Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-103_S27_L005_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-103_S27_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 45175
Pairs without alignments under any condition 46099
Pairs that did not map uniquely 8726
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1452797
Methylated C's in CpG context 46768
Methylated C's in CHG context 6688
Methylated C's in CHH context 35838
Methylated C's in Unknown context 427
Unmethylated C's in CpG context 152252
Unmethylated C's in CHG context 292234
Unmethylated C's in CHH context 919017
Unmethylated C's in Unknown context 3138
Percentage methylation (CpG context) 23.5%
Percentage methylation (CHG context) 2.2%
Percentage methylation (CHH context) 3.8%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 21900 original top strand
CTOT 486 complementary to original top strand
CTOB 493 complementary to original bottom strand
OB 22296 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 1077416
Methylated C's in CpG context 35436
Methylated C's in CHG context 5121
Methylated C's in CHH context 24754
Unmethylated C's in CpG context 112604
Unmethylated C's in CHG context 214913
Unmethylated C's in CHH context 684588
Percentage methylation (CpG context) 23.9%
Percentage methylation (CHG context) 2.3%
Percentage methylation (CHH context) 3.5%

M-Bias Plot