Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg-big/zr3644_1_R1.fq.gz and /gscratch/srlab/sr320/data/cg-big/zr3644_1_R2.fq.gz

Data processed at 23:10:09 on 2021-06-09


Alignment Stats

Sequence pairs analysed in total 100000
Paired-end alignments with a unique best hit 62534
Pairs without alignments under any condition 20244
Pairs that did not map uniquely 17222
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 2197155
Methylated C's in CpG context 26938
Methylated C's in CHG context 1753
Methylated C's in CHH context 7196
Methylated C's in Unknown context 58
Unmethylated C's in CpG context 258523
Unmethylated C's in CHG context 384627
Unmethylated C's in CHH context 1518118
Unmethylated C's in Unknown context 5416
Percentage methylation (CpG context) 9.4%
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 15602 original top strand
CTOT 15606 complementary to original top strand
CTOB 15523 complementary to original bottom strand
OB 15803 original bottom strand

Deduplication

Alignments analysed 62534
Unique alignments 58412
Duplicates removed 4122
Duplicated alignments were found at 3862 different positions

Cytosine Methylation after Extraction

Total C's analysed 1373705
Methylated C's in CpG context 16457
Methylated C's in CHG context 1093
Methylated C's in CHH context 4561
Unmethylated C's in CpG context 160479
Unmethylated C's in CHG context 238266
Unmethylated C's in CHH context 952849
Percentage methylation (CpG context) 9.3%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%

M-Bias Plot