Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-167_S10_L002_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-167_S10_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 43638
Pairs without alignments under any condition 47451
Pairs that did not map uniquely 8911
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1380393
Methylated C's in CpG context 50036
Methylated C's in CHG context 8693
Methylated C's in CHH context 53232
Methylated C's in Unknown context 567
Unmethylated C's in CpG context 132885
Unmethylated C's in CHG context 279697
Unmethylated C's in CHH context 855850
Unmethylated C's in Unknown context 3088
Percentage methylation (CpG context) 27.4%
Percentage methylation (CHG context) 3.0%
Percentage methylation (CHH context) 5.9%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 20748 original top strand
CTOT 817 complementary to original top strand
CTOB 773 complementary to original bottom strand
OB 21300 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 982764
Methylated C's in CpG context 36110
Methylated C's in CHG context 6275
Methylated C's in CHH context 35889
Unmethylated C's in CpG context 94978
Unmethylated C's in CHG context 197664
Unmethylated C's in CHH context 611848
Percentage methylation (CpG context) 27.5%
Percentage methylation (CHG context) 3.1%
Percentage methylation (CHH context) 5.5%

M-Bias Plot