Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cvirg/23M_R1_val_1.fq.gz and /gscratch/srlab/sr320/data/cvirg/23M_R2_val_2.fq.gz

Data processed at 13:36:54 on 2021-08-12


Alignment Stats

Sequence pairs analysed in total 211649411
Paired-end alignments with a unique best hit 123206790
Pairs without alignments under any condition 54462265
Pairs that did not map uniquely 33980356
Genomic sequence context not extractable (edges of chromosomes) 151

Cytosine Methylation

Total C's analysed 5169700988
Methylated C's in CpG context 94331085
Methylated C's in CHG context 3683477
Methylated C's in CHH context 15641069
Methylated C's in Unknown context 393549
Unmethylated C's in CpG context 589228239
Unmethylated C's in CHG context 932459147
Unmethylated C's in CHH context 3534357971
Unmethylated C's in Unknown context 16265216
Percentage methylation (CpG context) 13.8%
Percentage methylation (CHG context) 0.4%
Percentage methylation (CHH context) 0.4%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 30878916 original top strand
CTOT 30699033 complementary to original top strand
CTOB 30723549 complementary to original bottom strand
OB 30905141 original bottom strand

Deduplication

Alignments analysed 123206639
Unique alignments 110649723
Duplicates removed 12556916
Duplicated alignments were found at 11142250 different positions

Cytosine Methylation after Extraction

Total C's analysed 2894655837
Methylated C's in CpG context 51270609
Methylated C's in CHG context 2002961
Methylated C's in CHH context 8414346
Unmethylated C's in CpG context 325736336
Unmethylated C's in CHG context 516029177
Unmethylated C's in CHH context 1991202408
Percentage methylation (CpG context) 13.6%
Percentage methylation (CHG context) N/A%
Percentage methylation (CHH context) N/A%

M-Bias Plot