Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-230_S37_L004_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-230_S37_L004_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 39562
Pairs without alignments under any condition 49720
Pairs that did not map uniquely 10718
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1138403
Methylated C's in CpG context 44328
Methylated C's in CHG context 5844
Methylated C's in CHH context 44270
Methylated C's in Unknown context 609
Unmethylated C's in CpG context 115184
Unmethylated C's in CHG context 230009
Unmethylated C's in CHH context 698768
Unmethylated C's in Unknown context 2555
Percentage methylation (CpG context) 27.8%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 6.0%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 18434 original top strand
CTOT 1092 complementary to original top strand
CTOB 1073 complementary to original bottom strand
OB 18963 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 768627
Methylated C's in CpG context 30278
Methylated C's in CHG context 3899
Methylated C's in CHH context 27831
Unmethylated C's in CpG context 77318
Unmethylated C's in CHG context 154341
Unmethylated C's in CHH context 474960
Percentage methylation (CpG context) 28.1%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 5.5%

M-Bias Plot