Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg-big/zr3644_14_R1.fastp.fq.gz and /gscratch/srlab/sr320/data/cg-big/zr3644_14_R2.fastp.fq.gz

Data processed at 22:22:28 on 2021-06-08


Alignment Stats

Sequence pairs analysed in total 100000
Paired-end alignments with a unique best hit 62089
Pairs without alignments under any condition 21390
Pairs that did not map uniquely 16521
Genomic sequence context not extractable (edges of chromosomes) 1

Cytosine Methylation

Total C's analysed 2178029
Methylated C's in CpG context 32720
Methylated C's in CHG context 1899
Methylated C's in CHH context 7658
Methylated C's in Unknown context 85
Unmethylated C's in CpG context 246804
Unmethylated C's in CHG context 376144
Unmethylated C's in CHH context 1512804
Unmethylated C's in Unknown context 5234
Percentage methylation (CpG context) 11.7%
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 15451 original top strand
CTOT 15505 complementary to original top strand
CTOB 15794 complementary to original bottom strand
OB 15338 original bottom strand

Deduplication

Alignments analysed 62088
Unique alignments 58034
Duplicates removed 4054
Duplicated alignments were found at 3786 different positions

Cytosine Methylation after Extraction

Total C's analysed 1392769
Methylated C's in CpG context 20439
Methylated C's in CHG context 1189
Methylated C's in CHH context 4943
Unmethylated C's in CpG context 156912
Unmethylated C's in CHG context 238595
Unmethylated C's in CHH context 970691
Percentage methylation (CpG context) 11.5%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%

M-Bias Plot