Alignment
| Sequence pairs analysed in total |
29,548,753 |
| Paired-end alignments with a unique best hit |
15,542,349 |
| Pairs without alignments under any condition |
7,362,526 |
| Pairs that did not map uniquely |
6,643,878 |
| Genomic sequence context not extractable (edges of chromosomes) |
2 |
Cytosine Methylation
| Total C's analysed |
424,899,469 |
| Methylated C's in CpG context |
47,524,867 |
| Methylated C's in CHG context |
2,298,043 |
| Methylated C's in CHH context |
10,743,678 |
| Methylated C's in Unknown context |
1,088,927 |
| Unmethylated C's in CpG context |
13,919,758 |
| Unmethylated C's in CHG context |
92,489,635 |
| Unmethylated C's in CHH context |
257,923,488 |
| Unmethylated C's in Unknown context |
5,034,580 |
| Percentage methylation (CpG context) |
77.3% |
| Percentage methylation (CHG context) |
2.4% |
| Percentage methylation (CHH context) |
4.0% |
| Methylated C's in Unknown context |
N/A% |
Alignment to Individual Bisulfite Strands
| OT |
3,906,974 |
original top strand |
| CTOT |
3,851,211 |
complementary to original top strand |
| CTOB |
3,865,023 |
complementary to original bottom strand |
| OB |
3,919,139 |
original bottom strand |
Deduplication
| Alignments analysed |
15,542,347 |
| Unique alignments |
14,807,502 |
| Duplicates removed |
734,845 |
| Duplicated alignments were found at 572664 different positions |
Cytosine Methylation after Extraction
| Total C's analysed |
267,693,368 |
| Methylated C's in CpG context |
29,337,022 |
| Methylated C's in CHG context |
1,506,507 |
| Methylated C's in CHH context |
6,531,799 |
| Unmethylated C's in CpG context |
8,890,935 |
| Unmethylated C's in CHG context |
57,632,709 |
| Unmethylated C's in CHH context |
163,794,396 |
| Percentage methylation (CpG context) |
76.7% |
| Percentage methylation (CHG context) |
2.5% |
| Percentage methylation (CHH context) |
3.8% |
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
