Alignment
| Sequence pairs analysed in total |
31,847,541 |
| Paired-end alignments with a unique best hit |
16,108,088 |
| Pairs without alignments under any condition |
9,175,758 |
| Pairs that did not map uniquely |
6,563,695 |
| Genomic sequence context not extractable (edges of chromosomes) |
5 |
Cytosine Methylation
| Total C's analysed |
446,271,830 |
| Methylated C's in CpG context |
48,190,808 |
| Methylated C's in CHG context |
2,774,831 |
| Methylated C's in CHH context |
12,251,657 |
| Methylated C's in Unknown context |
1,258,835 |
| Unmethylated C's in CpG context |
14,405,999 |
| Unmethylated C's in CHG context |
95,964,094 |
| Unmethylated C's in CHH context |
272,684,441 |
| Unmethylated C's in Unknown context |
5,548,505 |
| Percentage methylation (CpG context) |
77.0% |
| Percentage methylation (CHG context) |
2.8% |
| Percentage methylation (CHH context) |
4.3% |
| Methylated C's in Unknown context |
N/A% |
Alignment to Individual Bisulfite Strands
| OT |
4,345,578 |
original top strand |
| CTOT |
3,702,815 |
complementary to original top strand |
| CTOB |
3,705,364 |
complementary to original bottom strand |
| OB |
4,354,326 |
original bottom strand |
Deduplication
| Alignments analysed |
16,108,083 |
| Unique alignments |
14,083,414 |
| Duplicates removed |
2,024,669 |
| Duplicated alignments were found at 1660011 different positions |
Cytosine Methylation after Extraction
| Total C's analysed |
255,572,824 |
| Methylated C's in CpG context |
26,756,008 |
| Methylated C's in CHG context |
1,647,018 |
| Methylated C's in CHH context |
7,002,283 |
| Unmethylated C's in CpG context |
8,438,242 |
| Unmethylated C's in CHG context |
54,139,076 |
| Unmethylated C's in CHH context |
157,590,197 |
| Percentage methylation (CpG context) |
76.0% |
| Percentage methylation (CHG context) |
3.0% |
| 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
