Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg/zr3534_10_R1.fastp-trim.20201202.fq.gz and /gscratch/srlab/sr320/data/cg/zr3534_10_R2.fastp-trim.20201202.fq.gz

Data processed at 23:58 on 2021-03-12


Alignment Stats

Sequence pairs analysed in total 77576026
Paired-end alignments with a unique best hit 48007674
Pairs without alignments under any condition 16783783
Pairs that did not map uniquely 12784569
Genomic sequence context not extractable (edges of chromosomes) 123

Cytosine Methylation

Total C's analysed 1687130988
Methylated C's in CpG context 22194995
Methylated C's in CHG context 1322680
Methylated C's in CHH context 5572782
Methylated C's in Unknown context 51737
Unmethylated C's in CpG context 200864245
Unmethylated C's in CHG context 297108560
Unmethylated C's in CHH context 1160067726
Unmethylated C's in Unknown context 4034330
Percentage methylation (CpG context) 10.0%
Percentage methylation (CHG context) 0.4%
Percentage methylation (CHH context) 0.5%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 11986262 original top strand
CTOT 11977878 complementary to original top strand
CTOB 12029411 complementary to original bottom strand
OB 12014000 original bottom strand

Deduplication

Alignments analysed 48007551
Unique alignments 39146855
Duplicates removed 8860696
Duplicated alignments were found at 7366422 different positions

Cytosine Methylation after Extraction

Total C's analysed 942295272
Methylated C's in CpG context 12005773
Methylated C's in CHG context 727974
Methylated C's in CHH context 3110667
Unmethylated C's in CpG context 110469959
Unmethylated C's in CHG context 163950124
Unmethylated C's in CHH context 652030775
Percentage methylation (CpG context) 9.8%
Percentage methylation (CHG context) 0.4%
Percentage methylation (CHH context) 0.5%

M-Bias Plot