Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-128_S34_L005_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-128_S34_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 45304
Pairs without alignments under any condition 45437
Pairs that did not map uniquely 9259
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1420514
Methylated C's in CpG context 49009
Methylated C's in CHG context 7303
Methylated C's in CHH context 31447
Methylated C's in Unknown context 369
Unmethylated C's in CpG context 146686
Unmethylated C's in CHG context 282255
Unmethylated C's in CHH context 903814
Unmethylated C's in Unknown context 3058
Percentage methylation (CpG context) 25.0%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 3.4%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 21882 original top strand
CTOT 568 complementary to original top strand
CTOB 567 complementary to original bottom strand
OB 22287 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 1054573
Methylated C's in CpG context 37288
Methylated C's in CHG context 5460
Methylated C's in CHH context 21204
Unmethylated C's in CpG context 108049
Unmethylated C's in CHG context 208052
Unmethylated C's in CHH context 674520
Percentage methylation (CpG context) 25.7%
Percentage methylation (CHG context) 2.6%
Percentage methylation (CHH context) 3.0%

M-Bias Plot