Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg-big/5902_R1.fastp.fq.gz and /gscratch/srlab/sr320/data/cg-big/5902_R2.fastp.fq.gz

Data processed at 22:22:27 on 2021-06-08


Alignment Stats

Sequence pairs analysed in total 100000
Paired-end alignments with a unique best hit 60658
Pairs without alignments under any condition 29074
Pairs that did not map uniquely 10268
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 2633532
Methylated C's in CpG context 38086
Methylated C's in CHG context 3652
Methylated C's in CHH context 16168
Methylated C's in Unknown context 288
Unmethylated C's in CpG context 276138
Unmethylated C's in CHG context 427634
Unmethylated C's in CHH context 1871854
Unmethylated C's in Unknown context 7589
Percentage methylation (CpG context) 12.1%
Percentage methylation (CHG context) 0.8%
Percentage methylation (CHH context) 0.9%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 30312 original top strand
CTOT 6 complementary to original top strand
CTOB 6 complementary to original bottom strand
OB 30334 original bottom strand

Deduplication

Alignments analysed 60658
Unique alignments 57479
Duplicates removed 3179
Duplicated alignments were found at 3088 different positions

Cytosine Methylation after Extraction

Total C's analysed 1978606
Methylated C's in CpG context 28775
Methylated C's in CHG context 3057
Methylated C's in CHH context 13217
Unmethylated C's in CpG context 207515
Unmethylated C's in CHG context 321019
Unmethylated C's in CHH context 1405023
Percentage methylation (CpG context) 12.2%
Percentage methylation (CHG context) 0.9%
Percentage methylation (CHH context) 0.9%

M-Bias Plot