Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg-big/zrtg3644_5_R1.fq.gz and /gscratch/srlab/sr320/data/cg-big/zrtg3644_5_R2.fq.gz

Data processed at 23:10:14 on 2021-06-09


Alignment Stats

Sequence pairs analysed in total 100000
Paired-end alignments with a unique best hit 61139
Pairs without alignments under any condition 22559
Pairs that did not map uniquely 16302
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 2170069
Methylated C's in CpG context 28450
Methylated C's in CHG context 1869
Methylated C's in CHH context 7456
Methylated C's in Unknown context 74
Unmethylated C's in CpG context 249726
Unmethylated C's in CHG context 375412
Unmethylated C's in CHH context 1507156
Unmethylated C's in Unknown context 5335
Percentage methylation (CpG context) 10.2%
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 15216 original top strand
CTOT 15406 complementary to original top strand
CTOB 15321 complementary to original bottom strand
OB 15196 original bottom strand

Deduplication

Alignments analysed 61139
Unique alignments 57320
Duplicates removed 3819
Duplicated alignments were found at 3578 different positions

Cytosine Methylation after Extraction

Total C's analysed 1397855
Methylated C's in CpG context 17726
Methylated C's in CHG context 1184
Methylated C's in CHH context 4779
Unmethylated C's in CpG context 159944
Unmethylated C's in CHG context 239762
Unmethylated C's in CHH context 974460
Percentage methylation (CpG context) 10.0%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%

M-Bias Plot