Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-143_S37_L005_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-143_S37_L005_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 44232
Pairs without alignments under any condition 46581
Pairs that did not map uniquely 9187
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1381007
Methylated C's in CpG context 49547
Methylated C's in CHG context 6872
Methylated C's in CHH context 35045
Methylated C's in Unknown context 427
Unmethylated C's in CpG context 137979
Unmethylated C's in CHG context 275631
Unmethylated C's in CHH context 875933
Unmethylated C's in Unknown context 2877
Percentage methylation (CpG context) 26.4%
Percentage methylation (CHG context) 2.4%
Percentage methylation (CHH context) 3.8%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 21432 original top strand
CTOT 594 complementary to original top strand
CTOB 565 complementary to original bottom strand
OB 21641 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 1018718
Methylated C's in CpG context 37279
Methylated C's in CHG context 5086
Methylated C's in CHH context 23614
Unmethylated C's in CpG context 101164
Unmethylated C's in CHG context 201873
Unmethylated C's in CHH context 649702
Percentage methylation (CpG context) 26.9%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 3.5%

M-Bias Plot