Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-135_S35_L005_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-135_S35_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 44931
Pairs without alignments under any condition 44230
Pairs that did not map uniquely 10839
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1349942
Methylated C's in CpG context 48334
Methylated C's in CHG context 7736
Methylated C's in CHH context 39216
Methylated C's in Unknown context 509
Unmethylated C's in CpG context 137052
Unmethylated C's in CHG context 268288
Unmethylated C's in CHH context 849316
Unmethylated C's in Unknown context 2950
Percentage methylation (CpG context) 26.1%
Percentage methylation (CHG context) 2.8%
Percentage methylation (CHH context) 4.4%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 21402 original top strand
CTOT 758 complementary to original top strand
CTOB 847 complementary to original bottom strand
OB 21924 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 962189
Methylated C's in CpG context 35180
Methylated C's in CHG context 5450
Methylated C's in CHH context 25780
Unmethylated C's in CpG context 96534
Unmethylated C's in CHG context 190101
Unmethylated C's in CHH context 609144
Percentage methylation (CpG context) 26.7%
Percentage methylation (CHG context) 2.8%
Percentage methylation (CHH context) 4.1%

M-Bias Plot