Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-159_S6_L002_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-159_S6_L002_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 43035
Pairs without alignments under any condition 47180
Pairs that did not map uniquely 9785
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1328729
Methylated C's in CpG context 51781
Methylated C's in CHG context 7253
Methylated C's in CHH context 52915
Methylated C's in Unknown context 761
Unmethylated C's in CpG context 126344
Unmethylated C's in CHG context 268067
Unmethylated C's in CHH context 822369
Unmethylated C's in Unknown context 2993
Percentage methylation (CpG context) 29.1%
Percentage methylation (CHG context) 2.6%
Percentage methylation (CHH context) 6.0%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 20126 original top strand
CTOT 1200 complementary to original top strand
CTOB 1148 complementary to original bottom strand
OB 20561 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 935821
Methylated C's in CpG context 37014
Methylated C's in CHG context 5153
Methylated C's in CHH context 34502
Unmethylated C's in CpG context 88670
Unmethylated C's in CHG context 187468
Unmethylated C's in CHH context 583014
Percentage methylation (CpG context) 29.5%
Percentage methylation (CHG context) 2.7%
Percentage methylation (CHH context) 5.6%

M-Bias Plot