Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-136_S36_L005_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-136_S36_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 44649
Pairs without alignments under any condition 45046
Pairs that did not map uniquely 10305
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1358832
Methylated C's in CpG context 45450
Methylated C's in CHG context 7070
Methylated C's in CHH context 33845
Methylated C's in Unknown context 494
Unmethylated C's in CpG context 141733
Unmethylated C's in CHG context 271660
Unmethylated C's in CHH context 859074
Unmethylated C's in Unknown context 3000
Percentage methylation (CpG context) 24.3%
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 21732 original top strand
CTOT 648 complementary to original top strand
CTOB 628 complementary to original bottom strand
OB 21641 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 967354
Methylated C's in CpG context 32988
Methylated C's in CHG context 5004
Methylated C's in CHH context 22312
Unmethylated C's in CpG context 100225
Unmethylated C's in CHG context 192272
Unmethylated C's in CHH context 614553
Percentage methylation (CpG context) 24.8%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 3.5%

M-Bias Plot