Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-182_S17_L003_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-182_S17_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 42517
Pairs without alignments under any condition 48281
Pairs that did not map uniquely 9202
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1331400
Methylated C's in CpG context 47146
Methylated C's in CHG context 6629
Methylated C's in CHH context 40870
Methylated C's in Unknown context 532
Unmethylated C's in CpG context 130388
Unmethylated C's in CHG context 268941
Unmethylated C's in CHH context 837426
Unmethylated C's in Unknown context 3114
Percentage methylation (CpG context) 26.6%
Percentage methylation (CHG context) 2.4%
Percentage methylation (CHH context) 4.7%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 20306 original top strand
CTOT 785 complementary to original top strand
CTOB 756 complementary to original bottom strand
OB 20670 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 945146
Methylated C's in CpG context 34060
Methylated C's in CHG context 4816
Methylated C's in CHH context 27476
Unmethylated C's in CpG context 92382
Unmethylated C's in CHG context 189472
Unmethylated C's in CHH context 596940
Percentage methylation (CpG context) 26.9%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 4.4%

M-Bias Plot