Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-208_S28_L004_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-208_S28_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 40167
Pairs without alignments under any condition 45914
Pairs that did not map uniquely 13919
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1115719
Methylated C's in CpG context 39515
Methylated C's in CHG context 6616
Methylated C's in CHH context 44418
Methylated C's in Unknown context 668
Unmethylated C's in CpG context 114348
Unmethylated C's in CHG context 231412
Unmethylated C's in CHH context 679410
Unmethylated C's in Unknown context 2805
Percentage methylation (CpG context) 25.7%
Percentage methylation (CHG context) 2.8%
Percentage methylation (CHH context) 6.1%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 18587 original top strand
CTOT 1478 complementary to original top strand
CTOB 1360 complementary to original bottom strand
OB 18742 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 735189
Methylated C's in CpG context 26507
Methylated C's in CHG context 4272
Methylated C's in CHH context 27036
Unmethylated C's in CpG context 75017
Unmethylated C's in CHG context 151915
Unmethylated C's in CHH context 450442
Percentage methylation (CpG context) 26.1%
Percentage methylation (CHG context) 2.7%
Percentage methylation (CHH context) 5.7%

M-Bias Plot