Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-152_S3_L002_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-152_S3_L002_R2_001_val_2.fq.gz

Data processed at 14:11 on 2019-11-04


Alignment Stats

Sequence pairs analysed in total 100000
Paired-end alignments with a unique best hit 469
Pairs without alignments under any condition 99531
Pairs that did not map uniquely 0
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 19248
Methylated C's in CpG context 48
Methylated C's in CHG context 198
Methylated C's in CHH context 87
Methylated C's in Unknown context 0
Unmethylated C's in CpG context 5447
Unmethylated C's in CHG context 5293
Unmethylated C's in CHH context 8175
Unmethylated C's in Unknown context 1
Percentage methylation (CpG context) 0.9%
Percentage methylation (CHG context) 3.6%
Percentage methylation (CHH context) 1.1%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 312 original top strand
CTOT 0 complementary to original top strand
CTOB 0 complementary to original bottom strand
OB 157 original bottom strand

Deduplication

Alignments analysed 469
Unique alignments 429
Duplicates removed 40
Duplicated alignments were found at 31 different positions

Cytosine Methylation after Extraction

Total C's analysed 11618
Methylated C's in CpG context 33
Methylated C's in CHG context 119
Methylated C's in CHH context 55
Unmethylated C's in CpG context 3293
Unmethylated C's in CHG context 3160
Unmethylated C's in CHH context 4958
Percentage methylation (CpG context) 1.0%
Percentage methylation (CHG context) 3.6%
Percentage methylation (CHH context) 1.1%

M-Bias Plot