Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-184_S18_L003_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-184_S18_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 42466
Pairs without alignments under any condition 47104
Pairs that did not map uniquely 10430
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1283864
Methylated C's in CpG context 48464
Methylated C's in CHG context 6495
Methylated C's in CHH context 46806
Methylated C's in Unknown context 595
Unmethylated C's in CpG context 126521
Unmethylated C's in CHG context 264415
Unmethylated C's in CHH context 791163
Unmethylated C's in Unknown context 2996
Percentage methylation (CpG context) 27.7%
Percentage methylation (CHG context) 2.4%
Percentage methylation (CHH context) 5.6%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 20028 original top strand
CTOT 1077 complementary to original top strand
CTOB 1094 complementary to original bottom strand
OB 20267 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 885195
Methylated C's in CpG context 33703
Methylated C's in CHG context 4467
Methylated C's in CHH context 29980
Unmethylated C's in CpG context 87429
Unmethylated C's in CHG context 180954
Unmethylated C's in CHH context 548662
Percentage methylation (CpG context) 27.8%
Percentage methylation (CHG context) 2.4%
Percentage methylation (CHH context) 5.2%

M-Bias Plot