Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-193_S22_L003_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-193_S22_L003_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 41523
Pairs without alignments under any condition 46402
Pairs that did not map uniquely 12075
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1184436
Methylated C's in CpG context 46818
Methylated C's in CHG context 6259
Methylated C's in CHH context 47129
Methylated C's in Unknown context 663
Unmethylated C's in CpG context 116014
Unmethylated C's in CHG context 239367
Unmethylated C's in CHH context 728849
Unmethylated C's in Unknown context 2718
Percentage methylation (CpG context) 28.8%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 6.1%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 19328 original top strand
CTOT 1178 complementary to original top strand
CTOB 1217 complementary to original bottom strand
OB 19800 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 804622
Methylated C's in CpG context 31902
Methylated C's in CHG context 4151
Methylated C's in CHH context 29158
Unmethylated C's in CpG context 78875
Unmethylated C's in CHG context 161897
Unmethylated C's in CHH context 498639
Percentage methylation (CpG context) 28.8%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 5.5%

M-Bias Plot