Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-185_S19_L003_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-185_S19_L003_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 39426
Pairs without alignments under any condition 51455
Pairs that did not map uniquely 9119
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1211193
Methylated C's in CpG context 43601
Methylated C's in CHG context 6566
Methylated C's in CHH context 53458
Methylated C's in Unknown context 788
Unmethylated C's in CpG context 125087
Unmethylated C's in CHG context 251433
Unmethylated C's in CHH context 731048
Unmethylated C's in Unknown context 2645
Percentage methylation (CpG context) 25.8%
Percentage methylation (CHG context) 2.5%
Percentage methylation (CHH context) 6.8%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 17919 original top strand
CTOT 1475 complementary to original top strand
CTOB 1508 complementary to original bottom strand
OB 18524 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 840006
Methylated C's in CpG context 30783
Methylated C's in CHG context 4583
Methylated C's in CHH context 35259
Unmethylated C's in CpG context 86530
Unmethylated C's in CHG context 172943
Unmethylated C's in CHH context 509908
Percentage methylation (CpG context) 26.2%
Percentage methylation (CHG context) 2.6%
Percentage methylation (CHH context) 6.5%

M-Bias Plot