Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cvirg/50F_R1_val_1.fq.gz and /gscratch/srlab/sr320/data/cvirg/50F_R2_val_2.fq.gz

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


Alignment Stats

Sequence pairs analysed in total 147179212
Paired-end alignments with a unique best hit 83381318
Pairs without alignments under any condition 45245169
Pairs that did not map uniquely 18552725
Genomic sequence context not extractable (edges of chromosomes) 502

Cytosine Methylation

Total C's analysed 3568167604
Methylated C's in CpG context 54317296
Methylated C's in CHG context 2629468
Methylated C's in CHH context 11006199
Methylated C's in Unknown context 248689
Unmethylated C's in CpG context 395052270
Unmethylated C's in CHG context 624289769
Unmethylated C's in CHH context 2480872602
Unmethylated C's in Unknown context 11791014
Percentage methylation (CpG context) 12.1%
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 20941531 original top strand
CTOT 20857716 complementary to original top strand
CTOB 20742134 complementary to original bottom strand
OB 20839435 original bottom strand

Deduplication

Alignments analysed 83380816
Unique alignments 76725340
Duplicates removed 6655476
Duplicated alignments were found at 5997100 different positions

Cytosine Methylation after Extraction

Total C's analysed 2234334784
Methylated C's in CpG context 33203460
Methylated C's in CHG context 1600748
Methylated C's in CHH context 6728111
Unmethylated C's in CpG context 244518398
Unmethylated C's in CHG context 386893249
Unmethylated C's in CHH context 1561390818
Percentage methylation (CpG context) 12.0%
Percentage methylation (CHG context) N/A%
Percentage methylation (CHH context) N/A%

M-Bias Plot