Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-206_S27_L004_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-206_S27_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 43502
Pairs without alignments under any condition 43133
Pairs that did not map uniquely 13365
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1251141
Methylated C's in CpG context 50142
Methylated C's in CHG context 7138
Methylated C's in CHH context 52714
Methylated C's in Unknown context 752
Unmethylated C's in CpG context 127409
Unmethylated C's in CHG context 259611
Unmethylated C's in CHH context 754127
Unmethylated C's in Unknown context 2750
Percentage methylation (CpG context) 28.2%
Percentage methylation (CHG context) 2.7%
Percentage methylation (CHH context) 6.5%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 20106 original top strand
CTOT 1437 complementary to original top strand
CTOB 1424 complementary to original bottom strand
OB 20535 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 843423
Methylated C's in CpG context 34084
Methylated C's in CHG context 4732
Methylated C's in CHH context 32905
Unmethylated C's in CpG context 85509
Unmethylated C's in CHG context 174357
Unmethylated C's in CHH context 511836
Percentage methylation (CpG context) 28.5%
Percentage methylation (CHG context) 2.6%
Percentage methylation (CHH context) 6.0%

M-Bias Plot