Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg/zr3644_8_R1.fastp-trim.20201206.fq.gz and /gscratch/srlab/sr320/data/cg/zr3644_8_R2.fastp-trim.20201206.fq.gz

Data processed at 15:03 on 2021-02-23


Alignment Stats

Sequence pairs analysed in total 42084665
Paired-end alignments with a unique best hit 26054281
Pairs without alignments under any condition 10634728
Pairs that did not map uniquely 5395656
Genomic sequence context not extractable (edges of chromosomes) 3214

Cytosine Methylation

Total C's analysed 915596076
Methylated C's in CpG context 12606352
Methylated C's in CHG context 794454
Methylated C's in CHH context 3447794
Methylated C's in Unknown context 31626
Unmethylated C's in CpG context 103960711
Unmethylated C's in CHG context 159084684
Unmethylated C's in CHH context 635702081
Unmethylated C's in Unknown context 2260462
Percentage methylation (CpG context) 10.8%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 6507057 original top strand
CTOT 6512024 complementary to original top strand
CTOB 6514597 complementary to original bottom strand
OB 6517389 original bottom strand

Deduplication

Alignments analysed 26051067
Unique alignments 23202668
Duplicates removed 2848399
Duplicated alignments were found at 2518293 different positions

Cytosine Methylation after Extraction

Total C's analysed 555970190
Methylated C's in CpG context 7498791
Methylated C's in CHG context 477736
Methylated C's in CHH context 2073193
Unmethylated C's in CpG context 62836784
Unmethylated C's in CHG context 95848491
Unmethylated C's in CHH context 387235195
Percentage methylation (CpG context) 10.7%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%

M-Bias Plot