Alignment
| Sequence pairs analysed in total |
31,503,281 |
| Paired-end alignments with a unique best hit |
16,377,060 |
| Pairs without alignments under any condition |
8,772,590 |
| Pairs that did not map uniquely |
6,353,631 |
| Genomic sequence context not extractable (edges of chromosomes) |
5 |
Cytosine Methylation
| Total C's analysed |
427,057,721 |
| Methylated C's in CpG context |
36,699,636 |
| Methylated C's in CHG context |
2,370,188 |
| Methylated C's in CHH context |
12,902,291 |
| Methylated C's in Unknown context |
1,275,308 |
| Unmethylated C's in CpG context |
17,105,060 |
| Unmethylated C's in CHG context |
88,534,839 |
| Unmethylated C's in CHH context |
269,445,707 |
| Unmethylated C's in Unknown context |
5,454,992 |
| Percentage methylation (CpG context) |
68.2% |
| Percentage methylation (CHG context) |
2.6% |
| Percentage methylation (CHH context) |
4.6% |
| Methylated C's in Unknown context |
N/A% |
Alignment to Individual Bisulfite Strands
| OT |
4,233,791 |
original top strand |
| CTOT |
3,962,037 |
complementary to original top strand |
| CTOB |
3,951,534 |
complementary to original bottom strand |
| OB |
4,229,693 |
original bottom strand |
Deduplication
| Alignments analysed |
16,377,055 |
| Unique alignments |
15,535,269 |
| Duplicates removed |
841,786 |
| Duplicated alignments were found at 694983 different positions |
Cytosine Methylation after Extraction
| Total C's analysed |
263,351,588 |
| Methylated C's in CpG context |
22,025,352 |
| Methylated C's in CHG context |
1,491,401 |
| Methylated C's in CHH context |
7,586,556 |
| Unmethylated C's in CpG context |
10,753,176 |
| Unmethylated C's in CHG context |
53,978,678 |
| Unmethylated C's in CHH context |
167,516,425 |
| Percentage methylation (CpG context) |
67.2% |
| Percentage methylation (CHG context) |
2.7% |
| Percentage methylation (CHH context) |
4.3% |
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
