Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-160_S7_L002_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-160_S7_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 39588
Pairs without alignments under any condition 49429
Pairs that did not map uniquely 10983
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1160580
Methylated C's in CpG context 43784
Methylated C's in CHG context 6484
Methylated C's in CHH context 46612
Methylated C's in Unknown context 579
Unmethylated C's in CpG context 116615
Unmethylated C's in CHG context 236254
Unmethylated C's in CHH context 710831
Unmethylated C's in Unknown context 2732
Percentage methylation (CpG context) 27.3%
Percentage methylation (CHG context) 2.7%
Percentage methylation (CHH context) 6.2%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 18373 original top strand
CTOT 1095 complementary to original top strand
CTOB 1164 complementary to original bottom strand
OB 18956 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 781694
Methylated C's in CpG context 29956
Methylated C's in CHG context 4345
Methylated C's in CHH context 29619
Unmethylated C's in CpG context 77600
Unmethylated C's in CHG context 158254
Unmethylated C's in CHH context 481920
Percentage methylation (CpG context) 27.9%
Percentage methylation (CHG context) 2.7%
Percentage methylation (CHH context) 5.8%

M-Bias Plot