Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-153_S4_L002_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-153_S4_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 637
Pairs without alignments under any condition 99363
Pairs that did not map uniquely 0
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 26175
Methylated C's in CpG context 100
Methylated C's in CHG context 289
Methylated C's in CHH context 159
Methylated C's in Unknown context 12
Unmethylated C's in CpG context 7435
Unmethylated C's in CHG context 7145
Unmethylated C's in CHH context 11047
Unmethylated C's in Unknown context 5
Percentage methylation (CpG context) 1.3%
Percentage methylation (CHG context) 3.9%
Percentage methylation (CHH context) 1.4%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 432 original top strand
CTOT 0 complementary to original top strand
CTOB 0 complementary to original bottom strand
OB 205 original bottom strand

Deduplication

Alignments analysed 637
Unique alignments 609
Duplicates removed 28
Duplicated alignments were found at 21 different positions

Cytosine Methylation after Extraction

Total C's analysed 16860
Methylated C's in CpG context 63
Methylated C's in CHG context 182
Methylated C's in CHH context 108
Unmethylated C's in CpG context 4751
Unmethylated C's in CHG context 4561
Unmethylated C's in CHH context 7195
Percentage methylation (CpG context) 1.3%
Percentage methylation (CHG context) 3.8%
Percentage methylation (CHH context) 1.5%

M-Bias Plot