Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-113_S30_L005_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-113_S30_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 44720
Pairs without alignments under any condition 46252
Pairs that did not map uniquely 9028
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1403354
Methylated C's in CpG context 46955
Methylated C's in CHG context 6874
Methylated C's in CHH context 35540
Methylated C's in Unknown context 434
Unmethylated C's in CpG context 144123
Unmethylated C's in CHG context 277989
Unmethylated C's in CHH context 891873
Unmethylated C's in Unknown context 3257
Percentage methylation (CpG context) 24.6%
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 21753 original top strand
CTOT 562 complementary to original top strand
CTOB 617 complementary to original bottom strand
OB 21788 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 1034324
Methylated C's in CpG context 35345
Methylated C's in CHG context 5150
Methylated C's in CHH context 24039
Unmethylated C's in CpG context 105648
Unmethylated C's in CHG context 203840
Unmethylated C's in CHH context 660302
Percentage methylation (CpG context) 25.1%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 3.5%

M-Bias Plot