Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-181_S16_L003_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-181_S16_L003_R2_001_val_2.fq.gz

Data processed at 18:21 on 2019-07-02

Alignment Stats

Sequence pairs analysed in total 100000
Paired-end alignments with a unique best hit 40708
Pairs without alignments under any condition 50747
Pairs that did not map uniquely 8545
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1285492
Methylated C's in CpG context 49369
Methylated C's in CHG context 6583
Methylated C's in CHH context 42294
Methylated C's in Unknown context 553
Unmethylated C's in CpG context 129234
Unmethylated C's in CHG context 262943
Unmethylated C's in CHH context 795069
Unmethylated C's in Unknown context 2891
Percentage methylation (CpG context) 27.6%
Percentage methylation (CHG context) 2.4%
Percentage methylation (CHH context) 5.1%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 19290 original top strand
CTOT 764 complementary to original top strand
CTOB 722 complementary to original bottom strand
OB 19932 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 929257
Methylated C's in CpG context 36606
Methylated C's in CHG context 4835
Methylated C's in CHH context 28260
Unmethylated C's in CpG context 92587
Unmethylated C's in CHG context 188761
Unmethylated C's in CHH context 578208
Percentage methylation (CpG context) 28.3%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 4.7%

M-Bias Plot