Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-220_S32_L004_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-220_S32_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 42752
Pairs without alignments under any condition 46595
Pairs that did not map uniquely 10653
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1288026
Methylated C's in CpG context 50434
Methylated C's in CHG context 7171
Methylated C's in CHH context 49935
Methylated C's in Unknown context 695
Unmethylated C's in CpG context 126689
Unmethylated C's in CHG context 262459
Unmethylated C's in CHH context 791338
Unmethylated C's in Unknown context 2982
Percentage methylation (CpG context) 28.5%
Percentage methylation (CHG context) 2.7%
Percentage methylation (CHH context) 5.9%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 19829 original top strand
CTOT 1268 complementary to original top strand
CTOB 1216 complementary to original bottom strand
OB 20439 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 888972
Methylated C's in CpG context 35109
Methylated C's in CHG context 4937
Methylated C's in CHH context 32561
Unmethylated C's in CpG context 86861
Unmethylated C's in CHG context 180014
Unmethylated C's in CHH context 549490
Percentage methylation (CpG context) 28.8%
Percentage methylation (CHG context) 2.7%
Percentage methylation (CHH context) 5.6%

M-Bias Plot