Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg/zr3644_18_R1.fastp-trim.20201206.fq.gz and /gscratch/srlab/sr320/data/cg/zr3644_18_R2.fastp-trim.20201206.fq.gz

Data processed at 15:03 on 2021-02-23


Alignment Stats

Sequence pairs analysed in total 50675924
Paired-end alignments with a unique best hit 31778026
Pairs without alignments under any condition 12419853
Pairs that did not map uniquely 6478045
Genomic sequence context not extractable (edges of chromosomes) 4292

Cytosine Methylation

Total C's analysed 1118094007
Methylated C's in CpG context 15429831
Methylated C's in CHG context 964803
Methylated C's in CHH context 4106945
Methylated C's in Unknown context 35840
Unmethylated C's in CpG context 127142194
Unmethylated C's in CHG context 195637016
Unmethylated C's in CHH context 774813218
Unmethylated C's in Unknown context 2726771
Percentage methylation (CpG context) 10.8%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 7951380 original top strand
CTOT 7920737 complementary to original top strand
CTOB 7938755 complementary to original bottom strand
OB 7962862 original bottom strand

Deduplication

Alignments analysed 31773734
Unique alignments 28210284
Duplicates removed 3563450
Duplicated alignments were found at 3145695 different positions

Cytosine Methylation after Extraction

Total C's analysed 677785584
Methylated C's in CpG context 9144375
Methylated C's in CHG context 577832
Methylated C's in CHH context 2466511
Unmethylated C's in CpG context 76529541
Unmethylated C's in CHG context 117538805
Unmethylated C's in CHH context 471528520
Percentage methylation (CpG context) 10.7%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%

M-Bias Plot