Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg-big/zr3534_8_R1.fq.gz and /gscratch/srlab/sr320/data/cg-big/zr3534_8_R2.fq.gz

Data processed at 23:10:07 on 2021-06-09


Alignment Stats

Sequence pairs analysed in total 100000
Paired-end alignments with a unique best hit 61749
Pairs without alignments under any condition 21889
Pairs that did not map uniquely 16362
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 2134624
Methylated C's in CpG context 28579
Methylated C's in CHG context 1697
Methylated C's in CHH context 7682
Methylated C's in Unknown context 75
Unmethylated C's in CpG context 246032
Unmethylated C's in CHG context 369826
Unmethylated C's in CHH context 1480808
Unmethylated C's in Unknown context 5344
Percentage methylation (CpG context) 10.4%
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 15222 original top strand
CTOT 15485 complementary to original top strand
CTOB 15661 complementary to original bottom strand
OB 15381 original bottom strand

Deduplication

Alignments analysed 61749
Unique alignments 54631
Duplicates removed 7118
Duplicated alignments were found at 6389 different positions

Cytosine Methylation after Extraction

Total C's analysed 1286222
Methylated C's in CpG context 16614
Methylated C's in CHG context 991
Methylated C's in CHH context 4536
Unmethylated C's in CpG context 147209
Unmethylated C's in CHG context 220589
Unmethylated C's in CHH context 896283
Percentage methylation (CpG context) 10.1%
Percentage methylation (CHG context) 0.4%
Percentage methylation (CHH context) 0.5%

M-Bias Plot