Alignment
Sequences analysed in total |
11758842 |
Single-end alignments with a unique best hit |
5990759 |
Sequences without alignments under any condition |
1785999 |
Sequences that did not map uniquely |
3982084 |
Genomic sequence context not extractable (edges of chromosomes) |
4173 |
Cytosine Methylation
Total C's analysed |
46552752 |
Methylated C's in CpG context |
1822887 |
Methylated C's in CHG context |
133866 |
Methylated C's in CHH context |
1612255 |
Methylated C's in Unknown context |
29448 |
Unmethylated C's in CpG context |
5101412 |
Unmethylated C's in CHG context |
8920601 |
Unmethylated C's in CHH context |
28961731 |
Unmethylated C's in Unknown context |
168244 |
Percentage methylation (CpG context) |
26.3% |
Percentage methylation (CHG context) |
1.5% |
Percentage methylation (CHH context) |
5.3% |
Methylated C's in Unknown context |
N/A% |
Alignment to Individual Bisulfite Strands
OT |
2868663 |
original top strand |
CTOT |
125147 |
complementary to original top strand |
CTOB |
126934 |
complementary to original bottom strand |
OB |
2865842 |
original bottom strand |
Deduplication
Alignments analysed |
5986586 |
Unique alignments |
5041199 |
Duplicates removed |
945387 |
Duplicated alignments were found at 463041 different positions |
Cytosine Methylation after Extraction
Total C's analysed |
38961268 |
Methylated C's in CpG context |
1510643 |
Methylated C's in CHG context |
95015 |
Methylated C's in CHH context |
1160492 |
Unmethylated C's in CpG context |
4047966 |
Unmethylated C's in CHG context |
7366258 |
Unmethylated C's in CHH context |
24780894 |
Percentage methylation (CpG context) |
27.2% |
Percentage methylation (CHG context) |
1.3% |
Percentage methylation (CHH context) |
4.5% |
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}} |