Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-214_S30_L004_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-214_S30_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 41477
Pairs without alignments under any condition 48589
Pairs that did not map uniquely 9934
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1257148
Methylated C's in CpG context 46335
Methylated C's in CHG context 6389
Methylated C's in CHH context 43971
Methylated C's in Unknown context 592
Unmethylated C's in CpG context 126604
Unmethylated C's in CHG context 255163
Unmethylated C's in CHH context 778686
Unmethylated C's in Unknown context 2965
Percentage methylation (CpG context) 26.8%
Percentage methylation (CHG context) 2.4%
Percentage methylation (CHH context) 5.3%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 19676 original top strand
CTOT 899 complementary to original top strand
CTOB 918 complementary to original bottom strand
OB 19984 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 877778
Methylated C's in CpG context 32890
Methylated C's in CHG context 4484
Methylated C's in CHH context 28444
Unmethylated C's in CpG context 88081
Unmethylated C's in CHG context 177144
Unmethylated C's in CHH context 546735
Percentage methylation (CpG context) 27.2%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 4.9%

M-Bias Plot