Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-162_S9_L002_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-162_S9_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 37601
Pairs without alignments under any condition 51813
Pairs that did not map uniquely 10586
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1090879
Methylated C's in CpG context 38872
Methylated C's in CHG context 5795
Methylated C's in CHH context 45688
Methylated C's in Unknown context 678
Unmethylated C's in CpG context 108363
Unmethylated C's in CHG context 222063
Unmethylated C's in CHH context 670098
Unmethylated C's in Unknown context 2505
Percentage methylation (CpG context) 26.4%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 6.4%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 17201 original top strand
CTOT 1235 complementary to original top strand
CTOB 1150 complementary to original bottom strand
OB 18015 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 730251
Methylated C's in CpG context 26413
Methylated C's in CHG context 3840
Methylated C's in CHH context 28266
Unmethylated C's in CpG context 72167
Unmethylated C's in CHG context 147830
Unmethylated C's in CHH context 451735
Percentage methylation (CpG context) 26.8%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 5.9%

M-Bias Plot