Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-193_S22_L003_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-193_S22_L003_R2_001_val_2.fq.gz

Data processed at 14:11 on 2019-11-04


Alignment Stats

Sequence pairs analysed in total 100000
Paired-end alignments with a unique best hit 532
Pairs without alignments under any condition 99468
Pairs that did not map uniquely 0
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 19364
Methylated C's in CpG context 79
Methylated C's in CHG context 239
Methylated C's in CHH context 84
Methylated C's in Unknown context 5
Unmethylated C's in CpG context 5478
Unmethylated C's in CHG context 5399
Unmethylated C's in CHH context 8085
Unmethylated C's in Unknown context 5
Percentage methylation (CpG context) 1.4%
Percentage methylation (CHG context) 4.2%
Percentage methylation (CHH context) 1.0%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 352 original top strand
CTOT 0 complementary to original top strand
CTOB 0 complementary to original bottom strand
OB 180 original bottom strand

Deduplication

Alignments analysed 532
Unique alignments 486
Duplicates removed 46
Duplicated alignments were found at 29 different positions

Cytosine Methylation after Extraction

Total C's analysed 11192
Methylated C's in CpG context 48
Methylated C's in CHG context 130
Methylated C's in CHH context 47
Unmethylated C's in CpG context 3142
Unmethylated C's in CHG context 3089
Unmethylated C's in CHH context 4736
Percentage methylation (CpG context) 1.5%
Percentage methylation (CHG context) 4.0%
Percentage methylation (CHH context) 1.0%

M-Bias Plot