Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-127_S33_L005_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-127_S33_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 45267
Pairs without alignments under any condition 45725
Pairs that did not map uniquely 9008
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1438388
Methylated C's in CpG context 49666
Methylated C's in CHG context 7185
Methylated C's in CHH context 36215
Methylated C's in Unknown context 447
Unmethylated C's in CpG context 148192
Unmethylated C's in CHG context 286858
Unmethylated C's in CHH context 910272
Unmethylated C's in Unknown context 3056
Percentage methylation (CpG context) 25.1%
Percentage methylation (CHG context) 2.4%
Percentage methylation (CHH context) 3.8%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 21821 original top strand
CTOT 536 complementary to original top strand
CTOB 566 complementary to original bottom strand
OB 22344 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 1072767
Methylated C's in CpG context 38000
Methylated C's in CHG context 5436
Methylated C's in CHH context 24766
Unmethylated C's in CpG context 109779
Unmethylated C's in CHG context 212193
Unmethylated C's in CHH context 682593
Percentage methylation (CpG context) 25.7%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 3.5%

M-Bias Plot