Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-111_S29_L005_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-111_S29_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 46023
Pairs without alignments under any condition 44177
Pairs that did not map uniquely 9800
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1422622
Methylated C's in CpG context 48507
Methylated C's in CHG context 7359
Methylated C's in CHH context 36057
Methylated C's in Unknown context 463
Unmethylated C's in CpG context 146646
Unmethylated C's in CHG context 281287
Unmethylated C's in CHH context 902766
Unmethylated C's in Unknown context 3057
Percentage methylation (CpG context) 24.9%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 3.8%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 22414 original top strand
CTOT 612 complementary to original top strand
CTOB 610 complementary to original bottom strand
OB 22387 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 1025555
Methylated C's in CpG context 35599
Methylated C's in CHG context 5344
Methylated C's in CHH context 23705
Unmethylated C's in CpG context 105049
Unmethylated C's in CHG context 201655
Unmethylated C's in CHH context 654203
Percentage methylation (CpG context) 25.3%
Percentage methylation (CHG context) 2.6%
Percentage methylation (CHH context) 3.5%

M-Bias Plot