Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-153_S4_L002_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-153_S4_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 41270
Pairs without alignments under any condition 48908
Pairs that did not map uniquely 9822
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1259492
Methylated C's in CpG context 46766
Methylated C's in CHG context 6696
Methylated C's in CHH context 54175
Methylated C's in Unknown context 634
Unmethylated C's in CpG context 127922
Unmethylated C's in CHG context 257823
Unmethylated C's in CHH context 766110
Unmethylated C's in Unknown context 2801
Percentage methylation (CpG context) 26.8%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 6.6%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 19250 original top strand
CTOT 999 complementary to original top strand
CTOB 940 complementary to original bottom strand
OB 20081 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 860072
Methylated C's in CpG context 32719
Methylated C's in CHG context 4647
Methylated C's in CHH context 35144
Unmethylated C's in CpG context 86229
Unmethylated C's in CHG context 174657
Unmethylated C's in CHH context 526676
Percentage methylation (CpG context) 27.5%
Percentage methylation (CHG context) 2.6%
Percentage methylation (CHH context) 6.3%

M-Bias Plot