Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-175_S14_L003_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-175_S14_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 42105
Pairs without alignments under any condition 48599
Pairs that did not map uniquely 9296
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1299008
Methylated C's in CpG context 48249
Methylated C's in CHG context 6347
Methylated C's in CHH context 50137
Methylated C's in Unknown context 552
Unmethylated C's in CpG context 129776
Unmethylated C's in CHG context 262940
Unmethylated C's in CHH context 801559
Unmethylated C's in Unknown context 2862
Percentage methylation (CpG context) 27.1%
Percentage methylation (CHG context) 2.4%
Percentage methylation (CHH context) 5.9%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 20054 original top strand
CTOT 839 complementary to original top strand
CTOB 792 complementary to original bottom strand
OB 20420 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 922866
Methylated C's in CpG context 34929
Methylated C's in CHG context 4623
Methylated C's in CHH context 32787
Unmethylated C's in CpG context 92139
Unmethylated C's in CHG context 185850
Unmethylated C's in CHH context 572538
Percentage methylation (CpG context) 27.5%
Percentage methylation (CHG context) 2.4%
Percentage methylation (CHH context) 5.4%

M-Bias Plot