Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-152_S3_L002_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-152_S3_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 40472
Pairs without alignments under any condition 50750
Pairs that did not map uniquely 8778
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1258945
Methylated C's in CpG context 49975
Methylated C's in CHG context 6498
Methylated C's in CHH context 45498
Methylated C's in Unknown context 527
Unmethylated C's in CpG context 118253
Unmethylated C's in CHG context 253146
Unmethylated C's in CHH context 785575
Unmethylated C's in Unknown context 2825
Percentage methylation (CpG context) 29.7%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 5.5%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 19323 original top strand
CTOT 781 complementary to original top strand
CTOB 792 complementary to original bottom strand
OB 19576 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 892920
Methylated C's in CpG context 36021
Methylated C's in CHG context 4682
Methylated C's in CHH context 29972
Unmethylated C's in CpG context 83551
Unmethylated C's in CHG context 178421
Unmethylated C's in CHH context 560273
Percentage methylation (CpG context) 30.1%
Percentage methylation (CHG context) 2.6%
Percentage methylation (CHH context) 5.1%

M-Bias Plot