Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cvirg/19F_R1_val_1.fq.gz and /gscratch/srlab/sr320/data/cvirg/19F_R2_val_2.fq.gz

Data processed at 13:36:53 on 2021-08-12


Alignment Stats

Sequence pairs analysed in total 199653889
Paired-end alignments with a unique best hit 111541442
Pairs without alignments under any condition 57418948
Pairs that did not map uniquely 30693499
Genomic sequence context not extractable (edges of chromosomes) 1380

Cytosine Methylation

Total C's analysed 4485323711
Methylated C's in CpG context 71722745
Methylated C's in CHG context 3518077
Methylated C's in CHH context 15860797
Methylated C's in Unknown context 363361
Unmethylated C's in CpG context 522766214
Unmethylated C's in CHG context 810110614
Unmethylated C's in CHH context 3061345264
Unmethylated C's in Unknown context 14348391
Percentage methylation (CpG context) 12.1%
Percentage methylation (CHG context) 0.4%
Percentage methylation (CHH context) 0.5%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 28112102 original top strand
CTOT 28046167 complementary to original top strand
CTOB 27650327 complementary to original bottom strand
OB 27731466 original bottom strand

Deduplication

Alignments analysed 111540062
Unique alignments 99571767
Duplicates removed 11968295
Duplicated alignments were found at 9960968 different positions

Cytosine Methylation after Extraction

Total C's analysed 2486290912
Methylated C's in CpG context 38715437
Methylated C's in CHG context 1881993
Methylated C's in CHH context 8347696
Unmethylated C's in CpG context 284892928
Unmethylated C's in CHG context 443141610
Unmethylated C's in CHH context 1709311248
Percentage methylation (CpG context) 12.0%
Percentage methylation (CHG context) N/A%
Percentage methylation (CHH context) N/A%

M-Bias Plot