Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-154_S5_L002_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-154_S5_L002_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 38638
Pairs without alignments under any condition 52838
Pairs that did not map uniquely 8524
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1187602
Methylated C's in CpG context 45245
Methylated C's in CHG context 5749
Methylated C's in CHH context 46056
Methylated C's in Unknown context 597
Unmethylated C's in CpG context 113591
Unmethylated C's in CHG context 240273
Unmethylated C's in CHH context 736688
Unmethylated C's in Unknown context 2664
Percentage methylation (CpG context) 28.5%
Percentage methylation (CHG context) 2.3%
Percentage methylation (CHH context) 5.9%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 18164 original top strand
CTOT 886 complementary to original top strand
CTOB 865 complementary to original bottom strand
OB 18723 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 834770
Methylated C's in CpG context 32364
Methylated C's in CHG context 4071
Methylated C's in CHH context 30236
Unmethylated C's in CpG context 79787
Unmethylated C's in CHG context 167697
Unmethylated C's in CHH context 520615
Percentage methylation (CpG context) 28.9%
Percentage methylation (CHG context) 2.4%
Percentage methylation (CHH context) 5.5%

M-Bias Plot