Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg-big/zrtg3616_5_R1.fq.gz and /gscratch/srlab/sr320/data/cg-big/zrtg3616_5_R2.fq.gz

Data processed at 23:10:11 on 2021-06-09


Alignment Stats

Sequence pairs analysed in total 100000
Paired-end alignments with a unique best hit 61682
Pairs without alignments under any condition 18693
Pairs that did not map uniquely 19625
Genomic sequence context not extractable (edges of chromosomes) 1

Cytosine Methylation

Total C's analysed 2012509
Methylated C's in CpG context 28226
Methylated C's in CHG context 1768
Methylated C's in CHH context 7979
Methylated C's in Unknown context 76
Unmethylated C's in CpG context 245141
Unmethylated C's in CHG context 362340
Unmethylated C's in CHH context 1367055
Unmethylated C's in Unknown context 4713
Percentage methylation (CpG context) 10.3%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.6%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 15603 original top strand
CTOT 15314 complementary to original top strand
CTOB 15482 complementary to original bottom strand
OB 15282 original bottom strand

Deduplication

Alignments analysed 61681
Unique alignments 54309
Duplicates removed 7372
Duplicated alignments were found at 6394 different positions

Cytosine Methylation after Extraction

Total C's analysed 1037483
Methylated C's in CpG context 14188
Methylated C's in CHG context 898
Methylated C's in CHH context 4269
Unmethylated C's in CpG context 125402
Unmethylated C's in CHG context 185487
Unmethylated C's in CHH context 707239
Percentage methylation (CpG context) 10.2%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.6%

M-Bias Plot