Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-200_S25_L003_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-200_S25_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 42882
Pairs without alignments under any condition 44164
Pairs that did not map uniquely 12954
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1220982
Methylated C's in CpG context 50023
Methylated C's in CHG context 6998
Methylated C's in CHH context 51803
Methylated C's in Unknown context 697
Unmethylated C's in CpG context 114797
Unmethylated C's in CHG context 247337
Unmethylated C's in CHH context 750024
Unmethylated C's in Unknown context 2932
Percentage methylation (CpG context) 30.4%
Percentage methylation (CHG context) 2.8%
Percentage methylation (CHH context) 6.5%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 19921 original top strand
CTOT 1235 complementary to original top strand
CTOB 1325 complementary to original bottom strand
OB 20401 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 826494
Methylated C's in CpG context 34155
Methylated C's in CHG context 4699
Methylated C's in CHH context 32070
Unmethylated C's in CpG context 77324
Unmethylated C's in CHG context 166474
Unmethylated C's in CHH context 511772
Percentage methylation (CpG context) 30.6%
Percentage methylation (CHG context) 2.7%
Percentage methylation (CHH context) 5.9%

M-Bias Plot