Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg-big/zr3644_13_R1.fastp.fq.gz and /gscratch/srlab/sr320/data/cg-big/zr3644_13_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 61792
Pairs without alignments under any condition 21880
Pairs that did not map uniquely 16328
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 2186112
Methylated C's in CpG context 28902
Methylated C's in CHG context 1781
Methylated C's in CHH context 7859
Methylated C's in Unknown context 89
Unmethylated C's in CpG context 251857
Unmethylated C's in CHG context 378544
Unmethylated C's in CHH context 1517169
Unmethylated C's in Unknown context 5394
Percentage methylation (CpG context) 10.3%
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 15417 original top strand
CTOT 15456 complementary to original top strand
CTOB 15454 complementary to original bottom strand
OB 15465 original bottom strand

Deduplication

Alignments analysed 61792
Unique alignments 57342
Duplicates removed 4450
Duplicated alignments were found at 4165 different positions

Cytosine Methylation after Extraction

Total C's analysed 1406264
Methylated C's in CpG context 18175
Methylated C's in CHG context 1149
Methylated C's in CHH context 5038
Unmethylated C's in CpG context 160953
Unmethylated C's in CHG context 241126
Unmethylated C's in CHH context 979823
Percentage methylation (CpG context) 10.1%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%

M-Bias Plot