | {{nuc_C_counts_obs}} | {{nuc_C_counts_exp}} | {{nuc_C_p_obs}} | {{nuc_C_p_exp}} | {{nuc_C_coverage}} |
|---|
| G | {{nuc_G_counts_obs}} | {{nuc_G_counts_exp}} | {{nuc_G_p_obs}} | {{nuc_G_p_exp}} | {{nuc_G_coverage}} |
|---|
| AC | {{nuc_AC_counts_obs}} | {{nuc_AC_counts_exp}} | {{nuc_AC_p_obs}} | {{nuc_AC_p_exp}} | {{nuc_AC_coverage}} |
|---|
| CA | {{nuc_CA_counts_obs}} | {{nuc_CA_counts_exp}} | {{nuc_CA_p_obs}} | {{nuc_CA_p_exp}} | {{nuc_CA_coverage}} |
|---|
| TC | {{nuc_TC_counts_obs}} | {{nuc_TC_counts_exp}} | {{nuc_TC_p_obs}} | {{nuc_TC_p_exp}} | {{nuc_TC_coverage}} |
|---|
| CT | {{nuc_CT_counts_obs}} | {{nuc_CT_counts_exp}} | {{nuc_CT_p_obs}} | {{nuc_CT_p_exp}} | {{nuc_CT_coverage}} |
|---|
| CC | {{nuc_CC_counts_obs}} | {{nuc_CC_counts_exp}} | {{nuc_CC_p_obs}} | {{nuc_CC_p_exp}} | {{nuc_CC_coverage}} |
|---|
| CG | {{nuc_CG_counts_obs}} | {{nuc_CG_counts_exp}} | {{nuc_CG_p_obs}} | {{nuc_CG_p_exp}} | {{nuc_CG_coverage}} |
|---|
| GC | {{nuc_GC_counts_obs}} | {{nuc_GC_counts_exp}} | {{nuc_GC_p_obs}} | {{nuc_GC_p_exp}} | {{nuc_GC_coverage}} |
|---|
| GG | {{nuc_GG_counts_obs}} | {{nuc_GG_counts_exp}} | {{nuc_GG_p_obs}} | {{nuc_GG_p_exp}} | {{nuc_GG_coverage}} |
|---|
| AG | {{nuc_AG_counts_obs}} | {{nuc_AG_counts_exp}} | {{nuc_AG_p_obs}} | {{nuc_AG_p_exp}} | {{nuc_AG_coverage}} |
|---|
| GA | {{nuc_GA_counts_obs}} | {{nuc_GA_counts_exp}} | {{nuc_GA_p_obs}} | {{nuc_GA_p_exp}} | {{nuc_GA_coverage}} |
|---|
| TG | {{nuc_TG_counts_obs}} | {{nuc_TG_counts_exp}} | {{nuc_TG_p_obs}} | {{nuc_TG_p_exp}} | {{nuc_TG_coverage}} |
|---|
| GT | {{nuc_GT_counts_obs}} | {{nuc_GT_counts_exp}} | {{nuc_GT_p_obs}} | {{nuc_GT_p_exp}} | {{nuc_GT_coverage}} |
|---|
| TT | {{nuc_TT_counts_obs}} | {{nuc_TT_counts_exp}} | {{nuc_TT_p_obs}} | {{nuc_TT_p_exp}} | {{nuc_TT_coverage}} |
|---|
| TA | {{nuc_TA_counts_obs}} | {{nuc_TA_counts_exp}} | {{nuc_TA_p_obs}} | {{nuc_TA_p_exp}} | {{nuc_TA_coverage}} |
|---|
| AT | {{nuc_AT_counts_obs}} | {{nuc_AT_counts_exp}} | {{nuc_AT_p_obs}} | {{nuc_AT_p_exp}} | {{nuc_AT_coverage}} |
|---|
| AA | {{nuc_AA_counts_obs}} | {{nuc_AA_counts_exp}} | {{nuc_AA_p_obs}} | {{nuc_AA_p_exp}} | {{nuc_AA_coverage}} |
|---|
M-Bias Plot
