Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg/zr3644_14_R1.fastp-trim.20201206.fq.gz and /gscratch/srlab/sr320/data/cg/zr3644_14_R2.fastp-trim.20201206.fq.gz

Data processed at 14:16 on 2021-02-17


Alignment Stats

Sequence pairs analysed in total 36184563
Paired-end alignments with a unique best hit 13543064
Pairs without alignments under any condition 19378814
Pairs that did not map uniquely 3262685
Genomic sequence context not extractable (edges of chromosomes) 540

Cytosine Methylation

Total C's analysed 480027296
Methylated C's in CpG context 8480484
Methylated C's in CHG context 392938
Methylated C's in CHH context 1533847
Methylated C's in Unknown context 3945
Unmethylated C's in CpG context 53333962
Unmethylated C's in CHG context 84692824
Unmethylated C's in CHH context 331593241
Unmethylated C's in Unknown context 320465
Percentage methylation (CpG context) 13.7%
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 3381915 original top strand
CTOT 3386033 complementary to original top strand
CTOB 3387373 complementary to original bottom strand
OB 3387203 original bottom strand

Deduplication

Alignments analysed 13542524
Unique alignments 12175386
Duplicates removed 1367138
Duplicated alignments were found at 1228190 different positions

Cytosine Methylation after Extraction

Total C's analysed 288813843
Methylated C's in CpG context 4988717
Methylated C's in CHG context 233913
Methylated C's in CHH context 918413
Unmethylated C's in CpG context 31936140
Unmethylated C's in CHG context 50526206
Unmethylated C's in CHH context 200210454
Percentage methylation (CpG context) 13.5%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%

M-Bias Plot