Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/olurida-bs/decomp//zr1394_18_s456_trimmed.fq

Data processed at 21:26 on 2022-09-14


Alignment Stats

Sequences analysed in total 55048106
Single-end alignments with a unique best hit 48702
Sequences without alignments under any condition 54952474
Sequences that did not map uniquely 46930
Genomic sequence context not extractable (edges of chromosomes) 0
0.0885%99.8%0.0853%0%
Unique AlignmentsNo AlignmentMultiple AlignmentsNo Genomic Sequence

Cytosine Methylation

Total C's analysed 442168
Methylated C's in CpG context 9975
Methylated C's in CHG context 6531
Methylated C's in CHH context 96836
Methylated C's in Unknown context 0
Unmethylated C's in CpG context 14995
Unmethylated C's in CHG context 29693
Unmethylated C's in CHH context 284138
Unmethylated C's in Unknown context 0
Percentage methylation (CpG context) 39.9%
Percentage methylation (CHG context) 18.0%
Percentage methylation (CHH context) 25.4%
Methylated C's in Unknown context N/A%
CpG contextCHG contextCHH context020406080100
% Methylation

Alignment to Individual Bisulfite Strands

OT 11572 original top strand
CTOT 16227 complementary to original top strand
CTOB 12191 complementary to original bottom strand
OB 8712 original bottom strand
OTCTOTCTOBOB02k4k6k8k10k12k14k16k
Number of Alignments

Deduplication

Alignments analysed 48702
Unique alignments 20726
Duplicates removed 27976
Duplicated alignments were found at 4284 different positions
42.6%57.4%
Unique AlignmentsDuplicate Alignments

Cytosine Methylation after Extraction

Total C's analysed 157094
Methylated C's in CpG context 6042
Methylated C's in CHG context 2860
Methylated C's in CHH context 33534
Unmethylated C's in CpG context 9513
Unmethylated C's in CHG context 13513
Unmethylated C's in CHH context 91632
Percentage methylation (CpG context) 38.8%
Percentage methylation (CHG context) 17.5%
Percentage methylation (CHH context) 26.8%
CpG contextCHH contextCHG context020406080100
% Methylation

M-Bias Plot

51015202530020406080100010002000300040005000
CpG methylationCHG methylationCHH methylationCpG total callsCHG total callsCHH total callsRead 1Position in Read [bp]% Methylation# Methylation Calls