Bismark

Bismark Processing Report

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

Data processed at 22:22:29 on 2021-06-08


Alignment Stats

Sequence pairs analysed in total 100000
Paired-end alignments with a unique best hit 61805
Pairs without alignments under any condition 20526
Pairs that did not map uniquely 17669
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 2184728
Methylated C's in CpG context 29618
Methylated C's in CHG context 1881
Methylated C's in CHH context 7761
Methylated C's in Unknown context 75
Unmethylated C's in CpG context 260260
Unmethylated C's in CHG context 382957
Unmethylated C's in CHH context 1502251
Unmethylated C's in Unknown context 5205
Percentage methylation (CpG context) 10.2%
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 15182 original top strand
CTOT 15650 complementary to original top strand
CTOB 15428 complementary to original bottom strand
OB 15545 original bottom strand

Deduplication

Alignments analysed 61805
Unique alignments 57402
Duplicates removed 4403
Duplicated alignments were found at 4086 different positions

Cytosine Methylation after Extraction

Total C's analysed 1379883
Methylated C's in CpG context 18203
Methylated C's in CHG context 1177
Methylated C's in CHH context 4744
Unmethylated C's in CpG context 162900
Unmethylated C's in CHG context 239940
Unmethylated C's in CHH context 952919
Percentage methylation (CpG context) 10.1%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%

M-Bias Plot