Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg-big/zr3534_5_R1.fastp.fq.gz and /gscratch/srlab/sr320/data/cg-big/zr3534_5_R2.fastp.fq.gz

Data processed at 22:22:27 on 2021-06-08


Alignment Stats

Sequence pairs analysed in total 100000
Paired-end alignments with a unique best hit 61435
Pairs without alignments under any condition 22294
Pairs that did not map uniquely 16271
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 2137438
Methylated C's in CpG context 31070
Methylated C's in CHG context 1884
Methylated C's in CHH context 8105
Methylated C's in Unknown context 60
Unmethylated C's in CpG context 244356
Unmethylated C's in CHG context 371466
Unmethylated C's in CHH context 1480557
Unmethylated C's in Unknown context 5408
Percentage methylation (CpG context) 11.3%
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 15396 original top strand
CTOT 15226 complementary to original top strand
CTOB 15288 complementary to original bottom strand
OB 15525 original bottom strand

Deduplication

Alignments analysed 61435
Unique alignments 55086
Duplicates removed 6349
Duplicated alignments were found at 5759 different positions

Cytosine Methylation after Extraction

Total C's analysed 1321450
Methylated C's in CpG context 18706
Methylated C's in CHG context 1142
Methylated C's in CHH context 4868
Unmethylated C's in CpG context 149852
Unmethylated C's in CHG context 227304
Unmethylated C's in CHH context 919578
Percentage methylation (CpG context) 11.1%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%

M-Bias Plot