Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/olurida-bs/3_TTAGGC_L001_R1_001_trimmed.fq.gz

Data processed at 10:55:55 on 2021-06-14


Alignment Stats

Sequences analysed in total 11555321
Single-end alignments with a unique best hit 5436861
Sequences without alignments under any condition 173630
Sequences that did not map uniquely 5944830
Genomic sequence context not extractable (edges of chromosomes) 3707

Cytosine Methylation

Total C's analysed 30884657
Methylated C's in CpG context 1070977
Methylated C's in CHG context 141123
Methylated C's in CHH context 3362649
Methylated C's in Unknown context 59075
Unmethylated C's in CpG context 2690299
Unmethylated C's in CHG context 4839624
Unmethylated C's in CHH context 18779985
Unmethylated C's in Unknown context 102723
Percentage methylation (CpG context) 28.5%
Percentage methylation (CHG context) 2.8%
Percentage methylation (CHH context) 15.2%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 2126775 original top strand
CTOT 592511 complementary to original top strand
CTOB 594260 complementary to original bottom strand
OB 2119608 original bottom strand

Deduplication

Alignments analysed 5433154
Unique alignments 4686287
Duplicates removed 746867
Duplicated alignments were found at 396789 different positions

Cytosine Methylation after Extraction

Total C's analysed 26424291
Methylated C's in CpG context 908872
Methylated C's in CHG context 109325
Methylated C's in CHH context 2698694
Unmethylated C's in CpG context 2196441
Unmethylated C's in CHG context 4131710
Unmethylated C's in CHH context 16379249
Percentage methylation (CpG context) 29.3%
Percentage methylation (CHG context) N/A%
Percentage methylation (CHH context) N/A%

M-Bias Plot