Alignment
| Sequence pairs analysed in total |
30,325,606 |
| Paired-end alignments with a unique best hit |
15,247,793 |
| Pairs without alignments under any condition |
8,686,774 |
| Pairs that did not map uniquely |
6,391,039 |
| Genomic sequence context not extractable (edges of chromosomes) |
3 |
Cytosine Methylation
| Total C's analysed |
375,896,419 |
| Methylated C's in CpG context |
35,550,304 |
| Methylated C's in CHG context |
2,282,737 |
| Methylated C's in CHH context |
16,987,048 |
| Methylated C's in Unknown context |
1,561,533 |
| Unmethylated C's in CpG context |
13,991,251 |
| Unmethylated C's in CHG context |
79,870,209 |
| Unmethylated C's in CHH context |
227,214,870 |
| Unmethylated C's in Unknown context |
5,108,826 |
| Percentage methylation (CpG context) |
71.8% |
| Percentage methylation (CHG context) |
2.8% |
| Percentage methylation (CHH context) |
7.0% |
| Methylated C's in Unknown context |
N/A% |
Alignment to Individual Bisulfite Strands
| OT |
3,850,832 |
original top strand |
| CTOT |
3,774,008 |
complementary to original top strand |
| CTOB |
3,773,813 |
complementary to original bottom strand |
| OB |
3,849,137 |
original bottom strand |
Deduplication
| Alignments analysed |
15,247,790 |
| Unique alignments |
14,119,992 |
| Duplicates removed |
1,127,798 |
| Duplicated alignments were found at 674697 different positions |
Cytosine Methylation after Extraction
| Total C's analysed |
217,855,622 |
| Methylated C's in CpG context |
20,356,245 |
| Methylated C's in CHG context |
1,293,967 |
| Methylated C's in CHH context |
8,161,912 |
| Unmethylated C's in CpG context |
8,346,961 |
| Unmethylated C's in CHG context |
46,525,869 |
| Unmethylated C's in CHH context |
133,170,668 |
| Percentage methylation (CpG context) |
70.9% |
| Percentage methylation (CHG context) |
2.7% |
| Percentage methylation (CHH context) |
5.8% |
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
