Alignment
Sequence pairs analysed in total |
28660043 |
Paired-end alignments with a unique best hit |
13828654 |
Pairs without alignments under any condition |
12337643 |
Pairs that did not map uniquely |
2493746 |
Genomic sequence context not extractable (edges of chromosomes) |
14 |
Cytosine Methylation
Total C's analysed |
426052941 |
Methylated C's in CpG context |
13963490 |
Methylated C's in CHG context |
2165482 |
Methylated C's in CHH context |
8555313 |
Methylated C's in Unknown context |
307555 |
Unmethylated C's in CpG context |
46626860 |
Unmethylated C's in CHG context |
90587401 |
Unmethylated C's in CHH context |
264154395 |
Unmethylated C's in Unknown context |
2806908 |
Percentage methylation (CpG context) |
23.0% |
Percentage methylation (CHG context) |
2.3% |
Percentage methylation (CHH context) |
3.1% |
Methylated C's in Unknown context |
N/A% |
Alignment to Individual Bisulfite Strands
OT |
6750401 |
original top strand |
CTOT |
0 |
complementary to original top strand |
CTOB |
0 |
complementary to original bottom strand |
OB |
7078239 |
original bottom strand |
Deduplication
Alignments analysed |
13828640 |
Unique alignments |
10132897 |
Duplicates removed |
3695743 |
Duplicated alignments were found at 1989541 different positions |
Cytosine Methylation after Extraction
Total C's analysed |
219999425 |
Methylated C's in CpG context |
7962551 |
Methylated C's in CHG context |
1195467 |
Methylated C's in CHH context |
5188264 |
Unmethylated C's in CpG context |
22256008 |
Unmethylated C's in CHG context |
45016568 |
Unmethylated C's in CHH context |
138380567 |
Percentage methylation (CpG context) |
26.3% |
Percentage methylation (CHG context) |
2.6% |
Percentage methylation (CHH context) |
3.6% |
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}} |