Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-161_S8_L002_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-161_S8_L002_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 36420
Pairs without alignments under any condition 54154
Pairs that did not map uniquely 9426
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1076985
Methylated C's in CpG context 37941
Methylated C's in CHG context 5651
Methylated C's in CHH context 42826
Methylated C's in Unknown context 606
Unmethylated C's in CpG context 107393
Unmethylated C's in CHG context 216779
Unmethylated C's in CHH context 666395
Unmethylated C's in Unknown context 2495
Percentage methylation (CpG context) 26.1%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 6.0%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 16925 original top strand
CTOT 1003 complementary to original top strand
CTOB 1096 complementary to original bottom strand
OB 17396 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 726097
Methylated C's in CpG context 26074
Methylated C's in CHG context 3792
Methylated C's in CHH context 26568
Unmethylated C's in CpG context 72161
Unmethylated C's in CHG context 145286
Unmethylated C's in CHH context 452216
Percentage methylation (CpG context) 26.5%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 5.5%

M-Bias Plot