Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-209_S29_L004_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-209_S29_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 42840
Pairs without alignments under any condition 46070
Pairs that did not map uniquely 11090
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1290862
Methylated C's in CpG context 51956
Methylated C's in CHG context 6869
Methylated C's in CHH context 47541
Methylated C's in Unknown context 503
Unmethylated C's in CpG context 132069
Unmethylated C's in CHG context 265339
Unmethylated C's in CHH context 787088
Unmethylated C's in Unknown context 2975
Percentage methylation (CpG context) 28.2%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 5.7%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 20088 original top strand
CTOT 1011 complementary to original top strand
CTOB 922 complementary to original bottom strand
OB 20819 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 886363
Methylated C's in CpG context 36359
Methylated C's in CHG context 4680
Methylated C's in CHH context 29874
Unmethylated C's in CpG context 89932
Unmethylated C's in CHG context 181064
Unmethylated C's in CHH context 544454
Percentage methylation (CpG context) 28.8%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 5.2%

M-Bias Plot