Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-170_S13_L002_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-170_S13_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 37834
Pairs without alignments under any condition 51480
Pairs that did not map uniquely 10686
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1096629
Methylated C's in CpG context 38504
Methylated C's in CHG context 5942
Methylated C's in CHH context 42344
Methylated C's in Unknown context 587
Unmethylated C's in CpG context 113366
Unmethylated C's in CHG context 223121
Unmethylated C's in CHH context 673352
Unmethylated C's in Unknown context 2413
Percentage methylation (CpG context) 25.4%
Percentage methylation (CHG context) 2.6%
Percentage methylation (CHH context) 5.9%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 17581 original top strand
CTOT 1031 complementary to original top strand
CTOB 1106 complementary to original bottom strand
OB 18116 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 735231
Methylated C's in CpG context 26103
Methylated C's in CHG context 3920
Methylated C's in CHH context 25820
Unmethylated C's in CpG context 75543
Unmethylated C's in CHG context 148744
Unmethylated C's in CHH context 455101
Percentage methylation (CpG context) 25.7%
Percentage methylation (CHG context) 2.6%
Percentage methylation (CHH context) 5.4%

M-Bias Plot