Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-136_S36_L005_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-136_S36_L005_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 577
Pairs without alignments under any condition 99423
Pairs that did not map uniquely 0
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 22626
Methylated C's in CpG context 70
Methylated C's in CHG context 248
Methylated C's in CHH context 67
Methylated C's in Unknown context 0
Unmethylated C's in CpG context 6254
Unmethylated C's in CHG context 6148
Unmethylated C's in CHH context 9839
Unmethylated C's in Unknown context 2
Percentage methylation (CpG context) 1.1%
Percentage methylation (CHG context) 3.9%
Percentage methylation (CHH context) 0.7%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 363 original top strand
CTOT 0 complementary to original top strand
CTOB 0 complementary to original bottom strand
OB 214 original bottom strand

Deduplication

Alignments analysed 577
Unique alignments 551
Duplicates removed 26
Duplicated alignments were found at 21 different positions

Cytosine Methylation after Extraction

Total C's analysed 14291
Methylated C's in CpG context 42
Methylated C's in CHG context 145
Methylated C's in CHH context 45
Unmethylated C's in CpG context 3913
Unmethylated C's in CHG context 3786
Unmethylated C's in CHH context 6360
Percentage methylation (CpG context) 1.1%
Percentage methylation (CHG context) 3.7%
Percentage methylation (CHH context) 0.7%

M-Bias Plot