Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg-big/zrtg3644_13_R1.fq.gz and /gscratch/srlab/sr320/data/cg-big/zrtg3644_13_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 61532
Pairs without alignments under any condition 22553
Pairs that did not map uniquely 15915
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 2182732
Methylated C's in CpG context 28969
Methylated C's in CHG context 1775
Methylated C's in CHH context 7465
Methylated C's in Unknown context 87
Unmethylated C's in CpG context 252396
Unmethylated C's in CHG context 378860
Unmethylated C's in CHH context 1513267
Unmethylated C's in Unknown context 5358
Percentage methylation (CpG context) 10.3%
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 15387 original top strand
CTOT 15376 complementary to original top strand
CTOB 15360 complementary to original bottom strand
OB 15409 original bottom strand

Deduplication

Alignments analysed 61532
Unique alignments 57093
Duplicates removed 4439
Duplicated alignments were found at 4149 different positions

Cytosine Methylation after Extraction

Total C's analysed 1407110
Methylated C's in CpG context 18235
Methylated C's in CHG context 1159
Methylated C's in CHH context 4777
Unmethylated C's in CpG context 161556
Unmethylated C's in CHG context 241902
Unmethylated C's in CHH context 979481
Percentage methylation (CpG context) 10.1%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%

M-Bias Plot