Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-187_S20_L003_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-187_S20_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 43685
Pairs without alignments under any condition 46277
Pairs that did not map uniquely 10038
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1347498
Methylated C's in CpG context 56000
Methylated C's in CHG context 7287
Methylated C's in CHH context 48471
Methylated C's in Unknown context 687
Unmethylated C's in CpG context 129714
Unmethylated C's in CHG context 277021
Unmethylated C's in CHH context 829005
Unmethylated C's in Unknown context 2994
Percentage methylation (CpG context) 30.2%
Percentage methylation (CHG context) 2.6%
Percentage methylation (CHH context) 5.5%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 20672 original top strand
CTOT 930 complementary to original top strand
CTOB 864 complementary to original bottom strand
OB 21219 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 951369
Methylated C's in CpG context 40163
Methylated C's in CHG context 5174
Methylated C's in CHH context 31946
Unmethylated C's in CpG context 90866
Unmethylated C's in CHG context 193874
Unmethylated C's in CHH context 589346
Percentage methylation (CpG context) 30.7%
Percentage methylation (CHG context) 2.6%
Percentage methylation (CHH context) 5.1%

M-Bias Plot