Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-151_S2_L002_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-151_S2_L002_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 41068
Pairs without alignments under any condition 49558
Pairs that did not map uniquely 9374
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1280490
Methylated C's in CpG context 51142
Methylated C's in CHG context 6347
Methylated C's in CHH context 50412
Methylated C's in Unknown context 534
Unmethylated C's in CpG context 126971
Unmethylated C's in CHG context 263380
Unmethylated C's in CHH context 782238
Unmethylated C's in Unknown context 2967
Percentage methylation (CpG context) 28.7%
Percentage methylation (CHG context) 2.4%
Percentage methylation (CHH context) 6.1%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 19506 original top strand
CTOT 789 complementary to original top strand
CTOB 735 complementary to original bottom strand
OB 20038 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 903466
Methylated C's in CpG context 36759
Methylated C's in CHG context 4560
Methylated C's in CHH context 33154
Unmethylated C's in CpG context 89208
Unmethylated C's in CHG context 184795
Unmethylated C's in CHH context 554990
Percentage methylation (CpG context) 29.2%
Percentage methylation (CHG context) 2.4%
Percentage methylation (CHH context) 5.6%

M-Bias Plot