Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-41_S38_L005_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-41_S38_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 42172
Pairs without alignments under any condition 45818
Pairs that did not map uniquely 12010
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1224292
Methylated C's in CpG context 52008
Methylated C's in CHG context 6689
Methylated C's in CHH context 49368
Methylated C's in Unknown context 845
Unmethylated C's in CpG context 115136
Unmethylated C's in CHG context 246587
Unmethylated C's in CHH context 754504
Unmethylated C's in Unknown context 2783
Percentage methylation (CpG context) 31.1%
Percentage methylation (CHG context) 2.6%
Percentage methylation (CHH context) 6.1%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 19454 original top strand
CTOT 1440 complementary to original top strand
CTOB 1387 complementary to original bottom strand
OB 19891 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 847937
Methylated C's in CpG context 36235
Methylated C's in CHG context 4539
Methylated C's in CHH context 30957
Unmethylated C's in CpG context 79647
Unmethylated C's in CHG context 170550
Unmethylated C's in CHH context 526009
Percentage methylation (CpG context) 31.3%
Percentage methylation (CHG context) 2.6%
Percentage methylation (CHH context) 5.6%

M-Bias Plot