Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-176_S15_L003_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-176_S15_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 38642
Pairs without alignments under any condition 52857
Pairs that did not map uniquely 8501
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1182642
Methylated C's in CpG context 42228
Methylated C's in CHG context 5395
Methylated C's in CHH context 32535
Methylated C's in Unknown context 408
Unmethylated C's in CpG context 125051
Unmethylated C's in CHG context 238162
Unmethylated C's in CHH context 739271
Unmethylated C's in Unknown context 2546
Percentage methylation (CpG context) 25.2%
Percentage methylation (CHG context) 2.2%
Percentage methylation (CHH context) 4.2%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 18387 original top strand
CTOT 694 complementary to original top strand
CTOB 650 complementary to original bottom strand
OB 18911 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 835606
Methylated C's in CpG context 30417
Methylated C's in CHG context 3877
Methylated C's in CHH context 21243
Unmethylated C's in CpG context 87902
Unmethylated C's in CHG context 167201
Unmethylated C's in CHH context 524966
Percentage methylation (CpG context) 25.7%
Percentage methylation (CHG context) 2.3%
Percentage methylation (CHH context) 3.9%

M-Bias Plot