Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-221_S33_L004_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-221_S33_L004_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 43957
Pairs without alignments under any condition 43157
Pairs that did not map uniquely 12886
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1257487
Methylated C's in CpG context 51006
Methylated C's in CHG context 7464
Methylated C's in CHH context 49314
Methylated C's in Unknown context 707
Unmethylated C's in CpG context 121319
Unmethylated C's in CHG context 256081
Unmethylated C's in CHH context 772303
Unmethylated C's in Unknown context 2928
Percentage methylation (CpG context) 29.6%
Percentage methylation (CHG context) 2.8%
Percentage methylation (CHH context) 6.0%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 20125 original top strand
CTOT 1455 complementary to original top strand
CTOB 1422 complementary to original bottom strand
OB 20955 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 860811
Methylated C's in CpG context 35075
Methylated C's in CHG context 4962
Methylated C's in CHH context 31137
Unmethylated C's in CpG context 82766
Unmethylated C's in CHG context 174351
Unmethylated C's in CHH context 532520
Percentage methylation (CpG context) 29.8%
Percentage methylation (CHG context) 2.8%
Percentage methylation (CHH context) 5.5%

M-Bias Plot