Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-145_S38_L005_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-145_S38_L005_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 44751
Pairs without alignments under any condition 46156
Pairs that did not map uniquely 9093
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1398966
Methylated C's in CpG context 48723
Methylated C's in CHG context 7205
Methylated C's in CHH context 36788
Methylated C's in Unknown context 430
Unmethylated C's in CpG context 143551
Unmethylated C's in CHG context 276654
Unmethylated C's in CHH context 886045
Unmethylated C's in Unknown context 2982
Percentage methylation (CpG context) 25.3%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 4.0%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 21506 original top strand
CTOT 585 complementary to original top strand
CTOB 588 complementary to original bottom strand
OB 22072 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 1037645
Methylated C's in CpG context 36946
Methylated C's in CHG context 5378
Methylated C's in CHH context 25230
Unmethylated C's in CpG context 105551
Unmethylated C's in CHG context 203639
Unmethylated C's in CHH context 660901
Percentage methylation (CpG context) 25.9%
Percentage methylation (CHG context) 2.6%
Percentage methylation (CHH context) 3.7%

M-Bias Plot