Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg-big/zr3644_22_R1.fastp.fq.gz and /gscratch/srlab/sr320/data/cg-big/zr3644_22_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 61839
Pairs without alignments under any condition 21374
Pairs that did not map uniquely 16787
Genomic sequence context not extractable (edges of chromosomes) 1

Cytosine Methylation

Total C's analysed 2188868
Methylated C's in CpG context 28781
Methylated C's in CHG context 1882
Methylated C's in CHH context 7621
Methylated C's in Unknown context 56
Unmethylated C's in CpG context 255932
Unmethylated C's in CHG context 381185
Unmethylated C's in CHH context 1513467
Unmethylated C's in Unknown context 5344
Percentage methylation (CpG context) 10.1%
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 15348 original top strand
CTOT 15517 complementary to original top strand
CTOB 15496 complementary to original bottom strand
OB 15477 original bottom strand

Deduplication

Alignments analysed 61838
Unique alignments 57790
Duplicates removed 4048
Duplicated alignments were found at 3784 different positions

Cytosine Methylation after Extraction

Total C's analysed 1400184
Methylated C's in CpG context 17967
Methylated C's in CHG context 1195
Methylated C's in CHH context 4901
Unmethylated C's in CpG context 162565
Unmethylated C's in CHG context 241491
Unmethylated C's in CHH context 972065
Percentage methylation (CpG context) 10.0%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%

M-Bias Plot