Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg/zr3644_17_R1.fastp-trim.20201206.fq.gz and /gscratch/srlab/sr320/data/cg/zr3644_17_R2.fastp-trim.20201206.fq.gz

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


Alignment Stats

Sequence pairs analysed in total 57127374
Paired-end alignments with a unique best hit 35482645
Pairs without alignments under any condition 13896909
Pairs that did not map uniquely 7747820
Genomic sequence context not extractable (edges of chromosomes) 4749

Cytosine Methylation

Total C's analysed 1251908031
Methylated C's in CpG context 17065663
Methylated C's in CHG context 1087208
Methylated C's in CHH context 4643082
Methylated C's in Unknown context 40207
Unmethylated C's in CpG context 143654479
Unmethylated C's in CHG context 218984291
Unmethylated C's in CHH context 866473308
Unmethylated C's in Unknown context 3057333
Percentage methylation (CpG context) 10.6%
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 8843581 original top strand
CTOT 8890479 complementary to original top strand
CTOB 8894177 complementary to original bottom strand
OB 8849659 original bottom strand

Deduplication

Alignments analysed 35477896
Unique alignments 31026286
Duplicates removed 4451610
Duplicated alignments were found at 3836186 different positions

Cytosine Methylation after Extraction

Total C's analysed 747149115
Methylated C's in CpG context 9972703
Methylated C's in CHG context 641569
Methylated C's in CHH context 2745500
Unmethylated C's in CpG context 85047658
Unmethylated C's in CHG context 129551113
Unmethylated C's in CHH context 519190572
Percentage methylation (CpG context) 10.5%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%

M-Bias Plot