Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cvirg/41F_R1_val_1.fq.gz and /gscratch/srlab/sr320/data/cvirg/41F_R2_val_2.fq.gz

Data processed at 13:36:55 on 2021-08-12


Alignment Stats

Sequence pairs analysed in total 112955420
Paired-end alignments with a unique best hit 61811862
Pairs without alignments under any condition 34596122
Pairs that did not map uniquely 16547436
Genomic sequence context not extractable (edges of chromosomes) 284

Cytosine Methylation

Total C's analysed 2464455832
Methylated C's in CpG context 39356024
Methylated C's in CHG context 1900918
Methylated C's in CHH context 7921201
Methylated C's in Unknown context 211526
Unmethylated C's in CpG context 283206268
Unmethylated C's in CHG context 442852463
Unmethylated C's in CHH context 1689218958
Unmethylated C's in Unknown context 8248351
Percentage methylation (CpG context) 12.2%
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 15576842 original top strand
CTOT 15371318 complementary to original top strand
CTOB 15324481 complementary to original bottom strand
OB 15538937 original bottom strand

Deduplication

Alignments analysed 61811578
Unique alignments 56050400
Duplicates removed 5761178
Duplicated alignments were found at 5252656 different positions

Cytosine Methylation after Extraction

Total C's analysed 1402364113
Methylated C's in CpG context 21603092
Methylated C's in CHG context 1050441
Methylated C's in CHH context 4458912
Unmethylated C's in CpG context 158790370
Unmethylated C's in CHG context 248626025
Unmethylated C's in CHH context 967835273
Percentage methylation (CpG context) 12.0%
Percentage methylation (CHG context) N/A%
Percentage methylation (CHH context) N/A%

M-Bias Plot