Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg-big/zr3534_3_R1.fq.gz and /gscratch/srlab/sr320/data/cg-big/zr3534_3_R2.fq.gz

Data processed at 23:10:06 on 2021-06-09


Alignment Stats

Sequence pairs analysed in total 100000
Paired-end alignments with a unique best hit 60805
Pairs without alignments under any condition 23295
Pairs that did not map uniquely 15900
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 2125117
Methylated C's in CpG context 32587
Methylated C's in CHG context 1966
Methylated C's in CHH context 8237
Methylated C's in Unknown context 79
Unmethylated C's in CpG context 241674
Unmethylated C's in CHG context 368620
Unmethylated C's in CHH context 1472033
Unmethylated C's in Unknown context 5484
Percentage methylation (CpG context) 11.9%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.6%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 15213 original top strand
CTOT 15176 complementary to original top strand
CTOB 15206 complementary to original bottom strand
OB 15210 original bottom strand

Deduplication

Alignments analysed 60805
Unique alignments 54955
Duplicates removed 5850
Duplicated alignments were found at 5361 different positions

Cytosine Methylation after Extraction

Total C's analysed 1361137
Methylated C's in CpG context 20085
Methylated C's in CHG context 1230
Methylated C's in CHH context 5181
Unmethylated C's in CpG context 153239
Unmethylated C's in CHG context 233513
Unmethylated C's in CHH context 947889
Percentage methylation (CpG context) 11.6%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%

M-Bias Plot