Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-44_S41_L005_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-44_S41_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 45423
Pairs without alignments under any condition 41318
Pairs that did not map uniquely 13259
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1290068
Methylated C's in CpG context 59321
Methylated C's in CHG context 7220
Methylated C's in CHH context 48280
Methylated C's in Unknown context 751
Unmethylated C's in CpG context 117391
Unmethylated C's in CHG context 257855
Unmethylated C's in CHH context 800001
Unmethylated C's in Unknown context 2747
Percentage methylation (CpG context) 33.6%
Percentage methylation (CHG context) 2.7%
Percentage methylation (CHH context) 5.7%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 21286 original top strand
CTOT 1167 complementary to original top strand
CTOB 1311 complementary to original bottom strand
OB 21659 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 897827
Methylated C's in CpG context 41432
Methylated C's in CHG context 4926
Methylated C's in CHH context 30855
Unmethylated C's in CpG context 81464
Unmethylated C's in CHG context 179073
Unmethylated C's in CHH context 560077
Percentage methylation (CpG context) 33.7%
Percentage methylation (CHG context) 2.7%
Percentage methylation (CHH context) 5.2%

M-Bias Plot