Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-215_S31_L004_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-215_S31_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 43486
Pairs without alignments under any condition 43666
Pairs that did not map uniquely 12848
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1267261
Methylated C's in CpG context 55024
Methylated C's in CHG context 7467
Methylated C's in CHH context 51124
Methylated C's in Unknown context 726
Unmethylated C's in CpG context 119794
Unmethylated C's in CHG context 257247
Unmethylated C's in CHH context 776605
Unmethylated C's in Unknown context 2910
Percentage methylation (CpG context) 31.5%
Percentage methylation (CHG context) 2.8%
Percentage methylation (CHH context) 6.2%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 20177 original top strand
CTOT 1219 complementary to original top strand
CTOB 1270 complementary to original bottom strand
OB 20820 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 867038
Methylated C's in CpG context 38078
Methylated C's in CHG context 4987
Methylated C's in CHH context 32749
Unmethylated C's in CpG context 81199
Unmethylated C's in CHG context 175121
Unmethylated C's in CHH context 534904
Percentage methylation (CpG context) 31.9%
Percentage methylation (CHG context) 2.8%
Percentage methylation (CHH context) 5.8%

M-Bias Plot