Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg-big/3501_R1.fastp.fq.gz and /gscratch/srlab/sr320/data/cg-big/3501_R2.fastp.fq.gz

Data processed at 22:22:26 on 2021-06-08


Alignment Stats

Sequence pairs analysed in total 100000
Paired-end alignments with a unique best hit 60904
Pairs without alignments under any condition 28435
Pairs that did not map uniquely 10661
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 2586683
Methylated C's in CpG context 38139
Methylated C's in CHG context 3842
Methylated C's in CHH context 16449
Methylated C's in Unknown context 294
Unmethylated C's in CpG context 269842
Unmethylated C's in CHG context 414374
Unmethylated C's in CHH context 1844037
Unmethylated C's in Unknown context 7767
Percentage methylation (CpG context) 12.4%
Percentage methylation (CHG context) 0.9%
Percentage methylation (CHH context) 0.9%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 30342 original top strand
CTOT 7 complementary to original top strand
CTOB 11 complementary to original bottom strand
OB 30544 original bottom strand

Deduplication

Alignments analysed 60904
Unique alignments 57780
Duplicates removed 3124
Duplicated alignments were found at 3038 different positions

Cytosine Methylation after Extraction

Total C's analysed 1860250
Methylated C's in CpG context 27690
Methylated C's in CHG context 3151
Methylated C's in CHH context 13309
Unmethylated C's in CpG context 194133
Unmethylated C's in CHG context 298113
Unmethylated C's in CHH context 1323854
Percentage methylation (CpG context) 12.5%
Percentage methylation (CHG context) 1.0%
Percentage methylation (CHH context) 1.0%

M-Bias Plot