Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-168_S11_L002_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-168_S11_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 40710
Pairs without alignments under any condition 50349
Pairs that did not map uniquely 8941
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1288250
Methylated C's in CpG context 47707
Methylated C's in CHG context 6030
Methylated C's in CHH context 50534
Methylated C's in Unknown context 615
Unmethylated C's in CpG context 130095
Unmethylated C's in CHG context 266530
Unmethylated C's in CHH context 787354
Unmethylated C's in Unknown context 2798
Percentage methylation (CpG context) 26.8%
Percentage methylation (CHG context) 2.2%
Percentage methylation (CHH context) 6.0%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 19126 original top strand
CTOT 827 complementary to original top strand
CTOB 871 complementary to original bottom strand
OB 19886 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 903056
Methylated C's in CpG context 34111
Methylated C's in CHG context 4274
Methylated C's in CHH context 32462
Unmethylated C's in CpG context 90885
Unmethylated C's in CHG context 185761
Unmethylated C's in CHH context 555563
Percentage methylation (CpG context) 27.3%
Percentage methylation (CHG context) 2.2%
Percentage methylation (CHH context) 5.5%

M-Bias Plot