Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg-big/zrtg3616_6_R1.fq.gz and /gscratch/srlab/sr320/data/cg-big/zrtg3616_6_R2.fq.gz

Data processed at 23:10:12 on 2021-06-09


Alignment Stats

Sequence pairs analysed in total 100000
Paired-end alignments with a unique best hit 61511
Pairs without alignments under any condition 18449
Pairs that did not map uniquely 20040
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1971949
Methylated C's in CpG context 28429
Methylated C's in CHG context 1717
Methylated C's in CHH context 7390
Methylated C's in Unknown context 66
Unmethylated C's in CpG context 240998
Unmethylated C's in CHG context 356005
Unmethylated C's in CHH context 1337410
Unmethylated C's in Unknown context 4474
Percentage methylation (CpG context) 10.6%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 15399 original top strand
CTOT 15229 complementary to original top strand
CTOB 15379 complementary to original bottom strand
OB 15504 original bottom strand

Deduplication

Alignments analysed 61511
Unique alignments 52888
Duplicates removed 8623
Duplicated alignments were found at 7254 different positions

Cytosine Methylation after Extraction

Total C's analysed 978778
Methylated C's in CpG context 13835
Methylated C's in CHG context 837
Methylated C's in CHH context 3682
Unmethylated C's in CpG context 118881
Unmethylated C's in CHG context 175160
Unmethylated C's in CHH context 666383
Percentage methylation (CpG context) 10.4%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%

M-Bias Plot