Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg/zr3644_1_R1.fastp-trim.20201206.fq.gz and /gscratch/srlab/sr320/data/cg/zr3644_1_R2.fastp-trim.20201206.fq.gz

Data processed at 14:16 on 2021-02-17


Alignment Stats

Sequence pairs analysed in total 50613363
Paired-end alignments with a unique best hit 19323467
Pairs without alignments under any condition 26287539
Pairs that did not map uniquely 5002357
Genomic sequence context not extractable (edges of chromosomes) 913

Cytosine Methylation

Total C's analysed 683354629
Methylated C's in CpG context 9784856
Methylated C's in CHG context 517067
Methylated C's in CHH context 2042367
Methylated C's in Unknown context 4191
Unmethylated C's in CpG context 78329567
Unmethylated C's in CHG context 121315756
Unmethylated C's in CHH context 471365016
Unmethylated C's in Unknown context 459827
Percentage methylation (CpG context) 11.1%
Percentage methylation (CHG context) 0.4%
Percentage methylation (CHH context) 0.4%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 4886650 original top strand
CTOT 4769500 complementary to original top strand
CTOB 4774029 complementary to original bottom strand
OB 4892375 original bottom strand

Deduplication

Alignments analysed 19322554
Unique alignments 17025672
Duplicates removed 2296882
Duplicated alignments were found at 2019345 different positions

Cytosine Methylation after Extraction

Total C's analysed 393879492
Methylated C's in CpG context 5522806
Methylated C's in CHG context 295264
Methylated C's in CHH context 1171018
Unmethylated C's in CpG context 44827263
Unmethylated C's in CHG context 69333931
Unmethylated C's in CHH context 272729210
Percentage methylation (CpG context) 11.0%
Percentage methylation (CHG context) 0.4%
Percentage methylation (CHH context) 0.4%

M-Bias Plot