Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg-big/zr3644_12_R1.fq.gz and /gscratch/srlab/sr320/data/cg-big/zr3644_12_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 61367
Pairs without alignments under any condition 22024
Pairs that did not map uniquely 16609
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 2130237
Methylated C's in CpG context 26218
Methylated C's in CHG context 1646
Methylated C's in CHH context 7156
Methylated C's in Unknown context 62
Unmethylated C's in CpG context 241599
Unmethylated C's in CHG context 358327
Unmethylated C's in CHH context 1495291
Unmethylated C's in Unknown context 5307
Percentage methylation (CpG context) 9.8%
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 15356 original top strand
CTOT 15506 complementary to original top strand
CTOB 15379 complementary to original bottom strand
OB 15126 original bottom strand

Deduplication

Alignments analysed 61367
Unique alignments 57478
Duplicates removed 3889
Duplicated alignments were found at 3658 different positions

Cytosine Methylation after Extraction

Total C's analysed 1353399
Methylated C's in CpG context 16221
Methylated C's in CHG context 1001
Methylated C's in CHH context 4482
Unmethylated C's in CpG context 152373
Unmethylated C's in CHG context 225562
Unmethylated C's in CHH context 953760
Percentage methylation (CpG context) 9.6%
Percentage methylation (CHG context) 0.4%
Percentage methylation (CHH context) 0.5%

M-Bias Plot