Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg-big/zr3644_15_R1.fq.gz and /gscratch/srlab/sr320/data/cg-big/zr3644_15_R2.fq.gz

Data processed at 23:10:08 on 2021-06-09


Alignment Stats

Sequence pairs analysed in total 100000
Paired-end alignments with a unique best hit 61418
Pairs without alignments under any condition 21905
Pairs that did not map uniquely 16677
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 2166668
Methylated C's in CpG context 30900
Methylated C's in CHG context 1839
Methylated C's in CHH context 7454
Methylated C's in Unknown context 91
Unmethylated C's in CpG context 248157
Unmethylated C's in CHG context 374324
Unmethylated C's in CHH context 1503994
Unmethylated C's in Unknown context 5309
Percentage methylation (CpG context) 11.1%
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 15110 original top strand
CTOT 15436 complementary to original top strand
CTOB 15403 complementary to original bottom strand
OB 15469 original bottom strand

Deduplication

Alignments analysed 61418
Unique alignments 57436
Duplicates removed 3982
Duplicated alignments were found at 3767 different positions

Cytosine Methylation after Extraction

Total C's analysed 1385235
Methylated C's in CpG context 19228
Methylated C's in CHG context 1169
Methylated C's in CHH context 4747
Unmethylated C's in CpG context 157318
Unmethylated C's in CHG context 237701
Unmethylated C's in CHH context 965072
Percentage methylation (CpG context) 10.9%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%

M-Bias Plot